Lachnospiraceae

Lachnospiraceae
Scientific classification
Domain:	Bacteria
Kingdom:	Bacillati
Phylum:	Bacillota
Class:	Clostridia
Order:	Eubacteriales
Family:	Lachnospiraceae Rainey 2010 [1]
Genera [2]
See text

The Lachnospiraceae are a family of obligately anaerobic, variably spore-forming bacteria in the order Eubacteriales that ferment diverse plant polysaccharides ^[3] to short-chain fatty acids (butyrate, acetate) and alcohols (ethanol). These bacteria are among the most abundant taxa in the rumen ^[4] and the human gut microbiota. ^{[5] [6] [7] [8]} Members of this family may protect against colon cancer in humans by producing butyric acid. ^{[9] [10]} Lachnospiraceae have been found to contribute to diabetes in genetically susceptible (ob/ob) germ-free mice. ^[11]

Phylogeny

The currently accepted taxonomy is based on the List of Prokaryotic names with Standing in Nomenclature (LPSN) ^[1] and National Center for Biotechnology Information (NCBI) ^[12]

16S rRNA based LTP_10_2024 [13] [14] [15]

120 marker proteins based GTDB 09-RS220 [16] [17] [18]

Lachnospiraceae

Lachnospiraceae Catonella Moore & Moore 1994 "Ca. Caccomorpha" Gilroy et al. 2021 " Lachnoclostridium " Yutin & Galperin 2013 Eubacterium xylanophilum van Gylswyk & van der Toorn 1985 Jutongia Liu et al. 2022 Butyribacter Zou et al. 2021 Clostridium _AI Velocimicrobium Wylensek et al. 2021 Anaerosporobacter Jeong et al. 2007 Mobilisporobacter Mbengue et al. 2016 Anaeromicropila Ueki et al. 2023 Mobilitalea Podosokorskaya et al. 2014 [19] Anaerocolumna Ueki et al. 2016 Coprococcus catus Holdeman & Moore 1974 Frisingicoccus Lagkouvardos et al. 2016 "Ca. Onthocola" Gilroy et al. 2021 "Ca. Scybalocola faecipullorum" Gilroy et al. 2021 Catenibacillus Braune & Blaut 2018 Eubacterium ruminantium Bryant 1959 "Wujia" Liu et al. 2021 Coprococcus Holdeman & Moore 1974 "Ca. Scybalomonas" Gilroy et al. 2021 Anaerobutyricum Shetty et al. 2018 "Ca. Fimousia" Gilroy et al. 2021 Anaerostipes Schwiertz et al. 2002 Bovifimicola Hitch et al. 2025 Parasporobacterium Lomans et al. 2004 Eubacterium _S & G Eshraghiella Fatahi-Bafghi 2024 Falcatimonas Watanabe et al. 2016 Clostridium fimetarium Kotsyurbenko et al. 1997 Bacteroides pectinophilus Jensen & Canale-Parola 1987 Lachnospira Bryant & Small 1956 Anthropogastromicrobium Hitch et al. 2022 Cuneatibacter Lagkouvardos et al. 2016 [20] "Ca. Fimimorpha" Gilroy et al. 2021 "Ca. Pseudolachnospira" Glendinning et al. 2020 Hominifimenecus Afrizal et al. 2023 "Ca. Paralachnospira sangeri" Glendinning et al. 2020 Lientehia Abdugheni et al. 2023 "Ca. Avilachnospira" Gilroy et al. 2021 Oribacterium Carlier et al. 2004 Moryella Carlier, K'ouas & Han 2007 Johnsonella Moore & Moore 1994 Lachnoanaerobaculum Hedberg et al. 2012 Alitiscatomonas Hitch et al. 2022 "Ca. Copromonas" Gilroy et al. 2021 non Dobell 1908 "Ca. Ventrisoma" Gilroy et al. 2021 Clostridium _R Otoolea Afrizal et al. 2023 Lachnoclostridium _A "Ca. Caccovicinus" Gilroy et al. 2021 Enterocloster Haas & Blanchard 2020 Brotaphodocola Afrizal et al. 2023 "Ca. Hungatella pullicola" Gilroy et al. 2021 Hungatella Kaur et al. 2014 Lacrimispora Haas & Blanchard 2020 Acetitomaculum Greening & Leedle 1995 [5] Diplocloster Chaplin et al. 2022 Anaerosacchariphilus Kim et al. 2019 "Ca. Merdenecus" Gilroy et al. 2021 Anaerobium Patil et al. 2015 Lachnotalea Jarzembowska et al. 2016 Hominiventricola Afrizal et al. 2023 Laedolimicola Hitch et al. 2022 "Ca. Merdiplasma" Gilroy et al. 2021 "Ca. Choladousia" Gilroy et al. 2021 Marvinbryantia Wolin et al. 2008 Muricoprocola Hitch et al. 2022 Murimonas Klaring et al. 2015 Robinsoniella Cotta et al. 2009 "Ca. Hominisplanchenecus murintestinalis" Afrizal et al. 2022 Hominisplanchenecus Afrizal et al. 2023 "Ca. Limivivens" Gilroy et al. 2021 Shuttleworthella Deshmukh & Oren 2024 [ Shuttleworthia [5] ] "Ca. Weimeria" Scarborough et al. 2020 "Ca. Pullilachnospira gallistercoris" Gilroy et al. 2021 Pararoseburia Abdugheni et al. 2022 Pseudobutyrivibrio van Gylswyk, Hippe & Rainey 1996 Eubacterium oxidoreducens corrig. Krumholz & Bryant 1986 Eubacterium ramulus Moore, Johnson &Holdeman 1976 Brotonthovivens Hitch et al. 2022 " Petralouisia " Afrizal et al. 2022 Eubacterium plexicaudatum Wilkins, Fulghum & Wilkins 1974 Roseburia _C Roseburia zhanii Liu et al. 2022 Roseburia Stanton & Savage 1983 Lachnobacterium Whitford et al. 2001 " Roseburia porci " Wylensek et al. 2020 Agathobacter Rosero et al. 2016 [21] Butyrivibrio Bryant & Small 1956 Suilimivivens Hitch et al. 2021 Acetatifactor Pfeiffer et al. 2013 Kineothrix Haas & Blanchard 2017 Gallintestinimicrobium Hitch et al. 2022 Eisenbergiella Amir et al. 2014 [22] Suipraeoptans corrig. Wylensek et al. 2021 " Aequitasia " Vera-Ponce de Leon et al. 2022 Claveliimonas Hisatomi et al. 2023 Extibacter Lagkouvardos et al. 2017 Dorea Taras et al. 2002 Dorea hominis Liu et al. 2022 " Massilistercora " Tall et al. 2020 " Dorea phocaeensis " Takakura et al. 2019 Merdimonas Seo et al. 2017 Clostridium scindens Morris et al. 1985 Sporofaciens Rasmussen et al. 2021 Dorea _A " Bariatricus " Bessis et al. 2016 Faecalimonas Sakamoto, Iino & Ohkuma 2017 [23] Sellimonas Seo et al. 2016 Hespellia Whitehead et al. 2004 Mediterraneibacter butyricigenes Kim et al. 2019 Ruminococcus _B " Luxibacter " Naud et al. 2021 Muricomes Lagkouvardos et al. 2016 [incl. Faecalicatena [24] ] Schaedlerella Soh et al. 2019 Mediterraneibacter Togo et al. 2019 Porcincola Wylensek et al. 2021 Chordicoccus Gaffney et al. 2023 "Ca. Alectryocaccobium" Gilroy et al. 2021 Bilifractor Wylensek et al. 2021 "Ca. Scatomonas" Gilroy et al. 2021 Novisyntrophococcus Chai et al. 2021 Fusicatenibacter Takada et al. 2013 "Ca. Egerieimonas faecigallinarum" Gilroy et al. 2021 "Ca. Egerieimonas" Gilroy et al. 2021 "Ca. Pullilachnospira" Gilroy et al. 2021 Oliverpabstia Wylensek et al. 2021 Ruminococcus _G Lactonifactor Clavel et al. 2007 Blautia Liu et al. 2008 Blautia _A

Unassinged genera:

• " Africanella " Alou, Fournier & Raoult 2016 non Vermeij & Houart, 1999
• Anaerolentibacter Yan et al. 2024
• Anaerotaenia Ueki et al. 2016
• Chakrabartyella Pardesi et al. 2023
• "Ca. Colinaster" Gilroy et al. 2022
• "Ca. Darwinimomas" Gilroy et al. 2022
• "Ca. Epulonipiscioides" Ngugi et al. 2017 corrig. Oren et al. 2020
• "Ca. Equihabitans" Gilroy et al. 2022
• Fusibacillus Bai et al. 2024 non Pribram 1929
• " Fusimonas " Kusada et al. 2017
• " Gluceribacter " corrig. Kawata et al. 2021
• "Ca. Hippenecus" Gilroy et al. 2022
• Hoministercoradaptatus Hitch et al. 2022
• Howardella Cook et al. 2007
• "Ca. Lachnocurva" Holm et al. 2020
• " Maccoya " Hitch et al. 2024
• "Ca. Merdinaster" Gilroy et al. 2022
• "Ca. Minthocola" Gilroy et al. 2022
• " Naizhengia " Huang et al. 2024
• " Sakamotonia " Hitch et al. 2024
• " Sanxizhangella " Huang et al. 2024
• Suonthocola Hitch et al. 2022
• Sporobacterium Mechichi et al. 1999 ^[5]
• Syntrophococcus Krumholz & Bryant 1986
• " Weimerbacter " Scarborough et al. 2019
• " Yonghella " Huang et al. 2024

References

1. J.P. Euzéby. "Lachnospiraceae". List of Prokaryotic names with Standing in Nomenclature (LPSN). Retrieved 2022-09-09.
2. "Family - L". List of Prokaryotic Names with Standing in Nomenclature. Retrieved 30 March 2021.
3. Boutard, M; Cerisy, T (13 November 2014). "Functional Diversity of Carbohydrate-Active Enzymes Enabling a Bacterium to Ferment Plant Biomass". PLOS Genetics. 10 (11) e1004773. doi: 10.1371/journal.pgen.1004773 . PMC   4230839 . PMID   25393313.
4. Seshadri, R; Leahy, SC (19 March 2018). "Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection". Nature Biotechnology. 36 (4): 359–367. doi:10.1038/nbt.4110. PMC   6118326 . PMID   29553575.
5. eol
6. Phyllis Kanki; Darrell Jay Grimes, eds. (2013). Infectious diseases selected entries from the Encyclopedia of sustainability science and technology. New York: Springer. ISBN   978-1-4614-5719-0.
7. UniProt
8. Paul De Vos; et al., eds. (2009). Bergey's manual of systematic bacteriology (2nd ed.). Dordrecht: Springer. ISBN   978-0-387-68489-5.
9. Meehan, C. J.; Beiko, R. G. (12 March 2014). "A Phylogenomic View of Ecological Specialization in the Lachnospiraceae, a Family of Digestive Tract-Associated Bacteria". Genome Biology and Evolution. 6 (3): 703–713. doi:10.1093/gbe/evu050. PMC   3971600 . PMID   24625961.
10. Xia, Li C.; Liu, Gang; Gao, Yingxin; Li, Xiaoxin; Pan, Hongfei; Ai, Dongmei (2019). "Identifying Gut Microbiota Associated With Colorectal Cancer Using a Zero-Inflated Lognormal Model". Frontiers in Microbiology. 10: 826. doi: 10.3389/fmicb.2019.00826 . ISSN   1664-302X. PMC   6491826 . PMID   31068913.
11. Kameyama, Keishi; Itoh, Kikuji (2014). "Intestinal Colonization by a Lachnospiraceae Bacterium Contributes to the Development of Diabetes in Obese Mice". Microbes and Environments. 29 (4): 427–430. doi:10.1264/jsme2.ME14054. ISSN   1342-6311. PMC   4262368 . PMID   25283478.
12. Sayers; et al. "Lachnospiraceae". National Center for Biotechnology Information (NCBI) taxonomy database. Retrieved 2022-09-09.
13. "The LTP" . Retrieved 10 December 2024.
14. "LTP_all tree in newick format" . Retrieved 10 December 2024.
15. "LTP_10_2024 Release Notes" (PDF). Retrieved 10 December 2024.
16. "GTDB release 09-RS220". Genome Taxonomy Database . Retrieved 10 May 2024.
17. "bac120_r220.sp_labels". Genome Taxonomy Database . Retrieved 10 May 2024.
18. "Taxon History". Genome Taxonomy Database . Retrieved 10 May 2024.
19. UniProt
20. "Cuneatibacter". www.uniprot.org.
21. "Agathobacter". www.uniprot.org.
22. Parker, Charles Thomas; Garrity, George M (1 January 2003). Parker, Charles Thomas; Garrity, George M (eds.). "Taxonomic Abstract for the genera". The NamesforLife Abstracts. doi:10.1601/tx.25197.
23. Parker, Charles Thomas; Garrity, George M (2017). Parker, Charles Thomas; Garrity, George M (eds.). "Nomenclature Abstract for Faecalimonas Sakamoto et al. 2016". The NamesforLife Abstracts. doi:10.1601/nm.29877.
24. Parker, Charles Thomas; Garrity, George M (2017). Parker, Charles Thomas; Garrity, George M (eds.). "Nomenclature Abstract for Faecalicatena Sakamoto et al. 2016". The NamesforLife Abstracts. doi:10.1601/nm.29879.

Further reading

• Newton, R. J.; VandeWalle, J. L.; Borchardt, M. A.; Gorelick, M. H.; McLellan, S. L. (29 July 2011). "Lachnospiraceae and Bacteroidales Alternative Fecal Indicators Reveal Chronic Human Sewage Contamination in an Urban Harbor". Applied and Environmental Microbiology. 77 (19): 6972–6981. Bibcode:2011ApEnM..77.6972N. doi:10.1128/AEM.05480-11. PMC   3187108 . PMID   21803887.
• Kameyama, Keishi; Itoh, Kikuji (2014). "Intestinal Colonization by a Lachnospiraceae Bacterium Contributes to the Development of Diabetes in Obese Mice". Microbes and Environments. 29 (4): 427–430. doi:10.1264/jsme2.ME14054. PMC   4262368 . PMID   25283478.
• Paul De Vos; et al., eds. (2009). Bergey's manual of systematic bacteriology (2nd ed.). Dordrecht: Springer. ISBN   978-0-387-68489-5.
• Almeida, edited by Susan S. Cho, Nelson (2012). Dietary fiber and health. Boca Raton: CRC Press. ISBN   978-1-4398-9929-8.{{cite book}}: |first1= has generic name (help)
• Olsen, LeighAnne; Choffnes, Eileen R.; Academies, Alison Mack, rapporteurs ; Forum on Microbial Threats, Board on Global Health, Institute of Medicine of the National (2012). The social biology of microbial communities: workshop summary. Washington, D.C.: National Academies Press. ISBN   978-0-309-26432-7.
• Nelson, Karen E.; Peterson, editor ; foreword by Jane L.; Garges, Susan (2011). Metagenomics of the human body. New York: Springer. ISBN   978-1-4419-7089-3.{{cite book}}: |first2= has generic name (help)