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{{short description|Genus of bacteria}}
{{short description|Genus of bacteria}}
{{cs1 config|name-list-style=vanc}}
{{about|the bacteria|the disease caused by such bacteria|Salmonellosis}}
{{about|the bacteria|the disease caused by such bacteria|Salmonellosis}}
{{Distinguish|Salmon}}
{{Distinguish|Salmon}}
{{cs1 config|name-list-style=vanc}}
{{Automatic taxobox
{{Automatic taxobox
| image = SalmonellaNIAID.jpg
| image = SalmonellaNIAID.jpg
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| subdivision_ranks = Species and subspecies
| subdivision_ranks = Species and subspecies
| subdivision_ref = <ref>{{cite web|author1=<!-- not stated -->|title=''Salmonella''|url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=590&lvl=3&keep=1&srchmode=1&unlock|website=NCBI taxonomy|publisher=National Center for Biotechnology Information|access-date=27 January 2019|location=Bethesda, MD}}</ref>
| subdivision_ref = <ref>{{cite web|author1=<!-- not stated -->|title=''Salmonella''|url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=590&lvl=3&keep=1&srchmode=1&unlock|website=NCBI taxonomy|publisher=National Center for Biotechnology Information|access-date=27 January 2019|location=Bethesda, MD}}</ref>
| subdivision = * ''[[Salmonella bongori]]'' <small></small>
| subdivision = * ''[[Salmonella bongori]]''  
* ''[[Salmonella enterica]]'' <small></small>
* ''[[Salmonella enterica]]''  
** ''Salmonella enterica'' subsp. ''arizonae'' <small></small>
** ''Salmonella enterica'' subsp. ''arizonae''  
** ''Salmonella enterica'' subsp. ''diarizonae'' <small></small>
** ''Salmonella enterica'' subsp. ''diarizonae''  
** [[Salmonella enterica subsp. enterica|''Salmonella enterica'' subsp. ''enterica'']] <small></small>
** [[Salmonella enterica subsp. enterica|''Salmonella enterica'' subsp. ''enterica'']]  
** ''Salmonella enterica'' subsp. ''houtenae'' <small></small>
** ''Salmonella enterica'' subsp. ''houtenae''  
** ''Salmonella enterica'' subsp. ''indica'' <small></small>
** ''Salmonella enterica'' subsp. ''indica''  
** ''Salmonella enterica'' subsp. ''salamae'' <small></small>
** ''Salmonella enterica'' subsp. ''salamae''  
}}
}}


'''''Salmonella''''' is a [[genus]] of [[bacillus (shape)|rod-shaped]], (bacillus) [[Gram-negative bacteria]] of the family [[Enterobacteriaceae]]. The two known species of ''Salmonella'' are ''[[Salmonella enterica]]'' and ''[[Salmonella bongori]]''. ''S.&nbsp;enterica'' is the [[type species]] and is further divided into six [[subspecies]]<ref name=Su>{{cite journal | vauthors = Su LH, Chiu CH | title = Salmonella: clinical importance and evolution of nomenclature | journal = Chang Gung Medical Journal | volume = 30 | issue = 3 | pages = 210–219 | date = 2007 | pmid = 17760271 }}</ref><ref name=":3">{{cite journal | vauthors = Ryan MP, O'Dwyer J, Adley CC | title = Evaluation of the Complex Nomenclature of the Clinically and Veterinary Significant Pathogen ''Salmonella'' | journal = BioMed Research International | volume = 2017 | page = 3782182 | date = 2017 | pmid = 28540296 | pmc = 5429938 | doi = 10.1155/2017/3782182 | doi-access = free }}</ref> that include over 2,650 [[serotype]]s.<ref>{{cite journal | vauthors = Gal-Mor O, Boyle EC, Grassl GA | title = Same species, different diseases: how and why typhoidal and non-typhoidal Salmonella enterica serovars differ | journal = Frontiers in Microbiology | volume = 5 | page = 391 | date = 2014 | pmid = 25136336 | pmc = 4120697 | doi = 10.3389/fmicb.2014.00391 | doi-access = free }}</ref> ''Salmonella'' was named after [[Daniel Elmer Salmon]] (1850–1914), an American [[veterinary surgeon]].
'''''Salmonella''''' is a [[genus]] of [[bacillus (shape)|rod-shaped]], (bacillus) [[Gram-negative bacteria]] of the family [[Enterobacteriaceae]]. The two known species of ''Salmonella'' are ''[[Salmonella enterica]]'' and ''[[Salmonella bongori]]''. ''S.&nbsp;enterica'' is the [[type species]] and is further divided into six [[subspecies]]<ref name=Su>{{cite journal | vauthors = Su LH, Chiu CH | title = Salmonella: clinical importance and evolution of nomenclature | journal = Chang Gung Medical Journal | volume = 30 | issue = 3 | pages = 210–219 | date = 2007 | pmid = 17760271 }}</ref><ref name=":3">{{cite journal | vauthors = Ryan MP, O'Dwyer J, Adley CC | title = Evaluation of the Complex Nomenclature of the Clinically and Veterinary Significant Pathogen ''Salmonella'' | journal = BioMed Research International | volume = 2017 | article-number = 3782182 | date = 2017 | pmid = 28540296 | pmc = 5429938 | doi = 10.1155/2017/3782182 | doi-access = free }}</ref> that include over 2,650 [[serotype]]s.<ref>{{cite journal | vauthors = Gal-Mor O, Boyle EC, Grassl GA | title = Same species, different diseases: how and why typhoidal and non-typhoidal Salmonella enterica serovars differ | journal = Frontiers in Microbiology | volume = 5 | page = 391 | date = 2014 | pmid = 25136336 | pmc = 4120697 | doi = 10.3389/fmicb.2014.00391 | doi-access = free }}</ref> ''Salmonella'' was named after [[Daniel Elmer Salmon]] (1850–1914), an American [[veterinary surgeon]].


''Salmonella'' species are non-[[Endospore|spore]]-forming, predominantly [[motility|motile]] [[enterobacteriaceae|enterobacteria]] with cell diameters between about 0.7 and 1.5&nbsp;[[micrometre|μm]], lengths from 2 to 5&nbsp;μm, and peritrichous [[flagella]] (all around the cell body, allowing them to move).<ref name="Fabrega2013">{{cite journal | vauthors = Fàbrega A, Vila J | title = Salmonella enterica serovar Typhimurium skills to succeed in the host: virulence and regulation | journal = Clinical Microbiology Reviews | volume = 26 | issue = 2 | pages = 308–341 | date = April 2013 | pmid = 23554419 | pmc = 3623383 | doi = 10.1128/CMR.00066-12 }}</ref> They are [[chemotrophs]], obtaining their energy from [[Redox|oxidation and reduction reactions]], using organic sources. They are also [[facultative aerobic organism|facultative anaerobes]], capable of generating [[adenosine triphosphate]] with [[oxygen]] ("aerobically") when it is available, or using other [[electron acceptor]]s or [[fermentation]] ("anaerobically") when oxygen is not available.<ref name=Fabrega2013 />
''Salmonella'' species are non-[[Endospore|spore]]-forming, predominantly [[motility|motile]] [[enterobacteriaceae|enterobacteria]] with cell diameters between about 0.7 and 1.5&nbsp;[[micrometre|μm]], lengths from 2 to 5&nbsp;μm, and peritrichous [[flagella]] (all around the cell body, allowing them to move).<ref name="Fabrega2013">{{cite journal | vauthors = Fàbrega A, Vila J | title = Salmonella enterica serovar Typhimurium skills to succeed in the host: virulence and regulation | journal = Clinical Microbiology Reviews | volume = 26 | issue = 2 | pages = 308–341 | date = April 2013 | pmid = 23554419 | pmc = 3623383 | doi = 10.1128/CMR.00066-12 }}</ref> They are [[chemotrophs]], obtaining their energy from [[Redox|oxidation and reduction reactions]], using organic sources. They are also [[facultative aerobic organism|facultative anaerobes]], capable of generating [[adenosine triphosphate]] with [[oxygen]] ("aerobically") when it is available, or using other [[electron acceptor]]s or [[fermentation]] ("anaerobically") when oxygen is not available.<ref name=Fabrega2013 />
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Serotyping is done by mixing cells with antibodies for a particular antigen. It can give some idea about risk. A 2014 study showed that ''S.'' Reading is very common among young [[turkey (bird)|turkey]] samples, but it is not a significant contributor to human salmonellosis.<ref name=":0">{{cite web|url=https://www.fsis.usda.gov/sites/default/files/media_file/2020-10/Salmonella-Serotype-Annual-2014.pdf|title=Serotypes Profile of Salmonella Isolates from Meat and Poultry Products, January 1998 through December 2014}}</ref> Serotyping can assist in identifying the source of contamination by matching serotypes in people with serotypes in the suspected source of infection.<ref name=":1">{{cite web|url=https://www.cdc.gov/foodsafety/outbreaks/investigating-outbreaks/investigations/index.html|title=Steps in a Foodborne Outbreak Investigation|date=2018-11-09}}</ref>  Appropriate prophylactic treatment can be identified from the known antibiotic resistance of the serotype.<ref name=":2">{{cite journal | vauthors = Yoon KB, Song BJ, Shin MY, Lim HC, Yoon YH, Jeon DY, Ha H, Yang SI, Kim JB | title = Antibiotic Resistance Patterns and Serotypes of ''Salmonella'' spp. Isolated at Jeollanam-do in Korea | journal = Osong Public Health and Research Perspectives | volume = 8 | issue = 3 | pages = 211–219 | date = June 2017 | pmid = 28781944 | pmc = 5525558 | doi = 10.24171/j.phrp.2017.8.3.08 }}</ref>
Serotyping is done by mixing cells with antibodies for a particular antigen. It can give some idea about risk. A 2014 study showed that ''S.'' Reading is very common among young [[turkey (bird)|turkey]] samples, but it is not a significant contributor to human salmonellosis.<ref name=":0">{{cite web|url=https://www.fsis.usda.gov/sites/default/files/media_file/2020-10/Salmonella-Serotype-Annual-2014.pdf|title=Serotypes Profile of Salmonella Isolates from Meat and Poultry Products, January 1998 through December 2014}}</ref> Serotyping can assist in identifying the source of contamination by matching serotypes in people with serotypes in the suspected source of infection.<ref name=":1">{{cite web|url=https://www.cdc.gov/foodsafety/outbreaks/investigating-outbreaks/investigations/index.html|title=Steps in a Foodborne Outbreak Investigation|date=2018-11-09}}</ref>  Appropriate prophylactic treatment can be identified from the known antibiotic resistance of the serotype.<ref name=":2">{{cite journal | vauthors = Yoon KB, Song BJ, Shin MY, Lim HC, Yoon YH, Jeon DY, Ha H, Yang SI, Kim JB | title = Antibiotic Resistance Patterns and Serotypes of ''Salmonella'' spp. Isolated at Jeollanam-do in Korea | journal = Osong Public Health and Research Perspectives | volume = 8 | issue = 3 | pages = 211–219 | date = June 2017 | pmid = 28781944 | pmc = 5525558 | doi = 10.24171/j.phrp.2017.8.3.08 }}</ref>


Newer methods of "serotyping" include xMAP and [[real-time PCR]], two methods based on DNA sequences instead of antibody reactions. These methods can be potentially faster, thanks to advances in sequencing technology. These "molecular serotyping" systems actually perform [[Genotyping by sequencing|genotyping]] of the genes that determine surface antigens.<ref>{{cite journal | vauthors = Luo Y, Huang C, Ye J, Octavia S, Wang H, Dunbar SA, Jin D, Tang YW, Lan R | title = Comparison of xMAP ''Salmonella'' Serotyping Assay With Traditional Serotyping and Discordance Resolution by Whole Genome Sequencing | journal = Frontiers in Cellular and Infection Microbiology | volume = 10 | page = 452 | date = 2020-09-07 | pmid = 33014887 | pmc = 7504902 | doi = 10.3389/fcimb.2020.00452 | doi-access = free }}</ref><ref>{{cite journal | vauthors = Nair S, Patel V, Hickey T, Maguire C, Greig DR, Lee W, Godbole G, Grant K, Chattaway MA | title = Real-Time PCR Assay for Differentiation of Typhoidal and Nontyphoidal ''Salmonella'' | journal = Journal of Clinical Microbiology | volume = 57 | issue = 8 | pages = e00167–19 | date = August 2019 | pmid = 31167843 | pmc = 6663909 | doi = 10.1128/JCM.00167-19 | veditors = Ledeboer NA }}</ref>
Newer methods of "serotyping" include xMAP and [[real-time PCR]], two methods based on DNA sequences instead of antibody reactions. These methods can be potentially faster, thanks to advances in sequencing technology. These "molecular serotyping" systems actually perform [[Genotyping by sequencing|genotyping]] of the genes that determine surface antigens.<ref>{{cite journal | vauthors = Luo Y, Huang C, Ye J, Octavia S, Wang H, Dunbar SA, Jin D, Tang YW, Lan R | title = Comparison of xMAP ''Salmonella'' Serotyping Assay With Traditional Serotyping and Discordance Resolution by Whole Genome Sequencing | journal = Frontiers in Cellular and Infection Microbiology | volume = 10 | page = 452 | date = 2020-09-07 | pmid = 33014887 | pmc = 7504902 | doi = 10.3389/fcimb.2020.00452 | doi-access = free }}</ref><ref>{{cite journal | vauthors = Nair S, Patel V, Hickey T, Maguire C, Greig DR, Lee W, Godbole G, Grant K, Chattaway MA | title = Real-Time PCR Assay for Differentiation of Typhoidal and Nontyphoidal ''Salmonella'' | journal = Journal of Clinical Microbiology | volume = 57 | issue = 8 |article-number=e00167–19 | date = August 2019 | pmid = 31167843 | pmc = 6663909 | doi = 10.1128/JCM.00167-19 | veditors = Ledeboer NA }}</ref>


== Detection, culture, and growth conditions ==
== Detection, culture, and growth conditions ==
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''Salmonella'' species lead predominantly host-associated lifestyles, but the bacteria were found to be able to persist in a bathroom setting for weeks following contamination, and are frequently isolated from water sources, which act as bacterial reservoirs and may help to facilitate transmission between hosts.<ref>{{cite journal | vauthors = Winfield MD, Groisman EA | title = Role of nonhost environments in the lifestyles of Salmonella and Escherichia coli | journal = Applied and Environmental Microbiology | volume = 69 | issue = 7 | pages = 3687–3694 | date = July 2003 | pmid = 12839733 | pmc = 165204 | doi = 10.1128/aem.69.7.3687-3694.2003 | bibcode = 2003ApEnM..69.3687W }}</ref> ''Salmonella'' is notorious for its ability to survive desiccation and can persist for years in dry environments and foods.<ref>{{cite journal | vauthors = Mandal RK, Kwon YM | title = Global Screening of ''Salmonella enterica'' Serovar Typhimurium Genes for Desiccation Survival | journal = Frontiers in Microbiology | volume = 8 | issue = 1723 | page = 1723 | date = 8 September 2017 | pmid = 28943871 | pmc = 5596212 | doi = 10.3389/fmicb.2017.01723 | doi-access = free }}</ref>
''Salmonella'' species lead predominantly host-associated lifestyles, but the bacteria were found to be able to persist in a bathroom setting for weeks following contamination, and are frequently isolated from water sources, which act as bacterial reservoirs and may help to facilitate transmission between hosts.<ref>{{cite journal | vauthors = Winfield MD, Groisman EA | title = Role of nonhost environments in the lifestyles of Salmonella and Escherichia coli | journal = Applied and Environmental Microbiology | volume = 69 | issue = 7 | pages = 3687–3694 | date = July 2003 | pmid = 12839733 | pmc = 165204 | doi = 10.1128/aem.69.7.3687-3694.2003 | bibcode = 2003ApEnM..69.3687W }}</ref> ''Salmonella'' is notorious for its ability to survive desiccation and can persist for years in dry environments and foods.<ref>{{cite journal | vauthors = Mandal RK, Kwon YM | title = Global Screening of ''Salmonella enterica'' Serovar Typhimurium Genes for Desiccation Survival | journal = Frontiers in Microbiology | volume = 8 | issue = 1723 | page = 1723 | date = 8 September 2017 | pmid = 28943871 | pmc = 5596212 | doi = 10.3389/fmicb.2017.01723 | doi-access = free }}</ref>


The bacteria are not destroyed by freezing,<ref>{{cite journal | vauthors = Sorrells KM, Speck ML, Warren JA | title = Pathogenicity of Salmonella gallinarum after metabolic injury by freezing | journal = Applied Microbiology | volume = 19 | issue = 1 | pages = 39–43 | date = January 1970 | pmid = 5461164 | pmc = 376605 | doi = 10.1128/AEM.19.1.39-43.1970 | quote = Mortality differences between wholly uninjured and predominantly injured populations were small and consistent (5% level) with a hypothesis of no difference. }}</ref><ref>{{cite journal | vauthors = Beuchat LR, Heaton EK | title = Salmonella survival on pecans as influenced by processing and storage conditions | journal = Applied Microbiology | volume = 29 | issue = 6 | pages = 795–801 | date = June 1975 | pmid = 1098573 | pmc = 187082 | doi = 10.1128/AEM.29.6.795-801.1975 | quote = Little decrease in viable population of the three species was noted on inoculated pecan halves stored at -18, -7, and 5°C for 32 weeks. }}</ref> but [[Ultraviolet radiation|UV light]] and heat accelerate their destruction. They perish after being heated to {{Convert|55|°C|°F}} for 90 min, or to {{Convert|60|°C|°F}} for 12 min,<ref>{{cite journal | vauthors = Goodfellow SJ, Brown WL | title = Fate of Salmonella Inoculated into Beef for Cooking | journal = Journal of Food Protection | volume = 41 | issue = 8 | pages = 598–605 | date = August 1978 | pmid = 30795117 | doi = 10.4315/0362-028x-41.8.598 | doi-access = free }}</ref> although if inoculated in high fat, high liquid substances like peanut butter, they gain heat resistance and can survive up to {{Convert|90|°C|°F}} for 30 min.<ref>{{cite journal | vauthors = Ma L, Zhang G, Gerner-Smidt P, Mantripragada V, Ezeoke I, Doyle MP | title = Thermal inactivation of Salmonella in peanut butter | journal = Journal of Food Protection | volume = 72 | issue = 8 | pages = 1596–1601 | date = August 2009 | pmid = 19722389 | doi = 10.4315/0362-028x-72.8.1596 | doi-access = free }}</ref> To protect against ''Salmonella'' infection, heating food to an internal temperature of {{Convert|75|°C|°F}} is recommended.<ref>[[Partnership for Food Safety Education]] (PFSE) [http://www.fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf Fight BAC! Basic Brochure] {{webarchive|url=https://web.archive.org/web/20130831023121/http://fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf |archive-url=https://ghostarchive.org/archive/20221009/http://fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf |archive-date=2022-10-09 |url-status=live |date=2013-08-31 }}.</ref><ref>[[USDA]] [http://www.fsis.usda.gov/PDF/Internal_Cooking_Temperatures_CFG.pdf Internal Cooking Temperatures Chart] {{webarchive|url=https://web.archive.org/web/20120503005430/http://www.fsis.usda.gov/PDF/Internal_Cooking_Temperatures_CFG.pdf |date=2012-05-03 }}. The USDA has other resources available at their [http://www.fsis.usda.gov/fact_sheets/Safe_Food_Handling_Fact_Sheets/index.asp Safe Food Handling] {{webarchive|url=https://web.archive.org/web/20130605150819/http://www.fsis.usda.gov/Fact_sheets/Safe_Food_Handling_Fact_Sheets/index.asp |date=2013-06-05 }} fact-sheet page. See also the [http://www.uga.edu/nchfp/index.html National Center for Home Food Preservation].</ref>
The bacteria are not destroyed by freezing,<ref>{{cite journal | vauthors = Sorrells KM, Speck ML, Warren JA | title = Pathogenicity of Salmonella gallinarum after metabolic injury by freezing | journal = Applied Microbiology | volume = 19 | issue = 1 | pages = 39–43 | date = January 1970 | pmid = 5461164 | pmc = 376605 | doi = 10.1128/AEM.19.1.39-43.1970 | quote = Mortality differences between wholly uninjured and predominantly injured populations were small and consistent (5% level) with a hypothesis of no difference. }}</ref><ref>{{cite journal | vauthors = Beuchat LR, Heaton EK | title = Salmonella survival on pecans as influenced by processing and storage conditions | journal = Applied Microbiology | volume = 29 | issue = 6 | pages = 795–801 | date = June 1975 | pmid = 1098573 | pmc = 187082 | doi = 10.1128/AEM.29.6.795-801.1975 | quote = Little decrease in viable population of the three species was noted on inoculated pecan halves stored at -18, -7, and 5°C for 32 weeks. }}</ref> but [[Ultraviolet radiation|UV light]] and heat accelerate their destruction. They perish after being heated to {{Convert|55|°C|°F}} for 90 min, or to {{Convert|60|°C|°F}} for 12 min,<ref>{{cite journal | vauthors = Goodfellow SJ, Brown WL | title = Fate of Salmonella Inoculated into Beef for Cooking | journal = Journal of Food Protection | volume = 41 | issue = 8 | pages = 598–605 | date = August 1978 | pmid = 30795117 | doi = 10.4315/0362-028x-41.8.598 | doi-access = free }}</ref> although if inoculated in high fat, high liquid substances like peanut butter, they gain heat resistance and can survive up to {{Convert|90|°C|°F}} for 30 min.<ref>{{cite journal | vauthors = Ma L, Zhang G, Gerner-Smidt P, Mantripragada V, Ezeoke I, Doyle MP | title = Thermal inactivation of Salmonella in peanut butter | journal = Journal of Food Protection | volume = 72 | issue = 8 | pages = 1596–1601 | date = August 2009 | pmid = 19722389 | doi = 10.4315/0362-028x-72.8.1596 | doi-access = free }}</ref> To protect against ''Salmonella'' infection, heating food to an internal temperature of {{Convert|75|°C|°F}} is recommended.<ref>[[Partnership for Food Safety Education]] (PFSE) [http://www.fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf Fight BAC! Basic Brochure] {{webarchive|url=https://web.archive.org/web/20130831023121/http://fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf |archive-url=https://ghostarchive.org/archive/20221009/http://fightbac.org/storage/documents/flyers/fightbac_color_brochure.pdf |archive-date=2022-10-09 |url-status=live |date=2013-08-31 }}.</ref><ref>[[USDA]] [http://www.fsis.usda.gov/PDF/Internal_Cooking_Temperatures_CFG.pdf Internal Cooking Temperatures Chart] {{webarchive|url=https://web.archive.org/web/20120503005430/http://www.fsis.usda.gov/PDF/Internal_Cooking_Temperatures_CFG.pdf |date=2012-05-03 }}. The USDA has other resources available at their [http://www.fsis.usda.gov/fact_sheets/Safe_Food_Handling_Fact_Sheets/index.asp Safe Food Handling] {{webarchive|url=https://web.archive.org/web/20130605150819/http://www.fsis.usda.gov/Fact_sheets/Safe_Food_Handling_Fact_Sheets/index.asp |date=2013-06-05 }} fact-sheet page. See also the [http://www.uga.edu/nchfp/index.html National Center for Home Food Preservation] {{Webarchive|url=https://web.archive.org/web/20111024201857/http://www.uga.edu/nchfp/index.html |date=2011-10-24 }}.</ref>


''Salmonella'' species can be found in the digestive tracts of humans and animals, especially reptiles. ''Salmonella'' on the skin of reptiles or amphibians can be passed to people who handle the animals.<ref>{{cite web|url = https://www.cdc.gov/Features/SalmonellaFrogTurtle/index.html|title = Reptiles, Amphibians, and Salmonella|date = 25 November 2013|access-date = 3 August 2013|website = Centers for Disease Control and Prevention|publisher = U.S. Department of Health & Human Services}}</ref> Food and water can also be contaminated with the bacteria if they come in contact with the feces of infected people or animals.<ref name=Barbara2003>{{cite journal | vauthors = Goldrick BA | title = Foodborne diseases | journal = The American Journal of Nursing | volume = 103 | issue = 3 | pages = 105–106 | date = March 2003 | pmid = 12635640 | doi = 10.1097/00000446-200303000-00043 }}</ref>
''Salmonella'' species can be found in the digestive tracts of humans and animals, especially reptiles. ''Salmonella'' on the skin of reptiles or amphibians can be passed to people who handle the animals.<ref>{{cite web|url = https://www.cdc.gov/Features/SalmonellaFrogTurtle/index.html|title = Reptiles, Amphibians, and Salmonella|date = 25 November 2013|access-date = 3 August 2013|website = Centers for Disease Control and Prevention|publisher = U.S. Department of Health & Human Services}}</ref> Food and water can also be contaminated with the bacteria if they come in contact with the feces of infected people or animals.<ref name=Barbara2003>{{cite journal | vauthors = Goldrick BA | title = Foodborne diseases | journal = The American Journal of Nursing | volume = 103 | issue = 3 | pages = 105–106 | date = March 2003 | pmid = 12635640 | doi = 10.1097/00000446-200303000-00043 }}</ref>
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Initially, each ''Salmonella'' "species" was named according to clinical consideration, for example ''Salmonella typhi-murium'' (mouse-typhoid), ''S. cholerae-suis'' (pig-cholera). After host specificity was recognized not to exist for many species, new strains received species names according to the location at which the new strain was isolated.<ref>{{cite book |first=F. |last=Kauffmann |title=Die Bakteriologie der Salmonella-Gruppe |publisher=Munksgaard |location=Kopenhagen |year=1941 |oclc=3198699 }}</ref>
Initially, each ''Salmonella'' "species" was named according to clinical consideration, for example ''Salmonella typhi-murium'' (mouse-typhoid), ''S. cholerae-suis'' (pig-cholera). After host specificity was recognized not to exist for many species, new strains received species names according to the location at which the new strain was isolated.<ref>{{cite book |first=F. |last=Kauffmann |title=Die Bakteriologie der Salmonella-Gruppe |publisher=Munksgaard |location=Kopenhagen |year=1941 |oclc=3198699 }}</ref>


In 1987, Le Minor and Popoff used molecular findings to argue that ''Salmonella'' consisted of only one species, ''[[Salmonella enterica|S. enterica]]'', turning former "species" names into [[serotypes]].<ref>{{cite journal | vauthors = Le Minor L, Popoff MY | year = 1987 | title = Request for an Opinion: Designation of ''Salmonella enterica'' sp. nov., nom. rev., as the type and only species of the genus ''Salmonella'' | journal = Int. J. Syst. Bacteriol. | volume = 37 | issue = 4| pages = 465–468 | doi=10.1099/00207713-37-4-465| doi-access = free }}</ref> In 1989, Reeves ''et al.'' proposed that the serotype V should remain its own species, resurrecting the name ''[[Salmonella bongori|S. bongori]]''.<ref>{{cite journal | vauthors = Reeves MW, Evins GM, Heiba AA, Plikaytis BD, Farmer JJ | title = Clonal nature of Salmonella typhi and its genetic relatedness to other salmonellae as shown by multilocus enzyme electrophoresis, and proposal of Salmonella bongori comb. nov | journal = Journal of Clinical Microbiology | volume = 27 | issue = 2 | pages = 313–320 | date = February 1989 | pmid = 2915026 | pmc = 267299 | doi = 10.1128/JCM.27.2.313-320.1989 }}</ref> The current (by 2005) nomenclature has thus taken shape, with six recognised subspecies under ''S. enterica'': ''enterica'' (serotype I), ''salamae'' (serotype II), ''arizonae'' (IIIa), ''diarizonae'' (IIIb), ''houtenae'' (IV), and ''indica'' (VI).<ref name=":3" /><ref>Janda JM, Abbott SL (2006). "The Enterobacteria", ASM Press.</ref><ref>{{cite journal | title = The type species of the genus Salmonella Lignieres 1900 is Salmonella enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987, with the type strain LT2T, and conservation of the epithet enterica in Salmonella enterica over all earlier epithets that may be applied to this species. Opinion 80 | journal = International Journal of Systematic and Evolutionary Microbiology | volume = 55 | issue = Pt 1 | pages = 519–520 | date = January 2005 | pmid = 15653929 | doi = 10.1099/ijs.0.63579-0 | doi-access = free | author1 = Judicial Commission Of The International Committee On Systematics Of Prokaryotes }}</ref><ref>{{cite journal | vauthors = Tindall BJ, Grimont PA, Garrity GM, Euzéby JP | title = Nomenclature and taxonomy of the genus Salmonella | journal = International Journal of Systematic and Evolutionary Microbiology | volume = 55 | issue = Pt 1 | pages = 521–524 | date = January 2005 | pmid = 15653930 | doi = 10.1099/ijs.0.63580-0 | doi-access = free }}</ref> As specialists in infectious disease are not familiar with the new nomenclature, the traditional nomenclature remains common.{{cn|date=November 2023}}
In 1987, Le Minor and Popoff used molecular findings to argue that ''Salmonella'' consisted of only one species, ''[[Salmonella enterica|S. enterica]]'', turning former "species" names into [[serotypes]].<ref>{{cite journal | vauthors = Le Minor L, Popoff MY | year = 1987 | title = Request for an Opinion: Designation of ''Salmonella enterica'' sp. nov., nom. rev., as the type and only species of the genus ''Salmonella'' | journal = Int. J. Syst. Bacteriol. | volume = 37 | issue = 4| pages = 465–468 | doi=10.1099/00207713-37-4-465| doi-access = free }}</ref> In 1989, Reeves ''et al.'' proposed that the serotype V should remain its own species, resurrecting the name ''[[Salmonella bongori|S. bongori]]''.<ref>{{cite journal | vauthors = Reeves MW, Evins GM, Heiba AA, Plikaytis BD, Farmer JJ | title = Clonal nature of Salmonella typhi and its genetic relatedness to other salmonellae as shown by multilocus enzyme electrophoresis, and proposal of Salmonella bongori comb. nov | journal = Journal of Clinical Microbiology | volume = 27 | issue = 2 | pages = 313–320 | date = February 1989 | pmid = 2915026 | pmc = 267299 | doi = 10.1128/JCM.27.2.313-320.1989 }}</ref> The current (by 2005) nomenclature has thus taken shape, with six recognised subspecies under ''S. enterica'': ''enterica'' (serotype I), ''salamae'' (serotype II), ''arizonae'' (IIIa), ''diarizonae'' (IIIb), ''houtenae'' (IV), and ''indica'' (VI).<ref name=":3" /><ref>Janda JM, Abbott SL (2006). "The Enterobacteria", ASM Press.</ref><ref>{{cite journal | title = The type species of the genus Salmonella Lignieres 1900 is Salmonella enterica (ex Kauffmann and Edwards 1952) Le Minor and Popoff 1987, with the type strain LT2T, and conservation of the epithet enterica in Salmonella enterica over all earlier epithets that may be applied to this species. Opinion 80 | journal = International Journal of Systematic and Evolutionary Microbiology | volume = 55 | issue = Pt 1 | pages = 519–520 | date = January 2005 | pmid = 15653929 | doi = 10.1099/ijs.0.63579-0 | doi-access = free | author1 = Judicial Commission Of The International Committee On Systematics Of Prokaryotes }}</ref><ref>{{cite journal | vauthors = Tindall BJ, Grimont PA, Garrity GM, Euzéby JP | title = Nomenclature and taxonomy of the genus Salmonella | journal = International Journal of Systematic and Evolutionary Microbiology | volume = 55 | issue = Pt 1 | pages = 521–524 | date = January 2005 | pmid = 15653930 | doi = 10.1099/ijs.0.63580-0 | doi-access = free }}</ref> As specialists in infectious disease are not familiar with the new nomenclature, the traditional nomenclature remains common.{{citation needed|date=November 2023}}


The serotype or serovar is a classification of ''Salmonella'' based on antigens that the organism presents. The [[Kauffman–White classification]] scheme differentiates serological varieties from each other. Serotypes are usually put into subspecies groups after the genus and species, with the serotypes/serovars capitalized, but not italicized:  An example is ''Salmonella enterica'' serovar Typhimurium. More modern approaches for typing and subtyping ''Salmonella'' include DNA-based methods such as [[pulsed field gel electrophoresis]], [[Multiple Loci VNTR Analysis|multiple-loci VNTR analysis]], [[multilocus sequence typing]], and multiplex-[[Polymerase chain reaction|PCR]]-based methods.<ref name= PorwollikS>{{cite book | veditors = Porwollik S | year=2011 | title=Salmonella: From Genome to Function | publisher=[[Caister Academic Press]] | isbn= 978-1-904455-73-8}}</ref><ref name=Achtman2012>{{cite journal | vauthors = Achtman M, Wain J, Weill FX, Nair S, Zhou Z, Sangal V, Krauland MG, Hale JL, Harbottle H, Uesbeck A, Dougan G, Harrison LH, Brisse S | title = Multilocus sequence typing as a replacement for serotyping in Salmonella enterica | journal = PLOS Pathogens | volume = 8 | issue = 6 | pages = e1002776 | year = 2012 | pmid = 22737074 | pmc = 3380943 | doi = 10.1371/journal.ppat.1002776 | author-link11 = Gordon Dougan | author-link1 = Mark Achtman | doi-access = free }} {{open access}}</ref>
The serotype or serovar is a classification of ''Salmonella'' based on antigens that the organism presents. The [[Kauffman–White classification]] scheme differentiates serological varieties from each other. Serotypes are usually put into subspecies groups after the genus and species, with the serotypes/serovars capitalized, but not italicized:  An example is ''Salmonella enterica'' serovar Typhimurium. More modern approaches for typing and subtyping ''Salmonella'' include DNA-based methods such as [[pulsed field gel electrophoresis]], [[Multiple Loci VNTR Analysis|multiple-loci VNTR analysis]], [[multilocus sequence typing]], and multiplex-[[Polymerase chain reaction|PCR]]-based methods.<ref name= PorwollikS>{{cite book | veditors = Porwollik S | year=2011 | title=Salmonella: From Genome to Function | publisher=[[Caister Academic Press]] | isbn= 978-1-904455-73-8}}</ref><ref name=Achtman2012>{{cite journal | vauthors = Achtman M, Wain J, Weill FX, Nair S, Zhou Z, Sangal V, Krauland MG, Hale JL, Harbottle H, Uesbeck A, Dougan G, Harrison LH, Brisse S | title = Multilocus sequence typing as a replacement for serotyping in Salmonella enterica | journal = PLOS Pathogens | volume = 8 | issue = 6 | article-number = e1002776 | year = 2012 | pmid = 22737074 | pmc = 3380943 | doi = 10.1371/journal.ppat.1002776 | author-link11 = Gordon Dougan | author-link1 = Mark Achtman | doi-access = free }} {{open access}}</ref>


In 2005, a third species, ''Salmonella subterranea'', was proposed, but according to the [[World Health Organization]], the bacterium reported does not belong in the genus ''Salmonella''.<ref name=Pasteur>{{cite book |  vauthors = Grimont PA, Xavier Weill F |title=Antigenic Formulae of the Salmonella Serovars|date=2007|publisher=WHO Collaborating Centre for Reference and Research on Salmonella|location=Institut Pasteur, Paris, France|page=7|edition=9th|url=http://www.scacm.org/free/Antigenic%20Formulae%20of%20the%20Salmonella%20Serovars%202007%209th%20edition.pdf |archive-url=https://ghostarchive.org/archive/20221009/http://www.scacm.org/free/Antigenic%20Formulae%20of%20the%20Salmonella%20Serovars%202007%209th%20edition.pdf |archive-date=2022-10-09 |url-status=live|access-date=26 August 2015}}</ref> In 2016, ''S. subterranea'' was proposed to be assigned to ''[[Atlantibacter subterranea]]'',<ref>{{cite journal | vauthors = Hata H, Natori T, Mizuno T, Kanazawa I, Eldesouky I, Hayashi M, Miyata M, Fukunaga H, Ohji S, Hosoyama A, Aono E, Yamazoe A, Tsuchikane K, Fujita N, Ezaki T | title = Phylogenetics of family Enterobacteriaceae and proposal to reclassify Escherichia hermannii and Salmonella subterranea as Atlantibacter hermannii and Atlantibacter subterranea gen. nov., comb. nov | journal = Microbiology and Immunology | volume = 60 | issue = 5 | pages = 303–311 | date = May 2016 | pmid = 26970508 | doi = 10.1111/1348-0421.12374 | s2cid = 32594451 | doi-access = free }}</ref> but LPSN rejects it as an [[valid publication|invalid publication]], as it was made outside of IJSB and IJSEM.<ref>{{cite web |title=Species: Atlantibacter subterranea |url=https://lpsn.dsmz.de/species/atlantibacter-subterranea |website=lpsn.dsmz.de |language=en}}</ref> [[GTDB]] and NCBI agree with the 2016 reassignment.<ref>{{cite web |title=GTDB - Tree at g__Atlantibacter |url=https://gtdb.ecogenomic.org/tree?r=g__Atlantibacter |website=gtdb.ecogenomic.org}}</ref><ref>{{cite web |title=Taxonomy browser (Atlantibacter) |url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Undef&id=1903434&lvl=3&lin=f&keep=1&srchmode=1&unlock |website=www.ncbi.nlm.nih.gov}}</ref>
In 2005, a third species, ''Salmonella subterranea'', was proposed, but according to the [[World Health Organization]], the bacterium reported does not belong in the genus ''Salmonella''.<ref name=Pasteur>{{cite book |  vauthors = Grimont PA, Xavier Weill F |title=Antigenic Formulae of the Salmonella Serovars|date=2007|publisher=WHO Collaborating Centre for Reference and Research on Salmonella|location=Institut Pasteur, Paris, France|page=7|edition=9th|url=http://www.scacm.org/free/Antigenic%20Formulae%20of%20the%20Salmonella%20Serovars%202007%209th%20edition.pdf |archive-url=https://ghostarchive.org/archive/20221009/http://www.scacm.org/free/Antigenic%20Formulae%20of%20the%20Salmonella%20Serovars%202007%209th%20edition.pdf |archive-date=2022-10-09 |url-status=live|access-date=26 August 2015}}</ref> In 2016, ''S. subterranea'' was proposed to be assigned to ''[[Atlantibacter subterranea]]'',<ref>{{cite journal | vauthors = Hata H, Natori T, Mizuno T, Kanazawa I, Eldesouky I, Hayashi M, Miyata M, Fukunaga H, Ohji S, Hosoyama A, Aono E, Yamazoe A, Tsuchikane K, Fujita N, Ezaki T | title = Phylogenetics of family Enterobacteriaceae and proposal to reclassify Escherichia hermannii and Salmonella subterranea as Atlantibacter hermannii and Atlantibacter subterranea gen. nov., comb. nov | journal = Microbiology and Immunology | volume = 60 | issue = 5 | pages = 303–311 | date = May 2016 | pmid = 26970508 | doi = 10.1111/1348-0421.12374 | s2cid = 32594451 | doi-access = free }}</ref> but LPSN rejects it as an [[valid publication|invalid publication]], as it was made outside of IJSB and IJSEM.<ref>{{cite web |title=Species: Atlantibacter subterranea |url=https://lpsn.dsmz.de/species/atlantibacter-subterranea |website=lpsn.dsmz.de |language=en}}</ref> [[GTDB]] and NCBI agree with the 2016 reassignment.<ref>{{cite web |title=GTDB - Tree at g__Atlantibacter |url=https://gtdb.ecogenomic.org/tree?r=g__Atlantibacter |website=gtdb.ecogenomic.org}}</ref><ref>{{cite web |title=Taxonomy browser (Atlantibacter) |url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Undef&id=1903434&lvl=3&lin=f&keep=1&srchmode=1&unlock |website=www.ncbi.nlm.nih.gov}}</ref>
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== Pathogenicity ==
== Pathogenicity ==
''Salmonella'' species are facultative [[intracellular pathogen]]s.<ref name="ReferenceB"/> ''Salmonella'' can invade different cell types, including [[epithelial cells]], [[Microfold cell|M cells]], [[macrophage]]s, and [[dendritic cell]]s.<ref>{{cite journal | vauthors = LaRock DL, Chaudhary A, Miller SI | title = Salmonellae interactions with host processes | journal = Nature Reviews. Microbiology | volume = 13 | issue = 4 | pages = 191–205 | date = April 2015 | pmid = 25749450 | pmc = 5074537 | doi = 10.1038/nrmicro3420 }}</ref> As [[facultative anaerobic organism]], ''Salmonella'' uses oxygen to make [[adenosine triphosphate]] (ATP) in aerobic environments (i.e., when oxygen is available). However, in anaerobic environments (i.e., when oxygen is not available) ''Salmonella'' produces ATP by [[fermentation]] — that is, by substituting, instead of oxygen, at least one of four electron acceptors at the end of the electron transport chain: [[sulfate]], [[nitrate]], [[sulfur]], or [[fumarate]] (all of which are less efficient than oxygen).<ref>{{cite journal | vauthors = Garai P, Gnanadhas DP, Chakravortty D | title = Salmonella enterica serovars Typhimurium and Typhi as model organisms: revealing paradigm of host–pathogen interactions | journal = Virulence | volume = 3 | issue = 4 | pages = 377–388 | date = July 2012 | pmid = 22722237 | pmc = 3478240 | doi = 10.4161/viru.21087 }}</ref>
''Salmonella'' species are facultative [[intracellular pathogen]]s.<ref name="ReferenceB"/> ''Salmonella'' can invade different cell types, including [[epithelial cells]], [[Microfold cell|M cells]], [[macrophage]]s, and [[dendritic cell]]s.<ref>{{cite journal | vauthors = LaRock DL, Chaudhary A, Miller SI | title = Salmonellae interactions with host processes | journal = Nature Reviews. Microbiology | volume = 13 | issue = 4 | pages = 191–205 | date = April 2015 | pmid = 25749450 | pmc = 5074537 | doi = 10.1038/nrmicro3420 }}</ref> As [[facultative anaerobic organism]], ''Salmonella'' uses oxygen to make [[adenosine triphosphate]] (ATP) in aerobic environments (i.e., when oxygen is available). However, in anaerobic environments (i.e., when oxygen is not available) ''Salmonella'' produces ATP by [[fermentation]]—that is, by substituting, instead of oxygen, at least one of four electron acceptors at the end of the electron transport chain: [[sulfate]], [[nitrate]], [[sulfur]], or [[fumarate]] (all of which are less efficient than oxygen).<ref>{{cite journal | vauthors = Garai P, Gnanadhas DP, Chakravortty D | title = Salmonella enterica serovars Typhimurium and Typhi as model organisms: revealing paradigm of host–pathogen interactions | journal = Virulence | volume = 3 | issue = 4 | pages = 377–388 | date = July 2012 | pmid = 22722237 | pmc = 3478240 | doi = 10.4161/viru.21087 }}</ref>


Most infections are due to ingestion of food contaminated by animal feces, or by human feces (for example, from the hands of a food-service worker at a commercial eatery). ''Salmonella'' serotypes can be divided into two main groups—typhoidal and nontyphoidal. Typhoidal serotypes include ''Salmonella'' Typhi and ''Salmonella'' Paratyphi A, which are adapted to humans and do not occur in other animals. Nontyphoidal serotypes are more common, and usually cause self-limiting [[gastrointestinal disease]]. They can infect a range of animals, and are [[zoonotic]], meaning they can be transferred between humans and other animals.<ref>{{cite web|title=What is the difference between nontyphoidal salmonellae and S typhi or S paratyphi?|url=https://www.medscape.com/answers/231135-10569/what-is-the-difference-between-nontyphoidal-salmonellae-and-s-typhi-or-s-paratyphi|access-date=2021-09-28|website=www.medscape.com}}</ref><ref>{{Cite web |date=2022-09-13 |title=Serotypes and the Importance of Serotyping Salmonella {{!}} Salmonella Atlas {{!}} Reports and Publications {{!}} Salmonella {{!}} CDC |url=https://www.cdc.gov/salmonella/reportspubs/salmonella-atlas/serotyping-importance.html |access-date=2025-02-26 |website=www.cdc.gov |language=en-us}}</ref>
Most infections are due to ingestion of food contaminated by animal feces, or by human feces (for example, from the hands of a food-service worker at a commercial eatery). ''Salmonella'' serotypes can be divided into two main groups—typhoidal and nontyphoidal. Typhoidal serotypes include ''Salmonella'' Typhi and ''Salmonella'' Paratyphi A, which are adapted to humans and do not occur in other animals. Nontyphoidal serotypes are more common, and usually cause self-limiting [[gastrointestinal disease]]. They can infect a range of animals, and are [[zoonotic]], meaning they can be transferred between humans and other animals.<ref>{{cite web|title=What is the difference between nontyphoidal salmonellae and S typhi or S paratyphi?|url=https://www.medscape.com/answers/231135-10569/what-is-the-difference-between-nontyphoidal-salmonellae-and-s-typhi-or-s-paratyphi|access-date=2021-09-28|website=www.medscape.com}}</ref><ref>{{Cite web |date=2022-09-13 |title=Serotypes and the Importance of Serotyping Salmonella {{!}} Salmonella Atlas {{!}} Reports and Publications {{!}} Salmonella {{!}} CDC |url=https://www.cdc.gov/salmonella/reportspubs/salmonella-atlas/serotyping-importance.html |access-date=2025-02-26 |website=www.cdc.gov |language=en-us}}</ref>


''Salmonella'' pathogenicity and host interaction has been studied extensively since the 2010s. Most of the important virulent genes of ''Salmonella'' are encoded in five pathogenicity islands — the so-called ''Salmonella'' pathogenicity islands (SPIs). These are chromosomal encoded and make a significant contribution to bacterial-host interaction. More traits, like plasmids, flagella or [[biofilm]]-related proteins, can contribute in the infection. SPIs are regulated by complex and fine-tuned regulatory networks that allow the gene expression only in the presence of the right environmental stresses.<ref>{{cite journal | vauthors = Fàbrega A, Vila J | title = Salmonella enterica serovar Typhimurium skills to succeed in the host: virulence and regulation | journal = Clinical Microbiology Reviews | volume = 26 | issue = 2 | pages = 308–341 | date = April 2013 | pmid = 23554419 | pmc = 3623383 | doi = 10.1128/CMR.00066-12 }}</ref>
''Salmonella'' pathogenicity and host interaction has been studied extensively since the 2010s. Most of the important virulent genes of ''Salmonella'' are encoded in five pathogenicity islands—the so-called ''Salmonella'' pathogenicity islands (SPIs). These are chromosomal encoded and make a significant contribution to bacterial-host interaction. More traits, like plasmids, flagella or [[biofilm]]-related proteins, can contribute in the infection. SPIs are regulated by complex and fine-tuned regulatory networks that allow the gene expression only in the presence of the right environmental stresses.<ref name="Fabrega2013"/>


Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenicity, reveals the specific binding patterns of AHL transcriptional regulators.<ref>{{cite journal | vauthors = Gnanendra S, Anusuya S, Natarajan J | title = Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenecity reveals specific binding patterns of AHL transcriptional regulators | journal = Journal of Molecular Modeling | volume = 18 | issue = 10 | pages = 4709–4719 | date = October 2012 | pmid = 22660944 | doi = 10.1007/s00894-012-1469-1 | s2cid = 25177221 }}</ref> It is also known that Salmonella plasmid virulence gene spvB enhances bacterial virulence by inhibiting autophagy.<ref>{{cite journal | vauthors = Li YY, Wang T, Gao S, Xu GM, Niu H, Huang R, Wu SY | title = Salmonella plasmid virulence gene spvB enhances bacterial virulence by inhibiting autophagy in a zebrafish infection model | journal = Fish & Shellfish Immunology | volume = 49 | pages = 252–259 | date = February 2016 | pmid = 26723267 | doi = 10.1016/j.fsi.2015.12.033 }}</ref>
Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenicity, reveals the specific binding patterns of AHL transcriptional regulators.<ref>{{cite journal | vauthors = Gnanendra S, Anusuya S, Natarajan J | title = Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenecity reveals specific binding patterns of AHL transcriptional regulators | journal = Journal of Molecular Modeling | volume = 18 | issue = 10 | pages = 4709–4719 | date = October 2012 | pmid = 22660944 | doi = 10.1007/s00894-012-1469-1 | s2cid = 25177221 }}</ref> It is also known that Salmonella plasmid virulence gene spvB enhances bacterial virulence by inhibiting autophagy.<ref>{{cite journal | vauthors = Li YY, Wang T, Gao S, Xu GM, Niu H, Huang R, Wu SY | title = Salmonella plasmid virulence gene spvB enhances bacterial virulence by inhibiting autophagy in a zebrafish infection model | journal = Fish & Shellfish Immunology | volume = 49 | pages = 252–259 | date = February 2016 | pmid = 26723267 | doi = 10.1016/j.fsi.2015.12.033 | bibcode = 2016FSI....49..252L }}</ref>


== Typhoidal ''Salmonella'' ==
== Typhoidal ''Salmonella'' ==
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{{See also|Salmonellosis}}
{{See also|Salmonellosis}}


=== Non-invasive ===
=== Gastroenteritis ===
Infection with nontyphoidal serotypes of ''Salmonella'' generally results in [[food poisoning]]. Infection usually occurs when a person ingests foods that contain a high concentration{{clarify|date=August 2020 |reason=how high? }} of the bacteria. Infants and young children are much more susceptible to infection, easily achieved by ingesting a small number{{clarify|date=August 2020 |reason=how small? }} of bacteria. In infants, infection through inhalation of bacteria-laden dust is possible.{{citation needed|date=July 2020}}
Infection with nontyphoidal serotypes of ''Salmonella'' generally results in gastroenteritis or what is commonly called [[food poisoning]]. Experimental infections of healthy adults suggest that Infection usually occurs when a person ingests a high concentration of the bacteria<ref>{{Cite journal |last=McCullough |first=N. B. |last2=Eisele |first2=C. W. |date=1951-05-01 |title=Experimental Human Salmonellosis: I. Pathogenicity of Strains of Salmonella Meleagridis and Salmonella Anatum Obtained from Spray-Dried Whole Egg |url=https://academic.oup.com/jid/article-lookup/doi/10.1093/infdis/88.3.278 |journal=Journal of Infectious Diseases |language=en |volume=88 |issue=3 |pages=278–289 |doi=10.1093/infdis/88.3.278 |issn=0022-1899|url-access=subscription }}</ref> but studies of outbreaks from contaminated food suggests that much lower doses can result in infection<ref>{{Cite journal |last=Blaser |first=M. J. |last2=Newman |first2=L. S. |date=1982-11-01 |title=A Review of Human Salmonellosis: I. Infective Dose |url=https://academic.oup.com/cid/article-lookup/doi/10.1093/clinids/4.6.1096 |journal=Clinical Infectious Diseases |language=en |volume=4 |issue=6 |pages=1096–1106 |doi=10.1093/clinids/4.6.1096 |issn=1058-4838|url-access=subscription }}</ref>. Infants, young children and the elderly are likely to be more susceptible to infection, easily achieved by ingesting a small number of bacteria, although direct evidence of this is not available. In infants, infection through inhalation of bacteria-laden dust is possible.<ref>{{cite journal |last1=Hugho |first1=Ephrasia A. |last2=Mmbaga |first2=Blandina T. |last3=Lukambagire |first3=Abdul-Hamid S. |last4=Kinabo |first4=Grace D. |last5=Thomas |first5=Kate M. |last6=Kumburu |first6=Happiness H. |last7=Hald |first7=Tine |title=Risk Factors for Salmonella Infection in Children under Five Years: A Hospital-Based Study in Kilimanjaro Region, Tanzania |journal=Pathogens |date=September 2024 |volume=13 |issue=9 |page=798 |doi=10.3390/pathogens13090798 |doi-access=free |pmid=39338989 |pmc=11434866 }}</ref>


The organisms enter through the digestive tract and must be ingested in large numbers to cause disease in healthy adults. An infection can only begin after living salmonellae (not merely ''Salmonella''-produced toxins) reach the gastrointestinal tract. Some of the microorganisms are killed in the stomach, while the surviving ones enter the small intestine and multiply in tissues. Gastric acidity is responsible for the destruction of the majority of ingested bacteria, but ''Salmonella'' has evolved a degree of tolerance to acidic environments that allows a subset of ingested bacteria to survive.<ref>{{cite journal | vauthors = Garcia-del Portillo F, Foster JW, Finlay BB | title = Role of acid tolerance response genes in Salmonella typhimurium virulence | journal = Infection and Immunity | volume = 61 | issue = 10 | pages = 4489–4492 | date = October 1993 | pmid = 8406841 | pmc = 281185 | doi = 10.1128/IAI.61.10.4489-4492.1993 }}</ref> Bacterial colonies may also become trapped in mucus produced in the esophagus. By the end of the incubation period, the nearby host cells are poisoned by [[Lipopolysaccharide|endotoxins]] released from the dead salmonellae. The local response to the endotoxins is enteritis and gastrointestinal disorder.{{citation needed|date=May 2021}}
The organisms enter through the digestive tract. Infection is initiated after Salmonella reach the gastrointestinal tract. Gastric acidity is responsible for the destruction of the majority of ingested bacteria, but ''Salmonella'' has evolved a degree of tolerance to acidic environments that allows a subset of ingested bacteria to survive.<ref>{{cite journal | vauthors = Garcia-del Portillo F, Foster JW, Finlay BB | title = Role of acid tolerance response genes in Salmonella typhimurium virulence | journal = Infection and Immunity | volume = 61 | issue = 10 | pages = 4489–4492 | date = October 1993 | pmid = 8406841 | pmc = 281185 | doi = 10.1128/IAI.61.10.4489-4492.1993 }}</ref> Some of the microorganisms are killed in the stomach, while the surviving ones enter the small intestine, invade cells of the epithelium and multiply within the cells in tissues. Salmonella triggers a strong immune response through a number of mechanisms that leads to inflammatory diarrhoea typical of gastroenteritis<ref>{{Cite journal |last=Thiennimitr |first=Parameth |last2=Winter |first2=Sebastian E |last3=Bäumler |first3=Andreas J |date=February 2012 |title=Salmonella, the host and its microbiota |url=https://linkinghub.elsevier.com/retrieve/pii/S136952741100172X |journal=Current Opinion in Microbiology |language=en |volume=15 |issue=1 |pages=108–114 |doi=10.1016/j.mib.2011.10.002 |pmc=3265626 |pmid=22030447}}</ref>. The inflammatory response also results in changes to the good bacteria resident in the gut lumen, that favours outgrowth of the ''Salmonella'' at this location<ref>{{Cite journal |last=Rogers |first=Andrew W. L. |last2=Tsolis |first2=Renée M. |last3=Bäumler |first3=Andreas J. |date=2021-02-17 |title=Salmonella versus the Microbiome |url=https://journals.asm.org/doi/10.1128/MMBR.00027-19 |journal=Microbiology and Molecular Biology Reviews |language=en |volume=85 |issue=1 |doi=10.1128/MMBR.00027-19 |issn=1092-2172|pmc=8549850 }}</ref>. Consequently, a combination of high numbers of ''Salmonella'' in the faeces and diarrhoea contributes to transmission via contamination of the environment.


About 2,000 serotypes of nontyphoidal ''Salmonella'' are known, which may be responsible for as many as 1.4&nbsp;million illnesses in the United States each year. People who are at risk for severe illness include infants, elderly, organ-transplant recipients, and the immunocompromised.<ref name="Barbara2003" />
About 2,000 serotypes of nontyphoidal ''Salmonella'' are known, which may be responsible for as many as 1.4&nbsp;million illnesses in the United States each year. People who are at risk for severe illness include infants, elderly, organ-transplant recipients, and the immunocompromised.<ref name="Barbara2003" />


=== Invasive ===
=== Disseminated Disease (or invasive nontyphoidal ''Salmonella'' disease, iNTS) ===
While, in developed countries, nontyphoidal serotypes present mostly as gastrointestinal disease, in sub-Saharan Africa, these serotypes can create a major problem in bloodstream infections, and are the most commonly isolated bacteria from the blood of those presenting with fever. Bloodstream infections caused by nontyphoidal salmonellae in Africa were reported in 2012 to have a [[case fatality rate]] of 20–25%. Most cases of invasive nontyphoidal ''Salmonella'' infection (iNTS) are caused by ''Salmonella enterica'' Typhimurium or ''Salmonella enterica'' Enteritidis. A new form of ''Salmonella'' Typhimurium (ST313) emerged in the southeast of the African continent 75 years ago, followed by a second wave which came out of central Africa 18 years later. This second wave of iNTS possibly originated in the [[Congo Basin]], and early in the event picked up a gene that made it resistant to the antibiotic [[chloramphenicol]]. This created the need to use expensive antimicrobial drugs in areas of Africa that were very poor, making treatment difficult. The increased prevalence of iNTS in sub-Saharan Africa compared to other regions is thought to be due to the large proportion of the African population with some degree of immune suppression or impairment due to the burden of [[HIV]], [[malaria]], and malnutrition, especially in children. The genetic makeup of iNTS is evolving into a more typhoid-like bacterium, able to efficiently spread around the human body. Symptoms are reported to be diverse, including fever, [[hepatosplenomegaly]], and respiratory symptoms, often with an absence of gastrointestinal symptoms.<ref>{{cite journal | vauthors = Feasey NA, Dougan G, Kingsley RA, Heyderman RS, Gordon MA | title = Invasive non-typhoidal salmonella disease: an emerging and neglected tropical disease in Africa | journal = Lancet | volume = 379 | issue = 9835 | pages = 2489–2499 | date = June 2012 | pmid = 22587967 | pmc = 3402672 | doi = 10.1016/S0140-6736(11)61752-2 }}</ref>
While, in developed countries, non-typhoidal serotypes present mostly as gastrointestinal disease, in sub-Saharan Africa, these serotypes can create a major problem in bloodstream infections, and are the most commonly isolated bacteria from the blood of those presenting with fever. Bloodstream infections caused by nontyphoidal salmonellae in Africa are normally associated with co-morbidities including Malaria, HIV and malnutrition, and were reported in 2012 to have a [[case fatality rate]] of 20–25%. Most cases of invasive nontyphoidal ''Salmonella'' infection (iNTS) are caused by ''Salmonella enterica'' Typhimurium or ''Salmonella enterica'' Enteritidis. A new form of ''Salmonella'' Typhimurium (ST313, lineage I) emerged in the southeast of the African continent 75 years ago, followed by a second wave (ST313, lineage II) which came out of central Africa 18 years later<ref>{{Cite journal |last=Kingsley |first=Robert A. |last2=Msefula |first2=Chisomo L. |last3=Thomson |first3=Nicholas R. |last4=Kariuki |first4=Samuel |last5=Holt |first5=Kathryn E. |last6=Gordon |first6=Melita A. |last7=Harris |first7=David |last8=Clarke |first8=Louise |last9=Whitehead |first9=Sally |last10=Sangal |first10=Vartul |last11=Marsh |first11=Kevin |last12=Achtman |first12=Mark |last13=Molyneux |first13=Malcolm E. |last14=Cormican |first14=Martin |last15=Parkhill |first15=Julian |date=December 2009 |title=Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype |url=http://genome.cshlp.org/lookup/doi/10.1101/gr.091017.109 |journal=Genome Research |language=en |volume=19 |issue=12 |pages=2279–2287 |doi=10.1101/gr.091017.109 |issn=1088-9051 |pmc=2792184 |pmid=19901036}}</ref>. This second wave of iNTS possibly originated in the [[Congo Basin]], was characterized by changes in its genome sequence called genome degradation that is typical of host-adapted and host restricted serotypes such as ''Salmonella enterica'' serotype Typhi. Spread of the second wave in the early part of the 21st century was coincided with acquisition of a gene that made it resistant to the antibiotic [[chloramphenicol]]<ref>{{Cite journal |last=Okoro |first=Chinyere K |last2=Kingsley |first2=Robert A |last3=Connor |first3=Thomas R |last4=Harris |first4=Simon R |last5=Parry |first5=Christopher M |last6=Al-Mashhadani |first6=Manar N |last7=Kariuki |first7=Samuel |last8=Msefula |first8=Chisomo L |last9=Gordon |first9=Melita A |last10=de Pinna |first10=Elizabeth |last11=Wain |first11=John |last12=Heyderman |first12=Robert S |last13=Obaro |first13=Stephen |last14=Alonso |first14=Pedro L |last15=Mandomando |first15=Inacio |date=November 2012 |title=Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa |url=https://www.nature.com/articles/ng.2423 |journal=Nature Genetics |language=en |volume=44 |issue=11 |pages=1215–1221 |doi=10.1038/ng.2423 |issn=1061-4036 |pmc=3491877 |pmid=23023330}}</ref>. This created the need to use expensive antimicrobial drugs in areas of Africa that were very poor, making treatment difficult. The increased prevalence of iNTS in sub-Saharan Africa compared to other regions is thought to be due to the large proportion of the African population with some degree of immune suppression or impairment due to the burden of [[HIV]], [[malaria]], and malnutrition, especially in children. The genetic makeup of iNTS is evolving into a more typhoid-like bacterium, able to efficiently spread around the human body. Symptoms are reported to be diverse, including fever, [[hepatosplenomegaly]], and respiratory symptoms, often with an absence of gastrointestinal symptoms.<ref>{{cite journal | vauthors = Feasey NA, Dougan G, Kingsley RA, Heyderman RS, Gordon MA | title = Invasive non-typhoidal salmonella disease: an emerging and neglected tropical disease in Africa | journal = Lancet | volume = 379 | issue = 9835 | pages = 2489–2499 | date = June 2012 | pmid = 22587967 | pmc = 3402672 | doi = 10.1016/S0140-6736(11)61752-2 }}</ref>


=== Epidemiology ===
=== Epidemiology ===
Due to being considered sporadic, between 60% and 80% of salmonella infections cases go undiagnosed.<ref>{{cite web|url=https://www.who.int/news-room/fact-sheets/detail/salmonella-(non-typhoidal)|title=Salmonella (non-typhoidal)|website=www.who.int|access-date=2019-12-05}}</ref> In March 2010, data analysis was completed to estimate an [[Incidence (epidemiology)|incidence]] rate of 1140 per 100,000 person-years. In the same analysis, 93.8&nbsp;million cases of [[gastroenteritis]] were due to salmonella infections. At the 5th percentile the estimated amount was 61.8&nbsp;million cases and at the 95th percentile the estimated amount was 131.6&nbsp;million cases. The estimated number of deaths due to salmonella was approximately 155,000 deaths.<ref>{{cite journal | vauthors = Majowicz SE, Musto J, Scallan E, Angulo FJ, Kirk M, O'Brien SJ, Jones TF, Fazil A, Hoekstra RM | title = The global burden of nontyphoidal Salmonella gastroenteritis | journal = Clinical Infectious Diseases | volume = 50 | issue = 6 | pages = 882–889 | date = March 2010 | pmid = 20158401 | doi = 10.1086/650733 | doi-access = free }}</ref> In 2014, in countries such as Bulgaria and Portugal, children under 4 were 32 and 82 times more likely, respectively, to have a salmonella infection.<ref>{{cite web|url=https://www.ecdc.europa.eu/en/publications-data/salmonellosis-annual-epidemiological-report-2016-2014-data|title=Salmonellosis - Annual Epidemiological Report 2016 [2014 data]|date=2016-01-31|website=European Centre for Disease Prevention and Control|access-date=2019-12-05}}</ref>  Those who are most susceptible to infection are: children, pregnant women, elderly people, and those with deficient immune systems.<ref>{{cite web|publisher=Center for Veterinary Medicine, FDA|date=2019-06-06|title=Get the Facts about Salmonella!|url=https://www.fda.gov/animal-veterinary/animal-health-literacy/get-facts-about-salmonella|archive-url=https://web.archive.org/web/20190704020914/https://www.fda.gov/animal-veterinary/animal-health-literacy/get-facts-about-salmonella|url-status=dead|archive-date=July 4, 2019}}</ref>
Due to being considered sporadic, between 60% and 80% of salmonella infections cases go undiagnosed.<ref>{{cite web|url=https://www.who.int/news-room/fact-sheets/detail/salmonella-(non-typhoidal)|title=Salmonella (non-typhoidal)|website=www.who.int|access-date=2019-12-05}}</ref> In March 2010, data analysis was completed to estimate an [[Incidence (epidemiology)|incidence]] rate of 1140 per 100,000 person-years. In the same analysis, 93.8&nbsp;million cases of [[gastroenteritis]] were due to salmonella infections. At the 5th percentile the estimated amount was 61.8&nbsp;million cases and at the 95th percentile the estimated amount was 131.6&nbsp;million cases. The estimated number of deaths due to salmonella was approximately 155,000 deaths.<ref>{{cite journal | vauthors = Majowicz SE, Musto J, Scallan E, Angulo FJ, Kirk M, O'Brien SJ, Jones TF, Fazil A, Hoekstra RM | title = The global burden of nontyphoidal Salmonella gastroenteritis | journal = Clinical Infectious Diseases | volume = 50 | issue = 6 | pages = 882–889 | date = March 2010 | pmid = 20158401 | doi = 10.1086/650733 | doi-access = free }}</ref> In 2014, in countries such as Bulgaria and Portugal, children under 4 were 32 and 82 times more likely, respectively, to have a salmonella infection.<ref>{{cite web|url=https://www.ecdc.europa.eu/en/publications-data/salmonellosis-annual-epidemiological-report-2016-2014-data|title=Salmonellosis - Annual Epidemiological Report 2016 [2014 data]|date=2016-01-31|website=European Centre for Disease Prevention and Control|access-date=2019-12-05}}</ref>  Those who are most susceptible to infection are: children, pregnant women, elderly people, and those with deficient immune systems.<ref>{{cite web|publisher=Center for Veterinary Medicine, FDA|date=2019-06-06|title=Get the Facts about Salmonella!|url=https://www.fda.gov/animal-veterinary/animal-health-literacy/get-facts-about-salmonella|archive-url=https://web.archive.org/web/20190704020914/https://www.fda.gov/animal-veterinary/animal-health-literacy/get-facts-about-salmonella|archive-date=July 4, 2019}}</ref>


Risk factors for Salmonella infections include a variety of foods. Meats such as chicken and pork have the possibility to be contaminated. A variety of vegetables and sprouts may also have salmonella. Lastly, a variety of processed foods such as chicken nuggets and pot pies may also contain this bacteria.<ref>{{cite web|url=https://www.cdc.gov/salmonella/general/prevention.html|title=Prevention {{!}} General Information {{!}} Salmonella {{!}} CDC|date=2019-03-06|website=www.cdc.gov|access-date=2019-12-05}}</ref>
Risk factors for Salmonella infections include a variety of foods. Meats such as chicken and pork have the possibility to be contaminated. A variety of vegetables and sprouts may also have salmonella. Lastly, a variety of processed foods such as chicken nuggets and pot pies may also contain this bacteria.<ref>{{cite web|url=https://www.cdc.gov/salmonella/general/prevention.html|title=Prevention {{!}} General Information {{!}} Salmonella {{!}} CDC|date=2019-03-06|website=www.cdc.gov|access-date=2019-12-05}}</ref>


Successful forms of prevention come from existing entities such as the [[FDA]], [[United States Department of Agriculture]], and the [[Food Safety and Inspection Service]]. All of these organizations create standards and inspections to ensure public safety in the [[U.S.]] For example, the [[FSIS]] agency working with the USDA has a Salmonella Action Plan in place. Recently, it received a two-year plan update in February 2016. Their accomplishments and strategies to reduce Salmonella infection are presented in the plans.<ref>{{cite web|url=https://www.fsis.usda.gov/wps/portal/fsis/topics/food-safety-education/get-answers/food-safety-fact-sheets/foodborne-illness-and-disease/salmonella/sap|title=Salmonella|website=fsis.usda.gov}}</ref> The [[Centers for Disease Control and Prevention]] also provides valuable information on preventative care, such has how to safely handle raw foods, and the correct way to store these products. In the [[European Union]], the [[European Food Safety Authority]] created preventative measures through risk management and risk assessment. From 2005 to 2009, the EFSA placed an approach to reduce exposure to ''Salmonella''. Their approach included risk assessment and risk management of poultry, which resulted in a reduction of infection cases by one half.<ref>{{cite web|url=https://www.efsa.europa.eu/en/topics/topic/salmonella|title=Salmonella|website=European Food Safety Authority|access-date=2019-12-05}}</ref> In [[Latin America]] an orally administered vaccine for Salmonella in poultry developed by Dr. Sherry Layton has been introduced which prevents the bacteria from contaminating the birds.<ref>{{cite web|url=https://www.terrapinn.com/conference/world-vaccine-congress-washington/speaker-sherry-LAYTON.stm|title=Content not found|date=3 March 2022}}</ref>
Successful forms of prevention come from existing entities such as the [[FDA]], [[United States Department of Agriculture]], and the [[Food Safety and Inspection Service]]. All of these organizations create standards and inspections to ensure public safety in the [[U.S.]] For example, the [[FSIS]] agency working with the USDA has a Salmonella Action Plan in place. Recently, it received a two-year plan update in February 2016. Their accomplishments and strategies to reduce Salmonella infection are presented in the plans.<ref>{{cite web|url=https://www.fsis.usda.gov/science-data/data-sets-visualizations/microbiology/microbiological-testing-program-rte-meat-and-6|title=Salmonella|website=fsis.usda.gov}}</ref> The [[Centers for Disease Control and Prevention]] also provides valuable information on preventative care, such has how to safely handle raw foods, and the correct way to store these products. In the [[European Union]], the [[European Food Safety Authority]] created preventative measures through risk management and risk assessment. From 2005 to 2009, the EFSA placed an approach to reduce exposure to ''Salmonella''. Their approach included risk assessment and risk management of poultry, which resulted in a reduction of infection cases by one half.<ref>{{cite web|url=https://www.efsa.europa.eu/en/topics/topic/salmonella|title=Salmonella|website=European Food Safety Authority|access-date=2019-12-05}}</ref> In [[Latin America]] an orally administered vaccine for Salmonella in poultry developed by Dr. Sherry Layton has been introduced which prevents the bacteria from contaminating the birds.<ref>{{cite web|url=https://www.terrapinn.com/conference/world-vaccine-congress-washington/speaker-sherry-LAYTON.stm|title=Content not found|date=3 March 2022}}</ref>
 
A recent ''Salmonella'' Typhimurium outbreak has been linked to chocolate produced in Belgium, leading to the country halting Kinder chocolate production.<ref>{{cite journal | vauthors = Samarasekera U | title = Salmonella Typhimurium outbreak linked to chocolate | journal = The Lancet. Infectious Diseases | volume = 22 | issue = 7 | page = 947 | date = July 2022 | pmid = 35636448 | doi = 10.1016/S1473-3099(22)00351-6 | s2cid = 249136373 }}</ref><ref>{{Cite web |date=2022-04-15 |title=Kinder recall: ECDC urges further investigation at Belgian plant |url=https://www.euronews.com/health/2022/04/15/chocolate-cheese-and-pizza-what-s-going-on-with-food-recalls-across-europe |access-date=2024-09-27 |website=euronews |language=en}}</ref>
 


A ''Salmonella'' Typhimurium outbreak in 2022 was linked to chocolate produced in Belgium, leading to the country temporarily halting Kinder chocolate production.<ref>{{cite journal | vauthors = Samarasekera U | title = Salmonella Typhimurium outbreak linked to chocolate | journal = The Lancet. Infectious Diseases | volume = 22 | issue = 7 | page = 947 | date = July 2022 | pmid = 35636448 | doi = 10.1016/S1473-3099(22)00351-6 | s2cid = 249136373 }}</ref><ref>{{Cite web |date=2022-04-15 |title=Kinder recall: ECDC urges further investigation at Belgian plant |url=https://www.euronews.com/health/2022/04/15/chocolate-cheese-and-pizza-what-s-going-on-with-food-recalls-across-europe |access-date=2024-09-27 |website=euronews |language=en}}</ref>


== Global monitoring ==
In Germany, food-borne infections must be reported.<ref>§ 6 and § 7 of the German law on infectious disease prevention, ''Infektionsschutzgesetz''</ref> From 1990 to 2016, the number of officially recorded cases decreased from about 200,000 to about 13,000 cases.<ref>{{cite web | url=https://de.statista.com/statistik/daten/studie/2673/umfrage/salmonellen-anzahl-von-erkrankungen-seit-2001/ | title=Anzahl der jährlich registrierten Salmonellose-Erkrankungen in Deutschland bis 2016 |publisher=Statista}}</ref> In the United States, about 1,200,000 cases of ''Salmonella'' infection are estimated to occur each year.<ref>[https://www.cdc.gov/salmonella/ Salmonella]. Centers for Disease Control and Prevention</ref> A World Health Organization study estimated that 21,650,974 cases of typhoid fever occurred in 2000, 216,510 of which resulted in death, along with 5,412,744 cases of paratyphoid fever.<ref name=burden>{{cite journal | vauthors = Crump JA, Luby SP, Mintz ED | title = The global burden of typhoid fever | journal = Bulletin of the World Health Organization | volume = 82 | issue = 5 | pages = 346–353 | date = May 2004 | pmid = 15298225 | pmc = 2622843 }}</ref>
In Germany, food-borne infections must be reported.<ref>§ 6 and § 7 of the German law on infectious disease prevention, ''Infektionsschutzgesetz''</ref> From 1990 to 2016, the number of officially recorded cases decreased from about 200,000 to about 13,000 cases.<ref>{{cite web | url=https://de.statista.com/statistik/daten/studie/2673/umfrage/salmonellen-anzahl-von-erkrankungen-seit-2001/ | title=Anzahl der jährlich registrierten Salmonellose-Erkrankungen in Deutschland bis 2016 |publisher=Statista}}</ref> In the United States, about 1,200,000 cases of ''Salmonella'' infection are estimated to occur each year.<ref>[https://www.cdc.gov/salmonella/ Salmonella]. Centers for Disease Control and Prevention</ref> A World Health Organization study estimated that 21,650,974 cases of typhoid fever occurred in 2000, 216,510 of which resulted in death, along with 5,412,744 cases of paratyphoid fever.<ref name=burden>{{cite journal | vauthors = Crump JA, Luby SP, Mintz ED | title = The global burden of typhoid fever | journal = Bulletin of the World Health Organization | volume = 82 | issue = 5 | pages = 346–353 | date = May 2004 | pmid = 15298225 | pmc = 2622843 }}</ref>


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== Host adaptation ==
== Host adaptation ==
''S. enterica'', through some of its serotypes such as Typhimurium and Enteritidis, shows signs that it has the ability to infect several different mammalian host species, while other serotypes, such as Typhi, seem to be restricted to only a few hosts.<ref>{{cite journal | vauthors = Thomson NR, Clayton DJ, Windhorst D, Vernikos G, Davidson S, Churcher C, Quail MA, Stevens M, Jones MA, Watson M, Barron A, Layton A, Pickard D, Kingsley RA, Bignell A, Clark L, Harris B, Ormond D, Abdellah Z, Brooks K, Cherevach I, Chillingworth T, Woodward J, Norberczak H, Lord A, Arrowsmith C, Jagels K, Moule S, Mungall K, Sanders M, Whitehead S, Chabalgoity JA, Maskell D, Humphrey T, Roberts M, Barrow PA, Dougan G, Parkhill J | title = Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways | journal = Genome Research | volume = 18 | issue = 10 | pages = 1624–1637 | date = October 2008 | pmid = 18583645 | pmc = 2556274 | doi = 10.1101/gr.077404.108 }}</ref> Two ways that ''Salmonella'' serotypes have [[host adaptation|adapted]] to their hosts are by the loss of genetic material, and mutation. In more complex mammalian species, [[immune system]]s, which include pathogen specific immune responses, target serovars of ''Salmonella'' by binding antibodies to structures such as flagella. Thus  ''Salmonella'' that has lost the genetic material which codes for a flagellum to form can evade a host's [[immune system]].<ref>{{cite journal | vauthors = den Bakker HC, Moreno Switt AI, Govoni G, Cummings CA, Ranieri ML, Degoricija L, Hoelzer K, Rodriguez-Rivera LD, Brown S, Bolchacova E, Furtado MR, Wiedmann M | title = Genome sequencing reveals diversification of virulence factor content and possible host adaptation in distinct subpopulations of Salmonella enterica | journal = BMC Genomics | volume = 12 | page = 425 | date = August 2011 | pmid = 21859443 | pmc = 3176500 | doi = 10.1186/1471-2164-12-425 | doi-access = free }}</ref> ''mgtC'' [[Five prime untranslated region|leader RNA]] from bacteria virulence gene (mgtCBR operon) decreases flagellin production during infection by directly base pairing with mRNAs of the ''fljB'' gene encoding flagellin and promotes degradation.<ref>{{cite journal | vauthors = Choi E, Han Y, Cho YJ, Nam D, Lee EJ | title = A ''trans''-acting leader RNA from a ''Salmonella'' virulence gene | journal = Proceedings of the National Academy of Sciences of the United States of America | volume = 114 | issue = 38 | pages = 10232–10237 | date = September 2017 | pmid = 28874555 | pmc = 5617274 | doi = 10.1073/pnas.1705437114 | bibcode = 2017PNAS..11410232C | doi-access = free }}</ref> In the study by Kisela ''et al.'', more pathogenic serovars of ''S. enterica'' were found to have certain adhesins in common that have developed out of convergent evolution.<ref>{{cite journal | vauthors = Kisiela DI, Chattopadhyay S, Libby SJ, Karlinsey JE, Fang FC, Tchesnokova V, Kramer JJ, Beskhlebnaya V, Samadpour M, Grzymajlo K, Ugorski M, Lankau EW, Mackie RI, Clegg S, Sokurenko EV | title = Evolution of Salmonella enterica virulence via point mutations in the fimbrial adhesin | journal = PLOS Pathogens | volume = 8 | issue = 6 | pages = e1002733 | year = 2012 | pmid = 22685400 | pmc = 3369946 | doi = 10.1371/journal.ppat.1002733 | doi-access = free }}</ref> This means that, as these strains of ''Salmonella'' have been exposed to similar conditions such as immune systems, similar structures evolved separately to negate these similar, more advanced defenses in hosts. Although many questions remain about how ''Salmonella'' has evolved into so many different types, ''Salmonella'' may have evolved through several phases. For example, as Baumler ''et al.'' have suggested, ''Salmonella'' most likely evolved through [[horizontal gene transfer]], and through the formation of new serovars due to additional [[pathogenicity island]]s, and through an approximation of its ancestry.<ref name="ReferenceA">{{cite journal | vauthors = Bäumler AJ, Tsolis RM, Ficht TA, Adams LG | title = Evolution of host adaptation in Salmonella enterica | journal = Infection and Immunity | volume = 66 | issue = 10 | pages = 4579–4587 | date = October 1998 | pmid = 9746553 | pmc = 108564 | doi = 10.1128/IAI.66.10.4579-4587.1998 }}</ref> So, ''Salmonella'' could have evolved into its many different serotypes by gaining genetic information from different pathogenic bacteria. The presence of several [[pathogenicity island]]s in the genome of different serotypes has lent credence to this theory.<ref name="ReferenceA"/>
''S. enterica'', through some of its serotypes such as Typhimurium and Enteritidis, shows signs that it has the ability to infect several different mammalian host species, while other serotypes, such as Typhi, seem to be restricted to only a few hosts.<ref>{{cite journal | vauthors = Thomson NR, Clayton DJ, Windhorst D, Vernikos G, Davidson S, Churcher C, Quail MA, Stevens M, Jones MA, Watson M, Barron A, Layton A, Pickard D, Kingsley RA, Bignell A, Clark L, Harris B, Ormond D, Abdellah Z, Brooks K, Cherevach I, Chillingworth T, Woodward J, Norberczak H, Lord A, Arrowsmith C, Jagels K, Moule S, Mungall K, Sanders M, Whitehead S, Chabalgoity JA, Maskell D, Humphrey T, Roberts M, Barrow PA, Dougan G, Parkhill J | title = Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways | journal = Genome Research | volume = 18 | issue = 10 | pages = 1624–1637 | date = October 2008 | pmid = 18583645 | pmc = 2556274 | doi = 10.1101/gr.077404.108 }}</ref> Two ways that ''Salmonella'' serotypes have [[host adaptation|adapted]] to their hosts are by the loss of genetic material, and mutation. In more complex mammalian species, [[immune system]]s, which include pathogen specific immune responses, target serovars of ''Salmonella'' by binding antibodies to structures such as flagella. Thus  ''Salmonella'' that has lost the genetic material which codes for a flagellum to form can evade a host's [[immune system]].<ref>{{cite journal | vauthors = den Bakker HC, Moreno Switt AI, Govoni G, Cummings CA, Ranieri ML, Degoricija L, Hoelzer K, Rodriguez-Rivera LD, Brown S, Bolchacova E, Furtado MR, Wiedmann M | title = Genome sequencing reveals diversification of virulence factor content and possible host adaptation in distinct subpopulations of Salmonella enterica | journal = BMC Genomics | volume = 12 | page = 425 | date = August 2011 | pmid = 21859443 | pmc = 3176500 | doi = 10.1186/1471-2164-12-425 | doi-access = free }}</ref> ''mgtC'' [[Five prime untranslated region|leader RNA]] from bacteria virulence gene (mgtCBR operon) decreases flagellin production during infection by directly base pairing with mRNAs of the ''fljB'' gene encoding flagellin and promotes degradation.<ref>{{cite journal | vauthors = Choi E, Han Y, Cho YJ, Nam D, Lee EJ | title = A ''trans''-acting leader RNA from a ''Salmonella'' virulence gene | journal = Proceedings of the National Academy of Sciences of the United States of America | volume = 114 | issue = 38 | pages = 10232–10237 | date = September 2017 | pmid = 28874555 | pmc = 5617274 | doi = 10.1073/pnas.1705437114 | bibcode = 2017PNAS..11410232C | doi-access = free }}</ref> In the study by Kisela ''et al.'', more pathogenic serovars of ''S. enterica'' were found to have certain adhesins in common that have developed out of convergent evolution.<ref>{{cite journal | vauthors = Kisiela DI, Chattopadhyay S, Libby SJ, Karlinsey JE, Fang FC, Tchesnokova V, Kramer JJ, Beskhlebnaya V, Samadpour M, Grzymajlo K, Ugorski M, Lankau EW, Mackie RI, Clegg S, Sokurenko EV | title = Evolution of Salmonella enterica virulence via point mutations in the fimbrial adhesin | journal = PLOS Pathogens | volume = 8 | issue = 6 | article-number = e1002733 | year = 2012 | pmid = 22685400 | pmc = 3369946 | doi = 10.1371/journal.ppat.1002733 | doi-access = free }}</ref> This means that, as these strains of ''Salmonella'' have been exposed to similar conditions such as immune systems, similar structures evolved separately to negate these similar, more advanced defenses in hosts. Although many questions remain about how ''Salmonella'' has evolved into so many different types, ''Salmonella'' may have evolved through several phases. For example, as Baumler ''et al.'' have suggested, ''Salmonella'' most likely evolved through [[horizontal gene transfer]], and through the formation of new serovars due to additional [[pathogenicity island]]s, and through an approximation of its ancestry.<ref name="ReferenceA">{{cite journal | vauthors = Bäumler AJ, Tsolis RM, Ficht TA, Adams LG | title = Evolution of host adaptation in Salmonella enterica | journal = Infection and Immunity | volume = 66 | issue = 10 | pages = 4579–4587 | date = October 1998 | pmid = 9746553 | pmc = 108564 | doi = 10.1128/IAI.66.10.4579-4587.1998 }}</ref> So, ''Salmonella'' could have evolved into its many different serotypes by gaining genetic information from different pathogenic bacteria. The presence of several [[pathogenicity island]]s in the genome of different serotypes has lent credence to this theory.<ref name="ReferenceA"/>


''Salmonella'' sv. Newport shows signs of adaptation to a plant-colonization lifestyle, which may play a role in its disproportionate association with food-borne illness linked to produce. A variety of functions selected for during sv. Newport persistence in tomatoes have been reported to be similar to those selected for in sv. Typhimurium from animal hosts.<ref name="Moraes MH 2018">{{cite journal | vauthors = de Moraes MH, Soto EB, Salas González I, Desai P, Chu W, Porwollik S, McClelland M, Teplitski M | title = Genome-Wide Comparative Functional Analyses Reveal Adaptations of ''Salmonella'' sv. Newport to a Plant Colonization Lifestyle | journal = Frontiers in Microbiology | volume = 9 | page = 877 | date = 2018 | pmid = 29867794 | pmc = 5968271 | doi = 10.3389/fmicb.2018.00877 | doi-access = free }}</ref> The ''papA'' gene, which is unique to sv. Newport, contributes to the strain's fitness in tomatoes, and has homologs in the genomes of other Enterobacteriaceae that are able to colonize plant and animal hosts.<ref name="Moraes MH 2018"/>
''Salmonella'' sv. Newport shows signs of adaptation to a plant-colonization lifestyle, which may play a role in its disproportionate association with food-borne illness linked to produce. A variety of functions selected for during sv. Newport persistence in tomatoes have been reported to be similar to those selected for in sv. Typhimurium from animal hosts.<ref name="Moraes MH 2018">{{cite journal | vauthors = de Moraes MH, Soto EB, Salas González I, Desai P, Chu W, Porwollik S, McClelland M, Teplitski M | title = Genome-Wide Comparative Functional Analyses Reveal Adaptations of ''Salmonella'' sv. Newport to a Plant Colonization Lifestyle | journal = Frontiers in Microbiology | volume = 9 | page = 877 | date = 2018 | pmid = 29867794 | pmc = 5968271 | doi = 10.3389/fmicb.2018.00877 | doi-access = free }}</ref> The ''papA'' gene, which is unique to sv. Newport, contributes to the strain's fitness in tomatoes, and has homologs in the genomes of other Enterobacteriaceae that are able to colonize plant and animal hosts.<ref name="Moraes MH 2018"/>


== Research ==
== Research ==
In addition to their importance as pathogens, nontyphoidal Salmonella species such as ''S. enterica'' serovar Typhimurium are commonly used as [[Homology (biology)|homologues]] of typhoid species. Many findings are transferable and it attenuates the danger for the researcher in case of contamination, but is also limited. For example, it is not possible to study specific typhoidal toxins using this model.<ref>{{cite journal | vauthors = Johnson R, Mylona E, Frankel G | title = Typhoidal Salmonella: Distinctive virulence factors and pathogenesis | journal = Cellular Microbiology | volume = 20 | issue = 9 | pages = e12939 | date = September 2018 | pmid = 30030897 | doi = 10.1111/cmi.12939 | s2cid = 51705854 | doi-access = free }}</ref> However, strong research tools such as the commonly-used mouse intestine [[gastroenteritis]] model build upon the use of ''Salmonella'' Typhimurium.<ref>{{cite journal | vauthors = Hapfelmeier S, Hardt WD | title = A mouse model for S. typhimurium-induced enterocolitis | journal = Trends in Microbiology | volume = 13 | issue = 10 | pages = 497–503 | date = October 2005 | pmid = 16140013 | doi = 10.1016/j.tim.2005.08.008 }}</ref>
In addition to their importance as pathogens, nontyphoidal Salmonella species such as ''S. enterica'' serovar Typhimurium are commonly used as [[Homology (biology)|homologues]] of typhoid species. Many findings are transferable and it attenuates the danger for the researcher in case of contamination, but is also limited. For example, it is not possible to study specific typhoidal toxins using this model.<ref>{{cite journal | vauthors = Johnson R, Mylona E, Frankel G | title = Typhoidal Salmonella: Distinctive virulence factors and pathogenesis | journal = Cellular Microbiology | volume = 20 | issue = 9 | article-number = e12939 | date = September 2018 | pmid = 30030897 | doi = 10.1111/cmi.12939 | s2cid = 51705854 | doi-access = free }}</ref> However, strong research tools such as the commonly used mouse intestine [[gastroenteritis]] model build upon the use of ''Salmonella'' Typhimurium.<ref>{{cite journal | vauthors = Hapfelmeier S, Hardt WD | title = A mouse model for S. typhimurium-induced enterocolitis | journal = Trends in Microbiology | volume = 13 | issue = 10 | pages = 497–503 | date = October 2005 | pmid = 16140013 | doi = 10.1016/j.tim.2005.08.008 }}</ref>


For [[genetics]], ''S.'' Typhimurium has been instrumental in the development of genetic tools that led to an understanding of fundamental bacterial physiology. These developments were enabled by the discovery of the first generalized transducing phage P22<ref>{{cite journal | vauthors = Zinder ND, Lederberg J | title = Genetic exchange in Salmonella | journal = Journal of Bacteriology | volume = 64 | issue = 5 | pages = 679–699 | date = November 1952 | pmid = 12999698 | pmc = 169409 | doi = 10.1128/JB.64.5.679-699.1952 }}</ref> in ''S''. Typhimurium, that allowed quick and easy [[genetic editing]]. In turn, this made fine structure genetic analysis possible. The large number of mutants led to a revision of genetic nomenclature for bacteria.<ref>{{cite journal | vauthors = Demerec M, Adelberg EA, Clark AJ, Hartman PE | title = A proposal for a uniform nomenclature in bacterial genetics | journal = Genetics | volume = 54 | issue = 1 | pages = 61–76 | date = July 1966 | pmid = 5961488 | pmc = 1211113 | doi = 10.1093/genetics/54.1.61 }}</ref> Many of the uses of transposons as genetic tools, including transposon delivery, mutagenesis, and construction of chromosome rearrangements, were also developed in ''S''. Typhimurium. These genetic tools also led to a simple test for carcinogens, the Ames test.<ref>{{cite journal | vauthors = Ames BN, Mccann J, Yamasaki E | title = Methods for detecting carcinogens and mutagens with the Salmonella/mammalian-microsome mutagenicity test | journal = Mutation Research | volume = 31 | issue = 6 | pages = 347–364 | date = December 1975 | pmid = 768755 | doi = 10.1016/0165-1161(75)90046-1 }}</ref>
For [[genetics]], ''S.'' Typhimurium has been instrumental in the development of genetic tools that led to an understanding of fundamental bacterial physiology. These developments were enabled by the discovery of the first generalized transducing phage P22<ref>{{cite journal | vauthors = Zinder ND, Lederberg J | title = Genetic exchange in Salmonella | journal = Journal of Bacteriology | volume = 64 | issue = 5 | pages = 679–699 | date = November 1952 | pmid = 12999698 | pmc = 169409 | doi = 10.1128/JB.64.5.679-699.1952 }}</ref> in ''S''. Typhimurium, that allowed quick and easy [[genetic editing]]. In turn, this made fine structure genetic analysis possible. The large number of mutants led to a revision of genetic nomenclature for bacteria.<ref>{{cite journal | vauthors = Demerec M, Adelberg EA, Clark AJ, Hartman PE | title = A proposal for a uniform nomenclature in bacterial genetics | journal = Genetics | volume = 54 | issue = 1 | pages = 61–76 | date = July 1966 | pmid = 5961488 | pmc = 1211113 | doi = 10.1093/genetics/54.1.61 }}</ref> Many of the uses of transposons as genetic tools, including transposon delivery, mutagenesis, and construction of chromosome rearrangements, were also developed in ''S''. Typhimurium. These genetic tools also led to a simple test for carcinogens, the Ames test.<ref>{{cite journal | vauthors = Ames BN, Mccann J, Yamasaki E | title = Methods for detecting carcinogens and mutagens with the Salmonella/mammalian-microsome mutagenicity test | journal = Mutation Research | volume = 31 | issue = 6 | pages = 347–364 | date = December 1975 | pmid = 768755 | doi = 10.1016/0165-1161(75)90046-1 }}</ref>


As a natural alternative to traditional antimicrobials, phages are being recognised as highly effective control agents for Salmonella and other foodborne bacteria.<ref>{{cite journal | vauthors = Ge H, Lin C, Xu Y, Hu M, Xu Z, Geng S, Jiao X, Chen X | title = A phage for the controlling of Salmonella in poultry and reducing biofilms | journal = Veterinary Microbiology | volume = 269 | page = 109432 | date = June 2022 | pmid = 35489296 | doi = 10.1016/j.vetmic.2022.109432 | s2cid = 248195843 }}</ref>
As a natural alternative to traditional antimicrobials, phages are being recognised as highly effective control agents for Salmonella and other foodborne bacteria.<ref>{{cite journal | vauthors = Ge H, Lin C, Xu Y, Hu M, Xu Z, Geng S, Jiao X, Chen X | title = A phage for the controlling of Salmonella in poultry and reducing biofilms | journal = Veterinary Microbiology | volume = 269 | article-number = 109432 | date = June 2022 | pmid = 35489296 | doi = 10.1016/j.vetmic.2022.109432 | s2cid = 248195843 }}</ref>


== Ancient DNA ==
== Ancient DNA ==
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{{Commons category|Salmonella}}
{{Commons category|Salmonella}}
{{Wikispecies|Salmonella}}
{{Wikispecies|Salmonella}}
* [http://www.fsis.usda.gov/wps/portal/fsis/topics/food-safety-education/get-answers/food-safety-fact-sheets/foodborne-illness-and-disease/salmonella-questions-and-answers/CT_Index Background on Salmonella] from the [http://www.fsis.usda.gov/ Food Safety and Inspection Service] of the [https://web.archive.org/web/20080708230355/http://www.usda.gov/wps/portal/usdahome United States Department of Agriculture]
* [https://web.archive.org/web/20140702232213/http://www.fsis.usda.gov/wps/portal/fsis/topics/food-safety-education/get-answers/food-safety-fact-sheets/foodborne-illness-and-disease/salmonella-questions-and-answers/CT_Index Background on Salmonella] from the [https://www.fsis.usda.gov/ Food Safety and Inspection Service] of the [https://web.archive.org/web/20080708230355/http://www.usda.gov/wps/portal/usdahome United States Department of Agriculture]
* [https://patricbrc.org/view/Taxonomy/590#view_tab=overview Salmonella] genomes and related information at [http://patricbrc.org/ PATRIC], a Bioinformatics Resource Center funded by [https://www.niaid.nih.gov/ NIAID]
* [https://patricbrc.org/view/Taxonomy/590#view_tab=overview Salmonella] genomes and related information at [http://patricbrc.org/ PATRIC], a Bioinformatics Resource Center funded by [https://www.niaid.nih.gov/ NIAID]
* [http://www.unitedsanitizing.com/index.php/technical/frequently-asked-questions/ Questions and Answers about commercial and institutional sanitizing methods] {{Webarchive|url=https://web.archive.org/web/20170629062208/http://www.unitedsanitizing.com/index.php/technical/frequently-asked-questions/ |date=2017-06-29 }}
* [http://www.unitedsanitizing.com/index.php/technical/frequently-asked-questions/ Questions and Answers about commercial and institutional sanitizing methods] {{Webarchive|url=https://web.archive.org/web/20170629062208/http://www.unitedsanitizing.com/index.php/technical/frequently-asked-questions/ |date=2017-06-29 }}

Latest revision as of 05:17, 8 December 2025

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Salmonella is a genus of rod-shaped, (bacillus) Gram-negative bacteria of the family Enterobacteriaceae. The two known species of Salmonella are Salmonella enterica and Salmonella bongori. S. enterica is the type species and is further divided into six subspecies[1][2] that include over 2,650 serotypes.[3] Salmonella was named after Daniel Elmer Salmon (1850–1914), an American veterinary surgeon.

Salmonella species are non-spore-forming, predominantly motile enterobacteria with cell diameters between about 0.7 and 1.5 μm, lengths from 2 to 5 μm, and peritrichous flagella (all around the cell body, allowing them to move).[4] They are chemotrophs, obtaining their energy from oxidation and reduction reactions, using organic sources. They are also facultative anaerobes, capable of generating adenosine triphosphate with oxygen ("aerobically") when it is available, or using other electron acceptors or fermentation ("anaerobically") when oxygen is not available.[4]

Salmonella species are intracellular pathogens,[5] of which certain serotypes cause illness such as salmonellosis. Most infections are due to the ingestion of food contaminated by feces. Typhoidal Salmonella serotypes can only be transferred between humans and can cause foodborne illness as well as typhoid and paratyphoid fever. Typhoid fever is caused by typhoidal Salmonella invading the bloodstream, as well as spreading throughout the body, invading organs, and secreting endotoxins (the septic form). This can lead to life-threatening hypovolemic shock and septic shock, and requires intensive care, including antibiotics.

Nontyphoidal Salmonella serotypes are zoonotic and can be transferred from animals and between humans. They usually invade only the gastrointestinal tract and cause salmonellosis, the symptoms of which can be resolved without antibiotics. However, in sub-Saharan Africa, nontyphoidal Salmonella can be invasive and cause paratyphoid fever, which requires immediate antibiotic treatment.[6]

Taxonomy

Script error: No such module "Labelled list hatnote". Script error: No such module "Labelled list hatnote". The genus Salmonella is part of the family of Enterobacteriaceae. Its taxonomy has been revised and has the potential to confuse. The genus comprises two species, S. bongori and S. enterica, the latter of which is divided into six subspecies: S. e. enterica, S. e. salamae, S. e. arizonae, S. e. diarizonae, S. e. houtenae, and S. e. indica.[7][8] The taxonomic group contains more than 2500 serotypes (also serovars) defined on the basis of the somatic O (lipopolysaccharide) and flagellar H antigens (the Kauffman–White classification). The full name of a serotype is given as, for example, Salmonella enterica subsp. enterica serotype Typhimurium, but can be abbreviated to Salmonella Typhimurium. Further differentiation of strains to assist clinical and epidemiological investigation may be achieved by antibiotic sensitivity testing and by other molecular biology techniques such as pulsed-field gel electrophoresis, multilocus sequence typing, and, increasingly, whole genome sequencing. Historically, salmonellae have been clinically categorized as invasive (typhoidal) or non-invasive (nontyphoidal salmonellae) based on host preference and disease manifestations in humans.[9]

History

Salmonella was first visualized in 1880 by Karl Eberth in the Peyer's patches and spleens of typhoid patients.[10] Four years later, Georg Theodor Gaffky was able to grow the pathogen in pure culture.[11] A year after that, medical research scientist Theobald Smith discovered what would be later known as Salmonella enterica (var. Choleraesuis). At the time, Smith was working as a research laboratory assistant in the Veterinary Division of the United States Department of Agriculture. The division was under the administration of Daniel Elmer Salmon, a veterinary pathologist.[12] Initially, Salmonella Choleraesuis was thought to be the causative agent of hog cholera, so Salmon and Smith named it "Hog-cholera bacillus". The name Salmonella was not used until 1900, when Joseph Leon Lignières proposed that the pathogen discovered by Salmon's group be called Salmonella in his honor.[13]Template:Rp

In the late 1930s, Australian bacteriologist Nancy Atkinson established a salmonella typing laboratory – one of only three in the world at the time – at the Government of South Australia's Laboratory of Pathology and Bacteriology in Adelaide (later the Institute of Medical and Veterinary Science). It was here that Atkinson described multiple new strains of salmonella, including Salmonella Adelaide, which was isolated in 1943. Atkinson published her work on salmonellas in 1957.[14]

Serotyping

Serotyping is done by mixing cells with antibodies for a particular antigen. It can give some idea about risk. A 2014 study showed that S. Reading is very common among young turkey samples, but it is not a significant contributor to human salmonellosis.[15] Serotyping can assist in identifying the source of contamination by matching serotypes in people with serotypes in the suspected source of infection.[16] Appropriate prophylactic treatment can be identified from the known antibiotic resistance of the serotype.[17]

Newer methods of "serotyping" include xMAP and real-time PCR, two methods based on DNA sequences instead of antibody reactions. These methods can be potentially faster, thanks to advances in sequencing technology. These "molecular serotyping" systems actually perform genotyping of the genes that determine surface antigens.[18][19]

Detection, culture, and growth conditions

File:FDA Lab 3000 (4494152579).jpg
US Food and Drug Administration scientist tests for presence of Salmonella

Most subspecies of Salmonella produce hydrogen sulfide,[20] which can readily be detected by growing them on media containing ferrous sulfate, such as is used in the triple sugar iron test. Most isolates exist in two phases, a motile phase and a non-motile phase. Cultures that are nonmotile upon primary culture may be switched to the motile phase using a Craigie tube or ditch plate.[21] RVS broth can be used to enrich for Salmonella species for detection in a clinical sample.[22]

Salmonella can also be detected and subtyped using multiplex[23] or real-time polymerase chain reaction (qPCR)[24] from extracted Salmonella DNA.

Mathematical models of Salmonella growth kinetics have been developed for chicken, pork, tomatoes, and melons.[25][26][27][28][29] Salmonella reproduce asexually with a cell division interval of 40 minutes.[13][15][16][17]

Salmonella species lead predominantly host-associated lifestyles, but the bacteria were found to be able to persist in a bathroom setting for weeks following contamination, and are frequently isolated from water sources, which act as bacterial reservoirs and may help to facilitate transmission between hosts.[30] Salmonella is notorious for its ability to survive desiccation and can persist for years in dry environments and foods.[31]

The bacteria are not destroyed by freezing,[32][33] but UV light and heat accelerate their destruction. They perish after being heated to Script error: No such module "convert". for 90 min, or to Script error: No such module "convert". for 12 min,[34] although if inoculated in high fat, high liquid substances like peanut butter, they gain heat resistance and can survive up to Script error: No such module "convert". for 30 min.[35] To protect against Salmonella infection, heating food to an internal temperature of Script error: No such module "convert". is recommended.[36][37]

Salmonella species can be found in the digestive tracts of humans and animals, especially reptiles. Salmonella on the skin of reptiles or amphibians can be passed to people who handle the animals.[38] Food and water can also be contaminated with the bacteria if they come in contact with the feces of infected people or animals.[39]

Nomenclature

Script error: No such module "Labelled list hatnote". Initially, each Salmonella "species" was named according to clinical consideration, for example Salmonella typhi-murium (mouse-typhoid), S. cholerae-suis (pig-cholera). After host specificity was recognized not to exist for many species, new strains received species names according to the location at which the new strain was isolated.[40]

In 1987, Le Minor and Popoff used molecular findings to argue that Salmonella consisted of only one species, S. enterica, turning former "species" names into serotypes.[41] In 1989, Reeves et al. proposed that the serotype V should remain its own species, resurrecting the name S. bongori.[42] The current (by 2005) nomenclature has thus taken shape, with six recognised subspecies under S. enterica: enterica (serotype I), salamae (serotype II), arizonae (IIIa), diarizonae (IIIb), houtenae (IV), and indica (VI).[2][43][44][45] As specialists in infectious disease are not familiar with the new nomenclature, the traditional nomenclature remains common.Script error: No such module "Unsubst".

The serotype or serovar is a classification of Salmonella based on antigens that the organism presents. The Kauffman–White classification scheme differentiates serological varieties from each other. Serotypes are usually put into subspecies groups after the genus and species, with the serotypes/serovars capitalized, but not italicized: An example is Salmonella enterica serovar Typhimurium. More modern approaches for typing and subtyping Salmonella include DNA-based methods such as pulsed field gel electrophoresis, multiple-loci VNTR analysis, multilocus sequence typing, and multiplex-PCR-based methods.[46][47]

In 2005, a third species, Salmonella subterranea, was proposed, but according to the World Health Organization, the bacterium reported does not belong in the genus Salmonella.[48] In 2016, S. subterranea was proposed to be assigned to Atlantibacter subterranea,[49] but LPSN rejects it as an invalid publication, as it was made outside of IJSB and IJSEM.[50] GTDB and NCBI agree with the 2016 reassignment.[51][52]

GTDB RS202 reports that S. arizonae, S. diarizonae, and S. houtenae should be species of their own.[53]

Pathogenicity

Salmonella species are facultative intracellular pathogens.[5] Salmonella can invade different cell types, including epithelial cells, M cells, macrophages, and dendritic cells.[54] As facultative anaerobic organism, Salmonella uses oxygen to make adenosine triphosphate (ATP) in aerobic environments (i.e., when oxygen is available). However, in anaerobic environments (i.e., when oxygen is not available) Salmonella produces ATP by fermentation—that is, by substituting, instead of oxygen, at least one of four electron acceptors at the end of the electron transport chain: sulfate, nitrate, sulfur, or fumarate (all of which are less efficient than oxygen).[55]

Most infections are due to ingestion of food contaminated by animal feces, or by human feces (for example, from the hands of a food-service worker at a commercial eatery). Salmonella serotypes can be divided into two main groups—typhoidal and nontyphoidal. Typhoidal serotypes include Salmonella Typhi and Salmonella Paratyphi A, which are adapted to humans and do not occur in other animals. Nontyphoidal serotypes are more common, and usually cause self-limiting gastrointestinal disease. They can infect a range of animals, and are zoonotic, meaning they can be transferred between humans and other animals.[56][57]

Salmonella pathogenicity and host interaction has been studied extensively since the 2010s. Most of the important virulent genes of Salmonella are encoded in five pathogenicity islands—the so-called Salmonella pathogenicity islands (SPIs). These are chromosomal encoded and make a significant contribution to bacterial-host interaction. More traits, like plasmids, flagella or biofilm-related proteins, can contribute in the infection. SPIs are regulated by complex and fine-tuned regulatory networks that allow the gene expression only in the presence of the right environmental stresses.[4]

Molecular modeling and active site analysis of SdiA homolog, a putative quorum sensor for Salmonella typhimurium pathogenicity, reveals the specific binding patterns of AHL transcriptional regulators.[58] It is also known that Salmonella plasmid virulence gene spvB enhances bacterial virulence by inhibiting autophagy.[59]

Typhoidal Salmonella

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Typhoid fever is caused by Salmonella serotypes which are strictly adapted to humans or higher primates—these include Salmonella Typhi, Paratyphi A, Paratyphi B, and Paratyphi C. In the systemic form of the disease, salmonellae pass through the lymphatic system of the intestine into the blood of the patients (typhoid form) and are carried to various organs (liver, spleen, kidneys) to form secondary foci (septic form). Endotoxins first act on the vascular and nervous apparatus, resulting in increased permeability and decreased tone of the vessels, upset of thermal regulation, and vomiting and diarrhoea. In severe forms of the disease, enough liquid and electrolytes are lost to upset the water-salt metabolism, decrease the circulating blood volume and arterial pressure, and cause hypovolemic shock. Septic shock may also develop. Shock of mixed character (with signs of both hypovolemic and septic shock) is more common in severe salmonellosis. Oliguria and azotemia may develop in severe cases as a result of renal involvement due to hypoxia and toxemia.Script error: No such module "Unsubst".

Nontyphoidal Salmonella

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Gastroenteritis

Infection with nontyphoidal serotypes of Salmonella generally results in gastroenteritis or what is commonly called food poisoning. Experimental infections of healthy adults suggest that Infection usually occurs when a person ingests a high concentration of the bacteria[60] but studies of outbreaks from contaminated food suggests that much lower doses can result in infection[61]. Infants, young children and the elderly are likely to be more susceptible to infection, easily achieved by ingesting a small number of bacteria, although direct evidence of this is not available. In infants, infection through inhalation of bacteria-laden dust is possible.[62]

The organisms enter through the digestive tract. Infection is initiated after Salmonella reach the gastrointestinal tract. Gastric acidity is responsible for the destruction of the majority of ingested bacteria, but Salmonella has evolved a degree of tolerance to acidic environments that allows a subset of ingested bacteria to survive.[63] Some of the microorganisms are killed in the stomach, while the surviving ones enter the small intestine, invade cells of the epithelium and multiply within the cells in tissues. Salmonella triggers a strong immune response through a number of mechanisms that leads to inflammatory diarrhoea typical of gastroenteritis[64]. The inflammatory response also results in changes to the good bacteria resident in the gut lumen, that favours outgrowth of the Salmonella at this location[65]. Consequently, a combination of high numbers of Salmonella in the faeces and diarrhoea contributes to transmission via contamination of the environment.

About 2,000 serotypes of nontyphoidal Salmonella are known, which may be responsible for as many as 1.4 million illnesses in the United States each year. People who are at risk for severe illness include infants, elderly, organ-transplant recipients, and the immunocompromised.[39]

Disseminated Disease (or invasive nontyphoidal Salmonella disease, iNTS)

While, in developed countries, non-typhoidal serotypes present mostly as gastrointestinal disease, in sub-Saharan Africa, these serotypes can create a major problem in bloodstream infections, and are the most commonly isolated bacteria from the blood of those presenting with fever. Bloodstream infections caused by nontyphoidal salmonellae in Africa are normally associated with co-morbidities including Malaria, HIV and malnutrition, and were reported in 2012 to have a case fatality rate of 20–25%. Most cases of invasive nontyphoidal Salmonella infection (iNTS) are caused by Salmonella enterica Typhimurium or Salmonella enterica Enteritidis. A new form of Salmonella Typhimurium (ST313, lineage I) emerged in the southeast of the African continent 75 years ago, followed by a second wave (ST313, lineage II) which came out of central Africa 18 years later[66]. This second wave of iNTS possibly originated in the Congo Basin, was characterized by changes in its genome sequence called genome degradation that is typical of host-adapted and host restricted serotypes such as Salmonella enterica serotype Typhi. Spread of the second wave in the early part of the 21st century was coincided with acquisition of a gene that made it resistant to the antibiotic chloramphenicol[67]. This created the need to use expensive antimicrobial drugs in areas of Africa that were very poor, making treatment difficult. The increased prevalence of iNTS in sub-Saharan Africa compared to other regions is thought to be due to the large proportion of the African population with some degree of immune suppression or impairment due to the burden of HIV, malaria, and malnutrition, especially in children. The genetic makeup of iNTS is evolving into a more typhoid-like bacterium, able to efficiently spread around the human body. Symptoms are reported to be diverse, including fever, hepatosplenomegaly, and respiratory symptoms, often with an absence of gastrointestinal symptoms.[68]

Epidemiology

Due to being considered sporadic, between 60% and 80% of salmonella infections cases go undiagnosed.[69] In March 2010, data analysis was completed to estimate an incidence rate of 1140 per 100,000 person-years. In the same analysis, 93.8 million cases of gastroenteritis were due to salmonella infections. At the 5th percentile the estimated amount was 61.8 million cases and at the 95th percentile the estimated amount was 131.6 million cases. The estimated number of deaths due to salmonella was approximately 155,000 deaths.[70] In 2014, in countries such as Bulgaria and Portugal, children under 4 were 32 and 82 times more likely, respectively, to have a salmonella infection.[71] Those who are most susceptible to infection are: children, pregnant women, elderly people, and those with deficient immune systems.[72]

Risk factors for Salmonella infections include a variety of foods. Meats such as chicken and pork have the possibility to be contaminated. A variety of vegetables and sprouts may also have salmonella. Lastly, a variety of processed foods such as chicken nuggets and pot pies may also contain this bacteria.[73]

Successful forms of prevention come from existing entities such as the FDA, United States Department of Agriculture, and the Food Safety and Inspection Service. All of these organizations create standards and inspections to ensure public safety in the U.S. For example, the FSIS agency working with the USDA has a Salmonella Action Plan in place. Recently, it received a two-year plan update in February 2016. Their accomplishments and strategies to reduce Salmonella infection are presented in the plans.[74] The Centers for Disease Control and Prevention also provides valuable information on preventative care, such has how to safely handle raw foods, and the correct way to store these products. In the European Union, the European Food Safety Authority created preventative measures through risk management and risk assessment. From 2005 to 2009, the EFSA placed an approach to reduce exposure to Salmonella. Their approach included risk assessment and risk management of poultry, which resulted in a reduction of infection cases by one half.[75] In Latin America an orally administered vaccine for Salmonella in poultry developed by Dr. Sherry Layton has been introduced which prevents the bacteria from contaminating the birds.[76]

A Salmonella Typhimurium outbreak in 2022 was linked to chocolate produced in Belgium, leading to the country temporarily halting Kinder chocolate production.[77][78]

In Germany, food-borne infections must be reported.[79] From 1990 to 2016, the number of officially recorded cases decreased from about 200,000 to about 13,000 cases.[80] In the United States, about 1,200,000 cases of Salmonella infection are estimated to occur each year.[81] A World Health Organization study estimated that 21,650,974 cases of typhoid fever occurred in 2000, 216,510 of which resulted in death, along with 5,412,744 cases of paratyphoid fever.[82]

Molecular mechanisms of infection

The mechanisms of infection differ between typhoidal and nontyphoidal serotypes, owing to their different targets in the body and the different symptoms that they cause. Both groups must enter by crossing the barrier created by the intestinal cell wall, but once they have passed this barrier, they use different strategies to cause infection.Script error: No such module "Unsubst".

Switch to virulence

While travelling to their target tissue in the gastrointestinal tract, Salmonella is exposed to stomach acid, to the detergent-like activity of bile in the intestine, to decreasing oxygen supply, to the competing normal gut flora, and finally to antimicrobial peptides present on the surface of the cells lining the intestinal wall. All of these form stresses that Salmonella can sense and reacts against, and they form virulence factors and as such regulate the switch from their normal growth in the intestine into virulence.[83]

The switch to virulence gives access to a replication niche inside the host (such as humans), and can be summarised into several stages:Script error: No such module "Unsubst".

  1. Approach, in which they travel towards a host cell via intestinal peristalsis and through active swimming via the flagella, penetrate the mucus barrier, and locate themselves close to the epithelium lining the intestine,
  2. Adhesion, in which they adhere to a host cell using bacterial adhesins and a type III secretion system,
  3. Invasion, in which Salmonella enter the host cell (see variant mechanisms below),
  4. Replication, in which the bacterium may reproduce inside the host cell,
  5. Spread, in which the bacterium can spread to other organs via cells in the blood (if it succeeded in avoiding the immune defence). Alternatively, bacteria can go back towards the intestine, re-seeding the intestinal population.
  6. Re-invasion (a secondary infection, if now at a systemic site) and further replication.

Mechanisms of entry

Nontyphoidal serotypes preferentially enter M cells on the intestinal wall by bacterial-mediated endocytosis, a process associated with intestinal inflammation and diarrhoea. They are also able to disrupt tight junctions between the cells of the intestinal wall, impairing the cells' ability to stop the flow of ions, water, and immune cells into and out of the intestine. The combination of the inflammation caused by bacterial-mediated endocytosis and the disruption of tight junctions is thought to contribute significantly to the induction of diarrhoea.[84]

Salmonellae are also able to breach the intestinal barrier via phagocytosis and trafficking by CD18-positive immune cells, which may be a mechanism key to typhoidal Salmonella infection. This is thought to be a more stealthy way of passing the intestinal barrier, and may, therefore, contribute to the fact that lower numbers of typhoidal Salmonella are required for infection than nontyphoidal Salmonella.[84] Salmonella cells are able to enter macrophages via macropinocytosis.[85] Typhoidal serotypes can use this to achieve dissemination throughout the body via the mononuclear phagocyte system, a network of connective tissue that contains immune cells, and surrounds tissue associated with the immune system throughout the body.[84]

Much of the success of Salmonella in causing infection is attributed to two type III secretion systems (T3SS) which are expressed at different times during the infection. The T3SS-1 enables the injection of bacterial effectors within the host cytosol. These T3SS-1 effectors stimulate the formation of membrane ruffles allowing the uptake of Salmonella by nonphagocytic cells. Salmonella further resides within a membrane-bound compartment called the Salmonella-Containing Vacuole (SCV). The acidification of the SCV leads to the expression of the T3SS-2. The secretion of T3SS-2 effectors by Salmonella is required for its efficient survival in the host cytosol and establishment of systemic disease.[84] In addition, both T3SS are involved in the colonization of the intestine, induction of intestinal inflammatory responses and diarrhea. These systems contain many genes which must work cooperatively to achieve infection.Script error: No such module "Unsubst".

The AvrA toxin injected by the SPI1 type III secretion system of S. Typhimurium works to inhibit the innate immune system by virtue of its serine/threonine acetyltransferase activity, and requires binding to eukaryotic target cell phytic acid (IP6).[86] This leaves the host more susceptible to infection.Script error: No such module "Unsubst".

Clinical symptoms

Salmonellosis is known to be able to cause back pain or spondylosis. It can manifest as five clinical patterns: gastrointestinal tract infection, enteric fever, bacteremia, local infection, and the chronic reservoir state. The initial symptoms are nonspecific fever, weakness, and myalgia among others. In the bacteremia state, it can spread to any parts of the body and this induces localized infection or it forms abscesses. The forms of localized Salmonella infections are arthritis, urinary tract infection, infection of the central nervous system, bone infection, soft tissue infection, etc.[87] Infection may remain as the latent form for a long time, and when the function of reticular endothelial cells is deteriorated, it may become activated and consequently, it may secondarily induce spreading infection in the bone several months or several years after acute salmonellosis.[87]

A 2018 Imperial College London study also shows how salmonella disrupt specific arms of the immune system (e.g. 3 of 5 NF-kappaB proteins) using a family of zinc metalloproteinase effectors, leaving others untouched.[88] Salmonella thyroid abscess has also been reported.[89]

Resistance to oxidative burst

A hallmark of Salmonella pathogenesis is the ability of the bacterium to survive and proliferate within phagocytes. Phagocytes produce DNA-damaging agents such as nitric oxide and oxygen radicals as a defense against pathogens. Thus, Salmonella species must face attack by molecules that challenge genome integrity. Buchmeier et al.[90] showed that mutants of S. enterica lacking RecA or RecBC protein function are highly sensitive to oxidative compounds synthesized by macrophages, and furthermore these findings indicate that successful systemic infection by S. enterica requires RecA- and RecBC-mediated recombinational repair of DNA damage.[90][91]

Host adaptation

S. enterica, through some of its serotypes such as Typhimurium and Enteritidis, shows signs that it has the ability to infect several different mammalian host species, while other serotypes, such as Typhi, seem to be restricted to only a few hosts.[92] Two ways that Salmonella serotypes have adapted to their hosts are by the loss of genetic material, and mutation. In more complex mammalian species, immune systems, which include pathogen specific immune responses, target serovars of Salmonella by binding antibodies to structures such as flagella. Thus Salmonella that has lost the genetic material which codes for a flagellum to form can evade a host's immune system.[93] mgtC leader RNA from bacteria virulence gene (mgtCBR operon) decreases flagellin production during infection by directly base pairing with mRNAs of the fljB gene encoding flagellin and promotes degradation.[94] In the study by Kisela et al., more pathogenic serovars of S. enterica were found to have certain adhesins in common that have developed out of convergent evolution.[95] This means that, as these strains of Salmonella have been exposed to similar conditions such as immune systems, similar structures evolved separately to negate these similar, more advanced defenses in hosts. Although many questions remain about how Salmonella has evolved into so many different types, Salmonella may have evolved through several phases. For example, as Baumler et al. have suggested, Salmonella most likely evolved through horizontal gene transfer, and through the formation of new serovars due to additional pathogenicity islands, and through an approximation of its ancestry.[96] So, Salmonella could have evolved into its many different serotypes by gaining genetic information from different pathogenic bacteria. The presence of several pathogenicity islands in the genome of different serotypes has lent credence to this theory.[96]

Salmonella sv. Newport shows signs of adaptation to a plant-colonization lifestyle, which may play a role in its disproportionate association with food-borne illness linked to produce. A variety of functions selected for during sv. Newport persistence in tomatoes have been reported to be similar to those selected for in sv. Typhimurium from animal hosts.[97] The papA gene, which is unique to sv. Newport, contributes to the strain's fitness in tomatoes, and has homologs in the genomes of other Enterobacteriaceae that are able to colonize plant and animal hosts.[97]

Research

In addition to their importance as pathogens, nontyphoidal Salmonella species such as S. enterica serovar Typhimurium are commonly used as homologues of typhoid species. Many findings are transferable and it attenuates the danger for the researcher in case of contamination, but is also limited. For example, it is not possible to study specific typhoidal toxins using this model.[98] However, strong research tools such as the commonly used mouse intestine gastroenteritis model build upon the use of Salmonella Typhimurium.[99]

For genetics, S. Typhimurium has been instrumental in the development of genetic tools that led to an understanding of fundamental bacterial physiology. These developments were enabled by the discovery of the first generalized transducing phage P22[100] in S. Typhimurium, that allowed quick and easy genetic editing. In turn, this made fine structure genetic analysis possible. The large number of mutants led to a revision of genetic nomenclature for bacteria.[101] Many of the uses of transposons as genetic tools, including transposon delivery, mutagenesis, and construction of chromosome rearrangements, were also developed in S. Typhimurium. These genetic tools also led to a simple test for carcinogens, the Ames test.[102]

As a natural alternative to traditional antimicrobials, phages are being recognised as highly effective control agents for Salmonella and other foodborne bacteria.[103]

Ancient DNA

S. enterica genomes have been reconstructed from up to 6,500 year old human remains across Western Eurasia, which provides evidence for geographic widespread infections with systemic S. enterica during prehistory, and a possible role of the Neolithization process in the evolution of host adaptation.[104][105] Additional reconstructed genomes from colonial Mexico suggest S. enterica as the cause of cocoliztli, an epidemic in 16th-century New Spain.[106]

See also

References

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External links

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