Bacteroidales: Difference between revisions

Bacteroidales
	Bacteroides biacutis anaerobically cultured in blood agar medium
Scientific classification
Domain:	Bacteria
Phylum:	"Bacteroidetes"
Class:	Bacteroidia; Krieg 2012
Order:	Bacteroidales; Krieg 2012
Families
	Bacteroidaceae Pribram 1933 (Approved Lists 1980); Balneicellaceae Fadhlaoui et al. 2016; Barnesiellaceae García-López et al. 2020; Dysgonomonadaceae García-López et al. 2020; "Candidatus Homeothermaceae" Ormerod et al. 2016; Lentimicrobiaceae Sun et al. 2016; Marinifilaceae Iino et al. 2014; Marinilabiliaceae Ludwig et al. 2012; Muribaculaceae Lagkouvardos et al. 2019; Odoribacteraceae Munoz et al. 2016; "Paludibacteraceae" Ormerod et al. 2016; Porphyromonadaceae Krieg 2012; Prevotellaceae Krieg 2012; Prolixibacteraceae Huang et al. 2014; Rikenellaceae Krieg et al. 2012; Salinivirgaceae Ben Hania et al. 2017; "Tannerellaceae" Ormerod et al. 2016; Tenuifilaceae Podosokorskaya et al. 2021; Williamwhitmaniaceae Pikuta et al. 2017; Genera not assigned to a family "Candidatus Armantifilum" Desai et al. 2010; "Candidatus Azobacteroides" Hongoh et al. 2008; "Candidatus Paraporphyromonas" Naas et al. 2018; "Candidatus Symbiothrix" Hongoh et al. 2007; "Candidatus Tammella" Hongoh et al. 2007; "Candidatus Vestibaculum" Stingl et al. 2004; ;
Synonyms
	Bacteroidia: "Bacteroidetia" Cavalier-Smith 2020; ; Bacteroidales: Marinilabiliales Wu et al. 2016; ;

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Bacteroidales is an order of bacteria.^[2]^[5] Notably it includes the genera Prevotella and Bacteroides , which are commonly found in the human gut microbiota.

Phylogeny

The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature^[5] and the phylogeny is based on whole-genome sequences.^[8]^[a]

Bacteroidia

Odoribacteraceae

	Williamwhitmaniaceae

	Rikenellaceae

Lentimicrobiaceae

Salinivirgaceae

Prolixibacteraceae

	Balneicellaceae

	Marinifilaceae

Marinilabiliaceae

Porphyromonadaceae

	"Paludibacteraceae"

	Dysgonomonadaceae

"Tannerellaceae"

	Muribaculaceae

	Barnesiellaceae

	Prevotellaceae

	Bacteroidaceae

outgroups

Flavobacteriia

Notes

^ Tenuifilaceae is not included in this phylogenetic tree.

References

^ Krieg NR. (2010). "Class I. Bacteroidia class. nov.". In Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (ed.). Bergey's Manual of Systematic Bacteriology. Vol. 4 (2nd ed.). New York, NY: Springer. p. 25.{{cite book}}: CS1 maint: multiple names: editors list (link)
^ ^a ^b Krieg NR. (2010). "Order I. Bacteroidales ord. nov.". In Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (ed.). Bergey's Manual of Systematic Bacteriology. Vol. 4 (2nd ed.). New York, NY: Springer. p. 25.{{cite book}}: CS1 maint: multiple names: editors list (link)
^ Ormerod, Kate L.; Wood, David L. A.; Lachner, Nancy; Gellatly, Shaan L.; Daly, Joshua N.; Parsons, Jeremy D.; Dal’Molin, Cristiana G. O.; Palfreyman, Robin W.; Nielsen, Lars K.; Cooper, Matthew A.; Morrison, Mark; Hansbro, Philip M.; Hugenholtz, Philip (7 July 2016). "Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals". Microbiome. 4 (1): 36. doi:10.1186/s40168-016-0181-2. PMC 4936053. PMID 27388460.{{cite journal}}: CS1 maint: unflagged free DOI (link)
^ "Genome of an endosymbiont coupling N₂ fixation to cellulolysis within protist cells in termite gut". Science. 322 (5904): 1108–9. 2008. doi:10.1126/science.1165578. PMID 19008447. {{cite journal}}: Unknown parameter |authors= ignored (help)
^ ^a ^b ^c ""Bacteroidetes"". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved June 25, 2021. {{cite web}}: Unknown parameter |authors= ignored (help)
^ Sayers; et al. "Bacteroidetes". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2016-03-20.
^ Parker, Charles Thomas; Garrity, George M (19 October 2017). "Taxonomic Abstract for the families". NamesforLife, LLC. doi:10.1601/tx.30875. {{cite journal}}: Cite journal requires |journal= (help)
^ García-López M, Meier-Kolthoff JP, Tindall BJ, Gronow S, Woyke T, Kyrpides NC, Hahnke RL, Göker M (2019). "Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes". Front Microbiol. 10: 2083. doi:10.3389/fmicb.2019.02083. PMC 6767994. PMID 31608019.{{cite journal}}: CS1 maint: unflagged free DOI (link)

This Bacteroidota-related article is a stub. You can help Wikipedia by expanding it.

[9] Tenuifilaceae is not included in this phylogenetic tree.

[Krieg1-1] Krieg NR. (2010). "Class I. Bacteroidia class. nov.". In Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (ed.). Bergey's Manual of Systematic Bacteriology. Vol. 4 (2nd ed.). New York, NY: Springer. p. 25.{{cite book}}: CS1 maint: multiple names: editors list (link)

[Krieg2-2] Krieg NR. (2010). "Order I. Bacteroidales ord. nov.". In Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB (ed.). Bergey's Manual of Systematic Bacteriology. Vol. 4 (2nd ed.). New York, NY: Springer. p. 25.{{cite book}}: CS1 maint: multiple names: editors list (link)

[3] Ormerod, Kate L.; Wood, David L. A.; Lachner, Nancy; Gellatly, Shaan L.; Daly, Joshua N.; Parsons, Jeremy D.; Dal’Molin, Cristiana G. O.; Palfreyman, Robin W.; Nielsen, Lars K.; Cooper, Matthew A.; Morrison, Mark; Hansbro, Philip M.; Hugenholtz, Philip (7 July 2016). "Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals". Microbiome. 4 (1): 36. doi:10.1186/s40168-016-0181-2. PMC 4936053. PMID 27388460.{{cite journal}}: CS1 maint: unflagged free DOI (link)

[4] "Genome of an endosymbiont coupling N₂ fixation to cellulolysis within protist cells in termite gut". Science. 322 (5904): 1108–9. 2008. doi:10.1126/science.1165578. PMID 19008447. {{cite journal}}: Unknown parameter |authors= ignored (help)

[LPSN-5] ""Bacteroidetes"". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved June 25, 2021. {{cite web}}: Unknown parameter |authors= ignored (help)

[6] Sayers; et al. "Bacteroidetes". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2016-03-20.

[7] Parker, Charles Thomas; Garrity, George M (19 October 2017). "Taxonomic Abstract for the families". NamesforLife, LLC. doi:10.1601/tx.30875. {{cite journal}}: Cite journal requires |journal= (help)

[García-López-8] García-López M, Meier-Kolthoff JP, Tindall BJ, Gronow S, Woyke T, Kyrpides NC, Hahnke RL, Göker M (2019). "Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes". Front Microbiol. 10: 2083. doi:10.3389/fmicb.2019.02083. PMC 6767994. PMID 31608019.{{cite journal}}: CS1 maint: unflagged free DOI (link)

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[2]

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[6]

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@@ Line 1: / Line 1: @@
 {{short description|Order of bacteria}}
+{{Taxobox
-{{Automatic taxobox
+| name =
 | image = Bacteroides biacutis 01.jpg
 | image_alt = "Bacteroides biacutis" anaerobically cultured in blood agar medium
 | image_caption = ''[[Bacteroides biacutis]]'' [[Anaerobic respiration|anaerobically]] cultured in [[Agar plate#Blood agar|blood agar]] medium
-| taxon = Bacteroidales
+| domain = [[Bacteria]]
+| phylum = "''[[Bacteroidetes]]''"
-| authority =
+| classis = '''''Bacteroidia'''''
-| synonyms =
+| classis_authority = Krieg 2012<ref name="Krieg1">{{cite book | author = Krieg NR. | chapter = Class I. ''Bacteroidia'' class. nov. | editor = Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB | title = Bergey's Manual of Systematic Bacteriology | edition = 2nd | volume = 4 | publisher = Springer | location = New York, NY | year = 2010 | pages = 25}}</ref>
-| synonyms_ref =
+| ordo = '''''Bacteroidales'''''
-| type_species =
+| ordo_authority = Krieg 2012<ref name="Krieg2">{{cite book | author = Krieg NR. | chapter = Order I. ''Bacteroidales'' ord. nov. | editor = Krieg NR, Staley JT, Brown DR, Hedlund BP, Paster BJ, Ward NL, Ludwig W, Whitman WB | title = Bergey's Manual of Systematic Bacteriology | edition = 2nd | volume = 4 | publisher = Springer | location = New York, NY | year = 2010 | pages = 25}}</ref>
-| type_species_authority =
+| subdivision_ranks = Families<ref name="LPSN">{{cite web | authors = Euzéby JP, Parte AC | url = https://lpsn.dsmz.de/phylum/bacteroidetes | title = "''Bacteroidetes''" | access-date = June 25, 2021 | publisher = [[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)}}</ref><ref>{{cite web |author = Sayers| url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=976&lvl=4&lin |title=Bacteroidetes |access-date=2016-03-20 |publisher=[[National Center for Biotechnology Information]] (NCBI) taxonomy database |display-authors=etal}}</ref><ref>{{cite journal |last1=Parker |first1=Charles Thomas |last2=Garrity |first2=George M |title=Taxonomic Abstract for the families. |date=19 October 2017 |doi=10.1601/tx.30875 |publisher=NamesforLife, LLC |language=en}}</ref>
-| subdivision_ranks = Families
 | subdivision =
-*[[Bacteroidaceae]]
+* ''[[Bacteroidaceae]]'' <small>Pribram 1933 (Approved Lists 1980)</small>
-*[[Balneicellaceae]]
+* ''[[Balneicellaceae]]'' <small>Fadhlaoui ''et al''. 2016</small>
+* ''[[Barnesiellaceae]]'' <small>García-López ''et al''. 2020</small>
-*[[Lentimicrobiaceae]]
-*[[Marinifilaceae]] <small>Iino ''et al''. 2014</small>
+* ''[[Dysgonomonadaceae]]'' <small>García-López ''et al''. 2020</small>
-*[[Marinilabiliaceae]] <small>Ludwig ''et al''. 2012</small>
+* "''Candidatus'' Homeothermaceae" <small>Ormerod ''et al''. 2016</small>
+* ''[[Lentimicrobiaceae]]'' <small>Sun ''et al''. 2016</small>
-*[[Muribaculacaeae]]
+* ''[[Marinifilaceae]]'' <small>Iino ''et al''. 2014</small>
-*[[Odoribacteraceae]]
+* ''[[Marinilabiliaceae]]'' <small>Ludwig ''et al''. 2012</small>
-*[[Paludibacteraceae]]<ref>{{cite journal|last1=Ormerod|first1=Kate L.|last2=Wood|first2=David L. A.|last3=Lachner|first3=Nancy|last4=Gellatly|first4=Shaan L.|last5=Daly|first5=Joshua N.|last6=Parsons|first6=Jeremy D.|last7=Dal’Molin|first7=Cristiana G. O.|last8=Palfreyman|first8=Robin W.|last9=Nielsen|first9=Lars K.|last10=Cooper|first10=Matthew A.|last11=Morrison|first11=Mark|last12=Hansbro|first12=Philip M.|last13=Hugenholtz|first13=Philip|title=Genomic characterization of the uncultured Bacteroidales family S24-7 inhabiting the guts of homeothermic animals|journal=Microbiome|date=7 July 2016|volume=4|issue=1|pages=36|doi=10.1186/s40168-016-0181-2|pmid=27388460|pmc=4936053}}</ref>
+* ''[[Muribaculaceae]]'' <small>Lagkouvardos ''et al''. 2019</small>
-*[[Porphyromonadaceae]]
+* ''[[Odoribacteraceae]]'' <small>Munoz ''et al''. 2016</small>
-*[[Prevotellaceae]]
+* "''[[Paludibacteraceae]]''" <small>Ormerod ''et al''. 2016</small><ref>{{cite journal|last1=Ormerod|first1=Kate L.|last2=Wood|first2=David L. A.|last3=Lachner|first3=Nancy|last4=Gellatly|first4=Shaan L.|last5=Daly|first5=Joshua N.|last6=Parsons|first6=Jeremy D.|last7=Dal’Molin|first7=Cristiana G. O.|last8=Palfreyman|first8=Robin W.|last9=Nielsen|first9=Lars K.|last10=Cooper|first10=Matthew A.|last11=Morrison|first11=Mark|last12=Hansbro|first12=Philip M.|last13=Hugenholtz|first13=Philip|title=Genomic characterization of the uncultured ''Bacteroidales'' family S24-7 inhabiting the guts of homeothermic animals|journal=Microbiome|date=7 July 2016|volume=4|issue=1|pages=36|doi=10.1186/s40168-016-0181-2|pmid=27388460|pmc=4936053}}</ref>
-*[[Prolixibacteraceae]] <small>Huang ''et al''. 2014</small>
+* ''[[Porphyromonadaceae]]'' <small>Krieg 2012</small>
-*[[Rikenellaceae]]
+* ''[[Prevotellaceae]]'' <small>Krieg 2012</small>
-*[[Williamwhitmaniaceae]]<ref>{{cite journal |last1=Parker |first1=Charles Thomas |last2=Garrity |first2=George M |title=Taxonomic Abstract for the families. |date=19 October 2017 |doi=10.1601/tx.30875 |publisher=NamesforLife, LLC |language=en}}</ref>
+* ''[[Prolixibacteraceae]]'' <small>Huang ''et al''. 2014</small>
+* ''[[Rikenellaceae]]'' <small>Krieg ''et al''. 2012</small>
+* ''[[Salinivirgaceae]]'' <small>Ben Hania ''et al''. 2017</small>
+* "''[[Tannerellaceae]]''" <small>Ormerod ''et al''. 2016</small>
+* ''[[Tenuifilaceae]]'' <small>Podosokorskaya ''et al''. 2021</small>
+* ''[[Williamwhitmaniaceae]]'' <small>Pikuta ''et al''. 2017</small>
+* Genera not assigned to a family
+** "''Candidatus'' Armantifilum" <small>Desai ''et al''. 2010</small>
+** "''Candidatus'' Azobacteroides" <small>Hongoh ''et al''. 2008</small><ref>{{cite journal | authors = Hongoh Y, Sharma VK, Prakash T, Noda S, Toh H, Taylor TD, Kudo T, Sakaki Y, Toyoda A, Hattori M, Ohkuma M. | year = 2008 | title = Genome of an endosymbiont coupling N<sub>2</sub> fixation to cellulolysis within protist cells in termite gut | journal = Science | volume = 322 | issue = 5904 | pages = 1108–9 | doi = 10.1126/science.1165578 | pmid = 19008447}}</ref>
+** {{no wrap|"''Candidatus'' Paraporphyromonas" <small>Naas ''et al''. 2018</small>}}
+** "''Candidatus'' Symbiothrix" <small>Hongoh ''et al''. 2007</small>
+** "''Candidatus'' Tammella" <small>Hongoh ''et al''. 2007</small>
+** "''Candidatus'' Vestibaculum" <small>Stingl ''et al''. 2004</small>
+| synonyms =
+* ''Bacteroidia'':
+** "''Bacteroidetia''" <small>Cavalier-Smith 2020</small>
+* ''Bacteroidales'':
+** ''Marinilabiliales'' <small>Wu ''et al''. 2016</small>
 }}
-The [[order (biology)|order]] '''Bacteroidales''' comprises ten families of environmental [[bacteria]].<ref name="LPSN" /> Notably it includes the genera ''[[Prevotella]]'' and ''[[Bacteroides]]'' , which are commonly found in the [[Human gastrointestinal microbiota|human gut microbiota]].
+'''''Bacteroidales''''' is an [[order (biology)|order]] of [[bacteria]].<ref name="Krieg2"/><ref name="LPSN" /> Notably it includes the genera ''[[Prevotella]]'' and ''[[Bacteroides]]'' , which are commonly found in the [[Human gastrointestinal microbiota|human gut microbiota]].
+==Phylogeny==
-==Proposed members==
+The currently accepted taxonomy is based on the [[List of Prokaryotic names with Standing in Nomenclature]]<ref name="LPSN"/> and the phylogeny is based on whole-genome sequences.<ref name="García-López">{{cite journal |vauthors = García-López M, Meier-Kolthoff JP, Tindall BJ, Gronow S, Woyke T, Kyrpides NC, Hahnke RL, Göker M | title = Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of ''Bacteroidetes'' | journal = Front Microbiol | year = 2019 | volume = 10 | pages = 2083 | pmid = 31608019 | pmc = 6767994 | doi = 10.3389/fmicb.2019.02083}}</ref>{{efn|''Tenuifilaceae'' is not included in this phylogenetic tree.}}
-Besides the accepted members there are several proposals based on the [[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)<ref>{{cite web |author = J.P. Euzéby | url=http://www.bacterio.net/-classifphyla.html#Bacteroidetes |title=Bacteroidetes | access-date=2016-03-20 |publisher=[[List of Prokaryotic names with Standing in Nomenclature]] (LPSN)}}</ref> and [[National Center for Biotechnology Information]] (NCBI)<ref>{{cite web |author = Sayers| url=https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Tree&id=976&lvl=4&lin |title=Bacteroidetes |access-date=2016-03-20 |publisher=[[National Center for Biotechnology Information]] (NCBI) taxonomy database |display-authors=etal}}</ref> as follows:
-* Genus ?"''Candidatus'' [[Armantifilum]]" <small>Desai ''et al''. 2010</small>
+{{Clade | style=font-size:75%;line-height:75%
-* Genus ?"''Candidatus'' [[Azobacteroides]]" <small>Hongoh ''et al''. 2008</small>
+|1={{clade
-* Genus ?"''Candidatus'' [[Symbiothrix]]" <small>Hongoh ''et al''. 2007</small>
+  |label1='''''Bacteroidia'''''
-* Genus ?"''[[Alkaliflexus imshenetskii]]''" <small>Zhilina ''et al''. 2005</small>
+  |1={{clade
+    |1={{clade
+      |1={{clade
+        |1=''[[Odoribacteraceae]]''
+        |2={{clade
+          |1=''[[Williamwhitmaniaceae]]''
+          |2=''[[Rikenellaceae]]''
+           }}
+         }}
+      |2={{clade
+        |1=''[[Lentimicrobiaceae]]''
+        |2={{clade
+          |1=''[[Salinivirgaceae]]''
+          |2={{clade
+            |1=''[[Prolixibacteraceae]]''
+            |2={{clade
+              |1={{clade
+                |1=''[[Balneicellaceae]]''
+                |2=''[[Marinifilaceae]]''
+                 }}
+              |2=''[[Marinilabiliaceae]]''
+               }}
+             }}
+           }}
+         }}
+       }}
+    |2={{clade
+      |1=''[[Porphyromonadaceae]]''
+      |2={{clade
+        |1={{clade
+          |1="''[[Paludibacteraceae]]''"
+          |2=''[[Dysgonomonadaceae]]''
+           }}
+        |2={{clade
+          |1="''[[Tannerellaceae]]''"
+          |2={{clade
+            |1={{clade
+              |1=''[[Muribaculaceae]]''
+              |2=''[[Barnesiellaceae]]''
+               }}
+            |2={{clade
+              |1=''[[Prevotellaceae]]''
+              |2=''[[Bacteroidaceae]]''
+               }}
+             }}
+           }}
+         }}
+       }}
+     }}
+  |label2=[[Outgroup (cladistics)|outgroups]]
+  |2=''[[Flavobacteriia]]''
+   }}
+}}
+==Notes==
+{{notelist}}
 ==References==
+{{Reflist|2}}
-<references>
-<ref name=LPSN>
-{{cite web | last=Euzéby| first=J. P. | url=http://www.bacterio.net/-classifgenerafamilies.html#Marinilabiliaceae | title=List of Prokaryotic Names with Standing in Nomenclature | access-date=2014-07-15}}</ref>
-</references>
 {{Taxonbar|from=Q3816293}}