Archive BacDiveID:10.13145/bacdive24626.20230509.8.1

Strain identifier

BacDive ID: 24626

Type strain:

Species: Streptomyces barkulensis

Strain Designation: RC 1831

Strain history: V. Raina RC 1831.

NCBI tax ID(s): 1257026 (species)

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

General

@ref: 21055

BacDive-ID: 24626

DSM-Number: 42082

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Streptomyces barkulensis RC 1831 is a spore-forming, mesophilic bacterium that was isolated from estuarine brackish water sediment of a fish dumping yard.

NCBI tax id

NCBI tax id: 1257026
Matching level: species

strain history

@ref	history
21055	<- V. Raina, Kiit Universitiy, India; RC 1831 <- L. Ray, Kiit University, India
67770	V. Raina RC 1831.

doi: 10.13145/bacdive24626.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Kitasatosporales
family: Streptomycetaceae
genus: Streptomyces
species: Streptomyces barkulensis
full scientific name: Streptomyces barkulensis Ray et al. 2014

@ref: 21055

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces barkulensis

full scientific name: Streptomyces barkulensis Ray et al. 2014

strain designation: RC 1831

type strain: yes

Morphology

cell morphology

@ref	motility	confidence	gram stain
69480	no	96.628
69480		100	positive

Culture and growth conditions

culture temp

@ref: 67770
growth: positive
type: growth
temperature: 28
range: mesophilic

Physiology and metabolism

spore formation

@ref	spore formation	confidence
69481	yes	100
69480	yes	99.998

observation

@ref: 67770
observation: quinones: MK-9(H₆), MK-9(H₈), MK-9(H₄)

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent	latitude	longitude
21055	estuarine brackish water sediment of a fish dumping yard	Odisha, Chilika Lake (19° 71' N 85° 19' E), Barkul village	India	IND	Asia	20.1833	85.3167
67770	Sediment of a fish dumping yard at Barkul Village near Chilika Lake	Odisha	India	IND	Asia

isolation source categories

Cat1	Cat2	Cat3
#Host	#Other	#Decomposing animal
#Environmental	#Aquatic	#Brackish
#Environmental	#Aquatic	#Sediment
#Host	#Fishes

Safety information

risk assessment

@ref: 21055
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 21055
description: Streptomyces barkulensis strain RC 1831 from India 16S ribosomal RNA gene, partial sequence
accession: JQ862602
length: 1428
database: ena
NCBI tax ID: 1257026

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
67770	Streptomyces barkulensis RC 1831	GCA_002811705	scaffold	ncbi	1257026
67770	Streptomyces barkulensis RC 1831	GCA_002843305	scaffold	ncbi	1257026

GC content

@ref: 21055
GC-content: 66.2
method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	100	no
flagellated	no	98.041	no
flagellated	no	98.041	no
gram-positive	yes	89.091	no
gram-positive	yes	89.091	no
anaerobic	no	98.403	no
anaerobic	no	98.403	no
halophile	no	81.275	no
halophile	no	81.275	no
spore-forming	yes	94.664	no
spore-forming	yes	94.664	no
glucose-util	yes	87.101	no
glucose-util	yes	87.101	no
aerobic	yes	85.676	no
aerobic	yes	85.676	no
thermophile	no	96.123	no
thermophile	no	96.123	no
motile	no	95.337	no
motile	no	95.337	no
glucose-ferment	no	86.38	no
glucose-ferment	no	86.38	no

External links

@ref: 21055

culture collection no.: DSM 42082, JCM 18754

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	24436069	Streptomyces barkulensis sp. nov., isolated from an estuarine lake.	Ray L, Mishra SR, Panda AN, Rastogi G, Pattanaik AK, Adhya TK, Suar M, Raina V	Int J Syst Evol Microbiol	10.1099/ijs.0.056614-0	2014	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Estuaries, Fatty Acids/chemistry, Geologic Sediments/microbiology, India, Lakes/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry	Genetics
Phylogeny	27220564	Streptomyces chitinivorans sp. nov., a chitinolytic strain isolated from estuarine lake sediment.	Ray L, Mishra SR, Panda AN, Das S, Rastogi G, Pattanaik AK, Adhya TK, Suar M, Raina V	Int J Syst Evol Microbiol	10.1099/ijsem.0.001176	2016	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Estuaries, Fatty Acids/chemistry, Geologic Sediments/microbiology, Lakes/microbiology, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification	Transcriptome
Phylogeny	29560533	Streptomyces carminius sp. nov., a novel actinomycete isolated from Sophora alopecuroides in Xinjiang, China.	Wang Y, Xia Z, Liu Z, Wan C, Luo X, Zhang L	Antonie Van Leeuwenhoek	10.1007/s10482-018-1069-x	2018	China, DNA, Bacterial, Metabolomics/methods, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sophora/parasitology, Streptomyces/chemistry/classification/genetics/isolation & purification	Phenotype
Phylogeny	29580317	Streptomyces salilacus sp. nov., an actinomycete isolated from a salt lake.	Luo XX, Gao GB, Xia ZF, Chen ZJ, Wan CX, Zhang LL	Int J Syst Evol Microbiol	10.1099/ijsem.0.002703	2018	Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/microbiology, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Streptomyces/classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry	Transcriptome
Phylogeny	30225544	Streptomyces desertarenae sp. nov., a novel actinobacterium isolated from a desert sample.	Li LY, Yang ZW, Asem MD, Fang BZ, Salam N, Alkhalifah DHM, Hozzein WN, Nie GX, Li WJ	Antonie Van Leeuwenhoek	10.1007/s10482-018-1163-0	2018	Aerobiosis, Base Composition, Cell Wall/chemistry, China, Cytosol/chemistry, Desert Climate, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Glycolipids/analysis, Hydrogen-Ion Concentration, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Soil Microbiology, Streptomyces/classification/genetics/*isolation & purification/physiology, Temperature	Metabolism

Reference

@id	authors	title	doi/url	catalogue
20215	Parte, 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 DSMZ	10.1099/ijsem.0.004332
21055	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-42082	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42082)
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
69480	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann	Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)	https://diaspora-project.de/progress.html#genomes
69481	Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch	Predictions based on the model GenomeNet Sporulation v. 1	10.21203/rs.3.rs-2527258/v1