Strain identifier

BacDive ID: 158361

Type strain: Yes

Species: Butyricicoccus porcorum

Strain Designation: BB10

Strain history: <- H. Allen; USDA-ARS, Ames, USA; BB10 <- S. Humphrey {2012}

NCBI tax ID(s): 1945634 (species)

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General

@ref: 65037

BacDive-ID: 158361

DSM-Number: 104997

keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, mesophilic, Gram-positive, coccus-shaped

description: Butyricicoccus porcorum BB10 is an obligate anaerobe, mesophilic, Gram-positive bacterium that was isolated from distal ileum of a pig.

NCBI tax id

  • NCBI tax id: 1945634
  • Matching level: species

strain history

  • @ref: 65037
  • history: <- H. Allen; USDA-ARS, Ames, USA; BB10 <- S. Humphrey {2012}

doi: 10.13145/bacdive158361.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Butyricicoccus
  • species: Butyricicoccus porcorum
  • full scientific name: Butyricicoccus porcorum Trachsel et al. 2018

@ref: 65037

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Oscillospiraceae

genus: Butyricicoccus

species: Butyricicoccus porcorum

full scientific name: Butyricicoccus porcorum Trachsel et al. 2018

strain designation: BB10

type strain: yes

Morphology

cell morphology

  • @ref: 65574
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

  • @ref: 65574
  • colony size: 2 mm
  • colony color: white to off white
  • incubation period: 2 days
  • medium used: YCFAG

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
65037PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c)yeshttps://mediadive.dsmz.de/medium/104cName: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c; with strain-specific modifications) Composition: Yeast extract 10.0 g/l Trypticase peptone 5.0 g/l D-Glucose 5.0 g/l Meat peptone 5.0 g/l Na-acetate 4.5 g/l Na2CO3 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
65574rumen-fluid mdeiumyessupplemented with acetic acid
65574YCFAGyes

culture temp

@refgrowthtypetemperaturerange
65037positivegrowth37mesophilic
65574positivegrowth30-45
65574positiveoptimum39mesophilic

culture pH

@refabilitytypepHPH range
65574positivegrowth4-8acidophile
65574positiveoptimum6.0

Physiology and metabolism

oxygen tolerance

  • @ref: 65574
  • oxygen tolerance: obligate anaerobe

spore formation

  • @ref: 65574
  • spore formation: no

observation

  • @ref: 65574
  • observation: mucoid mat in stationary phase liquid culture

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6557430089acetate+growth
6557422599arabinose-builds acid from
6557417057cellobiose-builds acid from
655744853esculin-hydrolysis
6557417234glucose+fermentation
6557417716lactose+fermentation
6557417306maltose+fermentation
6557429864mannitol-builds acid from
6557437684mannose-builds acid from
655746731melezitose-builds acid from
6557426546rhamnose-builds acid from
6557417814salicin-builds acid from
6557417992sucrose+fermentation
6557427082trehalose-builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
6557417968butyrateyes
6557416526carbon dioxideyes
6557418276dihydrogenyes
6557435581indoleno

enzymes

@refvalueactivityec
65574urease+3.5.1.5
65574catalase-1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
65037distal ileum of a pigIowa, AmesUSAUSANorth America42.0308-93.6319
65574distal ileum of a 3-month old pigAmes, IowaUSAUSANorth Americarumen-fluid medium5 g tryptone peptone; 2.5 g yeast extract; 1 ml resazurin (0.1 % w/v); 40 ml salt solution 1 (per litre: 6 g K2HPO4 ); 40 ml salt solution 2 (per litre: 6 g KH2PO4 ; 12 g (NH4)2SO4 ; 12 g NaCl; 1.2 g MgSO4 . 7H2O; 1.2 g CaCl . 6H2O); 1 ml haemin solution (0.5 g haemin into 10 ml 1M NaOH. Bring up to 100 ml in dH2O. Stored at 4 °C); 1 ml vitamin K working stock (0.02 ml vitamin K into 2 ml 95 % ethanol. Stored in dark at 4 °C); 0.5 g cysteine HCl; 10 g glucose; 300 ml clarified rumen fluid; dH2O2 days39Coy anaerobic chamber ( 86 % N2, 10 % CO2, 4 % H2)

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Gastrointestinal tract#Small intestine
#Host#Mammals#Suidae (Pig,Swine)
#Host#Juvenile

taxonmaps

  • @ref: 69479
  • File name: preview.99_63281.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_341;96_27595;97_34733;98_44795;99_63281&stattab=map
  • Last taxonomy: Butyricicoccus porcorum subclade
  • 16S sequence: MF469066
  • Sequence Identity:
  • Total samples: 9230
  • soil counts: 147
  • aquatic counts: 113
  • animal counts: 8816
  • plant counts: 154

Sequence information

16S sequences

@refdescriptionaccessiondatabaselengthNCBI tax ID
6557416S rRNA gene sequenceMF469066.1nuccore
65037Butyricicoccus sp. BB10 16S ribosomal RNA gene, partial sequenceMF469066ena14551945634

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Butyricicoccus porcorum BB10GCA_002157465contigncbi1945634
66792Butyricicoccus sp. BB10 strain BB101945634.3wgspatric1945634
66792Butyricicoccus porcorum BB102882308280draftimg1945634

GC content

@refGC-contentmethod
6503755sequence analysis
6557455genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.718yes
gram-positiveyes94.981yes
anaerobicyes99.412no
aerobicno97.086no
halophileno88.105no
spore-formingno76.884yes
glucose-utilyes88.92no
flagellatedno96.441yes
thermophileno93.293yes
glucose-fermentyes72.637yes

External links

@ref: 65037

culture collection no.: DSM 104997, ATCC TSD-102

straininfo link

  • @ref: 111166
  • straininfo: 405282

literature

  • topic: Phylogeny
  • Pubmed-ID: 29620502
  • title: Butyricicoccus porcorum sp. nov., a butyrate-producing bacterium from swine intestinal tract.
  • authors: Trachsel J, Humphrey S, Allen HK
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002738
  • year: 2018
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Butyrates/*metabolism, Clostridiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ileum/*microbiology, Iowa, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Swine/*microbiology
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
65037Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104997Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104997)
65574Julian Trachsel, Samuel Humphrey and Heather K. AllenButyricicoccus porcorum sp. nov., a butyrate-producing bacterium from swine intestinal tract10.1099/ijsem.0.002738IJSEM 68: 1737-1742 201829620502
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
111166Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID405282.1