Strain identifier

BacDive ID: 159739

Type strain: Yes

Species: Clostridium bovifaecis

Strain Designation: BXX

Strain history: B. Fu; Sch. of Environ. & Civil Engineering, Jiangnan Univ., China; BXX.

NCBI tax ID(s): 2184719 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 66658

BacDive-ID: 159739

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, colony-forming

description: Clostridium bovifaecis BXX is an anaerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from cow manure.

NCBI tax id

  • NCBI tax id: 2184719
  • Matching level: species

strain history

  • @ref: 67770
  • history: B. Fu; Sch. of Environ. & Civil Engineering, Jiangnan Univ., China; BXX.

doi: 10.13145/bacdive159739.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Clostridium
  • species: Clostridium bovifaecis
  • full scientific name: Clostridium bovifaecis Zhu et al. 2018

@ref: 66658

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Clostridiaceae

genus: Clostridium

species: Clostridium bovifaecis

strain designation: BXX

type strain: yes

Morphology

cell morphology

  • @ref: 66658
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 66658
  • colony color: cream
  • colony shape: circular
  • medium used: DSMZ medium 311c agar

Culture and growth conditions

culture medium

  • @ref: 66658
  • name: DSMZ medium 311c agar
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
66658positiveoptimum30mesophilic
66658positivegrowth20-45
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
66658positiveoptimum7
66658positivegrowth5-10alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 66658
  • oxygen tolerance: anaerobe

spore formation

  • @ref: 66658
  • type of spore: spore
  • spore formation: yes

halophily

  • @ref: 66658
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2 %

observation

  • @ref: 66658
  • observation: The cells utilize H2/CO2 , syngas (H2:CO2:CO=4:3:3), fructose, glycerol and other substances to generate acetate.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6665816024D-mannose+assimilation
6665817057cellobiose+assimilation
6665817306maltose+assimilation
6665817634D-glucose+assimilation
6665817992sucrose+assimilation
6665828260galactose+assimilation
6665829864mannitol+assimilation
6665861993maltotriose+assimilation
6665812936D-galactose-growth
6665815903beta-d-glucose-growth
6665816199urea-growth
6665816988D-ribose-growth
6665817203L-proline-growth
6665818186tyrosine-growth
6665825017leucine-growth
6665826020phosphate-growth
6665827442beta-D-fucose-growth
6665828044phenylalanine-growth
6665829016arginine-growth
6665830849L-arabinose-growth
6665842548alpha-L-fucose-growth
6665846987alpha-L-arabinopyranose-growth
6665859640N-acetylglucosamine-growth
6665865327D-xylose-growth
6665873617Phe-Ala-Pro-growth

Isolation, sampling and environmental information

isolation

@refsample typeenrichment cultureenrichment culture compositionenrichment culture durationisolation procedure
66658cow manureDSMZ medium 311c(per litre) has the following composition: 0.50 g NH4Cl, 0.50 g MgSO4.7H2O, 0.25 g CaCl2.2H2O, 2.25 g NaCl, 2.00 mg FeSO4.7H2O, 1.00 ml trace element solution SL-10 (DSMZ medium 320), 1.00 ml selenite-tungstate solution (see DSMZ medium 385), 2.00 g yeast extract, 2.00 g casitone, 0.50 ml Na-resazurin solution (0.1 % w/v), 0.35 g K2HPO4, 0.23 g KH2PO4, 4.00 g NaHCO3, 10.00 ml vitamin solution (see DSMZ medium 141), 0.30 g L-cysteine-HCl.H2O, 0.30 g Na2S.9 H2O, distilled water added to 1000 ml final volume. The pH was adjusted to 7.03 daysHungate technique
67770Cow manure

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_149025.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_3674;97_17920;98_98554;99_149025&stattab=map
  • Last taxonomy: Firmicutes
  • 16S sequence: MH346511
  • Sequence Identity:
  • Total samples: 1358
  • soil counts: 491
  • aquatic counts: 322
  • animal counts: 307
  • plant counts: 238

Sequence information

16S sequences

  • @ref: 66658
  • description: Clostridium sp. strain BXX 16S ribosomal RNA gene, partial sequence
  • accession: MH346511
  • length: 1502
  • database: ena
  • NCBI tax ID: 2184719

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Clostridium bovifaecis BXXGCA_009738435chromosomencbi2184719
66792Clostridium bovifaecis BXX2896726320completeimg2184719

GC content

@refGC-contentmethod
6777032.6genome sequence analysis
6777033.7thermal denaturation, midpoint method (Tm)

External links

@ref: 66658

culture collection no.: JCM 32382, CGMCC 1.5228

literature

  • topic: Phylogeny
  • Pubmed-ID: 30058994
  • title: Clostridium bovifaecis sp. nov., a novel acetogenic bacterium isolated from cow manure.
  • authors: Zhu H, Fu B, Lu S, Liu H, Liu H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002928
  • year: 2018
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Cattle/*microbiology, Clostridium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Manure/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
66658Hui Zhu, Bo Fu, Shuailing Lu, Hongbo Liu, He LiuClostridium bovifaecis sp. nov., a novel acetogenic bacterium isolated from cow manure10.1099/ijsem.0.002928IJSEM 68: 2956-2959 201830058994
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/