Strain identifier

BacDive ID: 140342

Type strain: Yes

Species: Leucobacter ruminantium

Strain Designation: A2

Strain history: C. O. Jeon; Chung-Ang Univ., South Korea; A2.

NCBI tax ID(s): 1289170 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 8.1 (current version)

General

@ref: 42949

BacDive-ID: 140342

DSM-Number: 104477

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-positive, rod-shaped, colony-forming

description: Leucobacter ruminantium A2 is an aerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from bovine rumen sample of a cannulated 12 months old HanWoo steer.

NCBI tax id

  • NCBI tax id: 1289170
  • Matching level: species

strain history

@refhistory
42949<- C. Jeon; Chung-Ang University, Seoul, Republic of South Korea; A2<-H. J. Lee<-S. E. Jeong<-B. H. Chun;
67770C. O. Jeon; Chung-Ang Univ., South Korea; A2.

doi: 10.13145/bacdive140342.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Leucobacter
  • species: Leucobacter ruminantium
  • full scientific name: Leucobacter ruminantium Chun et al. 2017

@ref: 42949

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Leucobacter

species: Leucobacter ruminantium

full scientific name: Leucobacter ruminantium Chun et al. 2017

strain designation: A2

type strain: yes

Morphology

cell morphology

  • @ref: 43843
  • gram stain: positive
  • cell length: 1.0-1.6 µm
  • cell width: 0.2-0.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43843
  • colony color: lemon-yellow
  • colony shape: circular
  • medium used: Tryptic soy agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43843LB (Luria-Bertani) MEDIUMno
43843Nutrient agar (NA)yes
43843Tryptic soy agaryes
42949TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43843positivegrowth20-45
43843positiveoptimum37mesophilic
42949positivegrowth28mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
43843positivegrowth5.5-9.0alkaliphile
43843positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43843
  • oxygen tolerance: aerobe

halophily

  • @ref: 43843
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3.5 %(w/v)

observation

  • @ref: 67770
  • observation: quinones: MK-11

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4384317128adipate-assimilation
4384327689decanoate-assimilation
4384316899D-mannitol-assimilation
4384330849L-arabinose-assimilation
4384325115malate-assimilation
4384317306maltose-assimilation
43843506227N-acetylglucosamine-assimilation
4384318401phenylacetate-assimilation
4384353258sodium citrate-assimilation
43843casein-hydrolysis
438434853esculin-hydrolysis
4384328017starch-hydrolysis
4384353424tween 20-hydrolysis
4384353426tween 80-hydrolysis
4384318186tyrosine-hydrolysis
4384316199urea-hydrolysis
4384317632nitrate-reduction
4384317634D-glucose+assimilation
4384316024D-mannose+assimilation
4384332032potassium gluconate+assimilation
4384315824D-fructose+builds acid from
4384317634D-glucose+builds acid from
4384316024D-mannose+builds acid from
4384317754glycerol+builds acid from
4384330849L-arabinose+builds acid from
438435291gelatin+hydrolysis

enzymes

@refvalueactivityec
43843catalase+1.11.1.6
43843cytochrome oxidase+/-1.9.3.1
43843alkaline phosphatase+3.1.3.1
43843esterase (C 4)+
43843esterase Lipase (C 8)+
43843lipase (C 14)+
43843leucine arylamidase+3.4.11.1
43843valine arylamidase+
43843cystine arylamidase+3.4.11.3
43843trypsin+3.4.21.4
43843alpha-chymotrypsin+3.4.21.1
43843acid phosphatase+3.1.3.2
43843naphthol-AS-BI-phosphohydrolase+
43843beta-galactosidase+3.2.1.23
43843alpha-glucosidase+3.2.1.20
43843arginine dihydrolase+3.5.3.6
43843alpha-galactosidase-3.2.1.22
43843beta-glucuronidase-3.2.1.31
43843beta-glucosidase-3.2.1.21
43843N-acetyl-beta-glucosaminidase-3.2.1.52
43843alpha-mannosidase-3.2.1.24
43843alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43843C15:0 anteiso23.9
    43843C17:0 anteiso3.5
    43843C15:1ω8c2.5
    43843C16:02.9
    43843C14:0 iso6
    43843C15:0 iso2.5
    43843C16:0 iso61.2
  • type of FA analysis: whole cell analysis
  • incubation medium: Tryptic soy broth
  • agar/liquid: liquid
  • software version: Sherlock 6.0B
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • instrument: Hewlett Packard 6890 gas chromatograph
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperature
42949bovine rumen sample of a cannulated 12 months old HanWoo steerRepublic of KoreaKORAsia
43843bovine rumen from a cannulated 12-moth-old HanWoo steer (Korean cow)Tryptic soy agar2 days37
67770Bovine rumenRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

Safety information

risk assessment

  • @ref: 42949
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42949
  • description: Leucobacter ruminantium strain A2 16S ribosomal RNA gene, partial sequence
  • accession: KC107829
  • length: 1450
  • database: ena
  • NCBI tax ID: 1289170

Genome sequences

  • @ref: 66792
  • description: Leucobacter ruminantium A2
  • accession: GCA_017565705
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1289170

GC content

@refGC-contentmethod
4384367fluorimetric
4294967.0fluorimetric
6777067thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno96.949yes
gram-positiveyes90.592yes
anaerobicno98.779yes
aerobicyes88.727yes
halophileno84.167no
spore-formingno95.559no
thermophileno99.723yes
glucose-utilyes71.749no
motileno91.964no
glucose-fermentno87.824no

External links

@ref: 42949

culture collection no.: DSM 104477, JCM 19316, KACC 17571

straininfo link

  • @ref: 96641
  • straininfo: 404664

literature

  • topic: Phylogeny
  • Pubmed-ID: 28792377
  • title: Leucobacter ruminantium sp. nov., isolated from the bovine rumen.
  • authors: Chun BH, Lee HJ, Jeong SE, Schumann P, Jeon CO
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002003
  • year: 2017
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Aminobutyrates/chemistry, Animals, Bacterial Typing Techniques, Base Composition, Cattle/*microbiology, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Glycolipids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rumen/*microbiology, Sequence Analysis, DNA
  • 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
42949Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104477Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104477)
43843Byung Hee Chun, Hyo Jung Lee, Sang Eun Jeong, Peter Schumann, Che Ok JeonLeucobacter ruminantium sp. nov., isolated from the bovine rumen10.1099/ijsem.0.002003IJSEM 67: 2634-2639 201728792377
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/
96641Reimer, 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-ID404664.1