Archive BacDiveID:10.13145/bacdive7362.20230509.8.1

Strain identifier

BacDive ID: 7362

Type strain:

Species: Leucobacter denitrificans

Strain Designation: M1T8B10

Strain history: <- NBRC; NBRC 10639 <- S. W. Kwon, KACC; M1T8B10

NCBI tax ID(s): 683042 (species)

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

General

@ref: 18128

BacDive-ID: 7362

DSM-Number: 25936

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive

description: Leucobacter denitrificans M1T8B10 is a mesophilic, Gram-positive bacterium that was isolated from cow dung.

NCBI tax id

NCBI tax id: 683042
Matching level: species

strain history

@ref: 18128
history: <- NBRC; NBRC 10639 <- S. W. Kwon, KACC; M1T8B10

doi: 10.13145/bacdive7362.20230509.8.1

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 denitrificans
full scientific name: Leucobacter denitrificans Weon et al. 2012

@ref: 18128

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Leucobacter

species: Leucobacter denitrificans

full scientific name: Leucobacter denitrificans Weon et al. 2012

strain designation: M1T8B10

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: positive
confidence: 100

Culture and growth conditions

culture medium

@ref: 18128
name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
growth: yes
link: https://mediadive.dsmz.de/medium/92
composition: Name: 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

@ref: 18128
growth: positive
type: growth
temperature: 28
range: mesophilic

Physiology and metabolism

spore formation

@ref	spore formation	confidence
69481	no	100
69480	no	99.999

Isolation, sampling and environmental information

isolation

@ref: 18128
sample type: cow dung
geographic location: Suwon
country: Republic of Korea
origin.country: KOR
continent: Asia

isolation source categories

Cat1	Cat2	Cat3
#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Safety information

risk assessment

@ref: 18128
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 18128
description: Leucobacter denitrificans strain M1T8B10 16S ribosomal RNA gene, partial sequence
accession: GQ246672
length: 1436
database: ena
NCBI tax ID: 683042

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Leucobacter denitrificans KACC 14055	GCA_014396385	complete	ncbi	683042
66792	Leucobacter denitrificans strain KACC 14055	683042.3	complete	patric	683042
66792	Leucobacter denitrificans KACC 14055	2894972566	complete	img	683042

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	no	100	no
flagellated	no	97.338	no
gram-positive	yes	91.551	no
anaerobic	no	99.441	no
aerobic	yes	91.564	no
halophile	no	79.201	no
spore-forming	no	96.089	no
thermophile	no	98.64	no
glucose-util	yes	61.966	no
motile	no	86.491	no
glucose-ferment	no	90.404	no

External links

@ref: 18128

culture collection no.: DSM 25936, KACC 14055, NBRC 106309, NBRC 10639

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	22367952	Leucobacter denitrificans sp. nov., isolated from cow dung.	Weon HY, Anandham R, Tamura T, Hamada M, Kim SJ, Kim YS, Suzuki K, Kwon SW	J Microbiol	10.1007/s12275-012-1324-1	2012	Actinomycetales/classification/genetics/isolation & purification/physiology, Aminobutyrates/analysis, Animals, Bacterial Typing Techniques, Cattle, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Feces/*microbiology, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA	Genetics
Phylogeny	25921298	Leucobacter humi sp. nov., Isolated from Forest Soil.	Her J, Lee SS	Curr Microbiol	10.1007/s00284-015-0820-z	2015	Actinomycetales/classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology	Genetics
Phylogeny	26971343	Leucobacter populi sp. nov. isolated from a symptomatic bark of Populus x euramericana canker.	Fang W, Li X, Tan XM, Wang LF, Piao CG, Li Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.001020	2016	Actinobacteria/classification/genetics/isolation & purification, Aminobutyrates/chemistry, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Phospholipids/chemistry, Phylogeny, Plant Bark/microbiology, Populus/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA	Transcriptome
Phylogeny	35939329	Leucobacter chinensis sp. nov., with plant growth-promoting potential isolated from field soil after seven-years continuous maize cropping.	Zhu J, Che J, Jiang X, Ma M, Guan D, Li L, Cao F, Zhao B, Kang Y, Zhao J, Kong D, Zhou Y, Ruan Z, Li J	Int J Syst Evol Microbiol	10.1099/ijsem.0.005417	2022	Actinobacteria, Actinomycetales, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Triacetoneamine-N-Oxyl, Zea mays	Transcriptome

Reference

@id	authors	catalogue	doi/url	title
18128	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25936)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-25936
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481	Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch		10.21203/rs.3.rs-2527258/v1	Predictions based on the model GenomeNet Sporulation v. 1