The Pig intestinal Bacterial Collection (PiBAC)

Pigs are invaluable animals in both biomedical research and agriculture. The gut microbiota, i.e. the communities of microorganisms in their intestine, play a very important role in regulating their health. However, underlying mechanisms remain poorly described and microbiome-based applications are underdeveloped due to our still superficial knowledge about gut microbiota members. Indeed, many gut bacteria are still unknown, which hampers full understanding of microbe-host interactions.
We established the most comprehensive, publicly accessible collection of pig gut bacteria available to date, which includes 112 species across 39 families and nine phyla. The taxonomic description of 38 novel taxa is provided, including 21 novel species and 17 novel genera. Detailed meta-amplicon and metagenomic surveys highlighted the host-specificity of several taxa. Functional prediction revealed a limited number of species that best represent the functional potential of pig microbiomes. Furthermore, functional insights such as new small ribosomal peptides unique to pigs with potential anti-microbial activities and detailed investigation of the metabolism of bile acids are provided.
 

Note: This site is under construction (species as well as literature will be regularly added overtime).

Species

DSM No.

Acidaminococcus  fermentans Rogosa 1969 emend. Cook et al. 1994

105754

Alistipes  shahii Song et al. 2006 emend. Hahnke et al. 2016

107272

Anaerobutyricum  soehngenii Shetty et al. 2018

109238

''Anaerococcus porci''

101005

Anaerosalibacter  bizertensis Rezgui et al. 2012

106491

''Anaerovibrio slackiae''

108025

Aneurinibacillus  sp.

105329

Arthrobacter  sp.

105845

Bacillus  sp.

100955

Bacillus  sp.

108493

Bacteroides  eggerthii Holdeman and Moore 1974 emend. Hahnke et al. 2016

107245

Bacteroides  fragilis (Veillon and Zuber 1898) Castellani and Chalmers 1919 emend. Hahnke et al. 2016

103087

Bacteroides  vulgatus Eggerth and Gagnon 1933 emend. Hahnke et al. 2016

107446

''Baileyella intestinalis''

106896

''Berryella intestinalis''

104960

Bifidobacterium  apri Pechar et al. 2017

100238

Bifidobacterium  boum Scardovi et al. 1979

102857

Bifidobacterium  sp.

102827

Bifidobacterium  sp.

107246

Bifidobacterium  tsurumiense Okamoto et al. 2008

104387

''Bilifractor porci''

106898

''Bullifex porci''

105750

Cellulosimicrobium  sp.

105328

Cloacibacillus  porcorum Looft et al. 2013

25858

Cloacibacillus  porcorum Looft et al. 2013

105753

Clostridium  cadaveris (Klein 1899) McClung and McCoy 1957

100963

Clostridium  celerecrescens Palop et al. 1989 emend. Chamkha et al. 2001

105336

Clostridium  cochlearium (Douglas et al. 1919) Bergey et al. 1923

107247

Clostridium  innocuum Smith and King 1962

100998

Clostridium  perfringens (Veillon and Zuber 1898) Hauduroy et al. 1937

106278

''Clostridium porci''

100959

Clostridium  scindens Morris et al. 1985

100975

Clostridium  sp.

105335

Clostridium  sp.

107452

Collinsella  aerofaciens (Eggerth 1935) Kageyama et al. 1999

108492

Collinsella  aerofaciens (Eggerth 1935) Kageyama et al. 1999

108837

Corynebacterium  ammoniagenes (Cooke and Keith 1927) Collins 1987 emend. Nouioui et al. 2018

104746

Corynebacterium  sp.

107249

Corynebacterium  stationis (ZoBell and Upham 1944) Bernard et al. 2010

107248

''Cutibacterium porci''

101006

Desulfovibrio  piger (Moore et al. 1976) Loubinoux et al. 2002

106036

''Desulfovibrio porci''

105247

Dorea  formicigenerans (Holdeman and Moore 1974) Taras et al. 2002

105840

''Eisenbergiella porci''

101007

Enterobacter  sp.

105330

Enterococcus  cecorum (Devriese et al. 1983) Williams et al. 1989

100908

Enterococcus  faecalis (Andrewes and Horder 1906) Schleifer and Kilpper-Bälz 1984

100906

Enterococcus  faecium (Orla-Jensen 1919) Schleifer and Kilpper-Bälz 1984

100905

Enterococcus  faecium (Orla-Jensen 1919) Schleifer and Kilpper-Bälz 1984

100907

Enterococcus  sp.

100949

Enterococcus  sp.

104116

Enterococcus  sp.

105332

Escherichia  coli (Migula 1895) Castellani and Chalmers 1919

106279

Eubacterium  callanderi Mountfort et al. 1988

100997

Faecalicoccus  pleomorphus (Barnes et al. 1979) De Maesschalck et al. 2014

103368

Fibrobacter  intestinalis Montgomery et al. 1988

104696

''Floccifex porci''

104670

Fusobacterium  mortiferum (Harris 1901) Moore and Holdeman 1970 emend. De Witte et al. 2017

108838

Fusobacterium  perfoetens (Tissier 1905) Moore and Holdeman 1973

105865

Fusobacterium  sp.

105841

Hallerella  porci D. Wylensek

104699

Hallerella  succinigenes D. Wylensek

104698

''Holdemanella porci''

105256

''Hornefia intestinalis''

104962

''Hornefia porci''

104948

''Inconstantimicrobium porci''

108839

Intestinimonas  butyriciproducens Kläring et al. 2013

104946

Lactobacillus  agilis Weiss et al. 1982

102821

Lactobacillus  equicursoris Morita et al. 2010

104994

Lactobacillus  mucosae Roos et al. 2000

102820

Lactobacillus  porci Kim et al. 2018

105804

Lactobacillus  reuteri Kandler et al. 1982

108836

Lactobacillus  ruminis Sharpe et al. 1973

107447

Lactobacillus  salivarius Rogosa et al. 1953 emend. Li et al. 2006

103789

Lactobacillus  sp.

105842

Lactobacillus  sp.

106897

Lactobacillus  sp.

107288

Megasphaera  elsdenii (Gutierrez et al. 1959) Rogosa 1971

100961

Megasphaera  elsdenii (Gutierrez et al. 1959) Rogosa 1971

106891

Megasphaera  hexanoica Jeon et al. 2017

106893

Micrococcus  sp.

105846

''Mizrahia intestinalis''

108495

''Mobiluncus porci''

108840

''Mogibacterium kristiansenii''

106282

''Oliverpabstia intestinalis''

106162

''Olsenella porci''

105246

Olsenella  umbonata Kraatz et al. 2011 emend. Nouioui et al. 2018

105184

Olsenella  umbonata Kraatz et al. 2011 emend. Nouioui et al. 2018

105334

Parabacteroides  distasonis (Eggerth and Gagnon 1933) Sakamoto and Benno 2006 emend. Hahnke et al. 2016

106899

Paraclostridium  sp.

107287

''Peptoniphilus porci''

104947

''Peptostreptococcus porci''

106284

''Porcincola intestinalis''

106895

Prevotella  copri Hayashi et al. 2007 emend. Hahnke et al. 2016

108494

''Pseudoramibacter porci''

106894

Psychrobacillus  sp.

106035

''Pyramidobacter porci''

105193

Rhodococcus  coprophilus Rowbotham and Cross 1979 emend. Nouioui et al. 2018

105337

Rhodococcus  coprophilus Rowbotham and Cross 1979 emend. Nouioui et al. 2018

106145

''Roseburia porci''

107448

Ruthenibacterium  lactatiformans Shkoporov et al. 2016

105274

Schaalia  hyovaginalis (Collins et al. 1993) Nouioui et al. 2018

106277

''Scrofimicrobium canadense''

105338

Selenomonas  bovis Zhang and Dong 2009

100960

''Selenomonas montiformis''

106892

''Sharpea porci''

108165

Staphylococcus  cohnii Schleifer and Kloos 1975

107449

Staphylococcus  sp.

104142

Staphylococcus  sp.

106280

''Stecheria intestinalis''

109718

Streptococcus  alactolyticus Farrow et al. 1985

100950

Streptococcus  sp.

105354

''Suipraeoptans intestinalis''

104945

''Tissierella pigra''

105185

''Velocimicrobium porci''

107250

''Victivallis lenta''

107290

Victivallis  vadensis Zoetendal et al. 2003

107450

''Waltera intestinalis''

108985



To be most comprehensive and help researchers looking for pig gut bacteria, the list of our own isolates above is complemented below by 31 additional type strains isolated previously by others from the intestine of pigs and available at the DSMZ

Species

DSM No.

Acetivibrio  ethanolgignens Robinson and Ritchie 1981

3005

Acidaminococcus  fermentans Rogosa 1969 emend. Cook et al. 1994

20731

Aeriscardovia  aeriphila Simpson et al. 2004

22365

Arcobacter  trophiarum De Smet et al. 2011

25469

Bacteroides  coprosuis Whitehead et al. 2005 emend. Hahnke et al. 2016

18011

Bacteroides  pyogenes Benno et al. 1983 emend. Sakamoto et al. 2010

20611

Bifidobacterium  choerinum Scardovi et al. 1979

20434

Bifidobacterium  longum subsp. suillum Yanokura et al. 2015

28597

Bifidobacterium  longum subsp. suis (Matteuzzi et al. 1971) Mattarelli et al. 2008 emend. Nouioui et al. 2018

20211

Bifidobacterium  pseudolongum Mitsuoka 1969 emend. Nouioui et al. 2018

20099

Bifidobacterium  thermophilum corrig. Mitsuoka 1969 emend. Nouioui et al. 2018

20210

Campylobacter  coli (Doyle 1948) Véron and Chatelain 1973

4689

Campylobacter  hyointestinalis Gebhart et al. 1985 emend. On et al. 1995

19053

Cloacibacillus  porcorum Looft et al. 2013

25858

Clostridium  butyricum Prazmowski 1880

10702

Clostridium  herbivorans Varel et al. 1995

14428

Lactobacillus  mucosae Roos et al. 2000

13345

Lactobacillus  saerimneri Pedersen and Roos 2004

16049

Olsenella  scatoligenes Li et al. 2015

28304

Olsenella  umbonata Kraatz et al. 2011 emend. Nouioui et al. 2018

22620

Pseudoscardovia  radai Killer et al. 2014

24742

Pseudoscardovia  suis Killer et al. 2014 emend. Nouioui et al. 2018

24744

Streptococcus  alactolyticus Farrow et al. 1985

20728

Streptococcus  hyointestinalis Devriese et al. 1988

20770

Streptococcus  thoraltensis Devriese et al. 1997

12221

Treponema  succinifaciens Cwyk and Canale-Parola 1981

2489

Veillonella  magna Kraatz and Taras 2008

19857