Archive BacDiveID:10.13145/bacdive24619.20230509.8.1

Strain identifier

BacDive ID: 24619

Type strain:

Species: Streptomyces aidingensis

Strain history: <- J. Nakagawa; NBRC 108211 <- Y. Huang, Chinese Acad. Sci.; TRM 46012

NCBI tax ID(s): 910347 (species)

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

General

@ref: 21048

BacDive-ID: 24619

DSM-Number: 42133

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

description: Streptomyces aidingensis DSM 42133 is an aerobe, spore-forming, mesophilic bacterium that was isolated from Aiding lake sediment.

NCBI tax id

NCBI tax id: 910347
Matching level: species

strain history

@ref: 21048
history: <- J. Nakagawa; NBRC 108211 <- Y. Huang, Chinese Acad. Sci.; TRM 46012

doi: 10.13145/bacdive24619.20230509.8.1

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 aidingensis
full scientific name: Streptomyces aidingensis Xia et al. 2013

@ref: 21048

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces aidingensis

full scientific name: Streptomyces aidingensis Xia et al. 2013 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@ref	gram stain	motility	confidence
30995	positive
69480		no	93.3
69480	positive		100

pigmentation

@ref: 30995
production: yes

multimedia

@ref	multimedia content	intellectual property rights	caption
21048	https://www.dsmz.de/microorganisms/photos/DSM_42133-1.jpg	© Leibniz-Institut DSMZ
21048	https://www.dsmz.de/microorganisms/photos/DSM_42133.jpg	© Leibniz-Institut DSMZ	Medium 65 37°C

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
21048	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	yes	https://mediadive.dsmz.de/medium/65	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
21048	CZAPEK PEPTONE AGAR (DSMZ Medium 83)	yes	https://mediadive.dsmz.de/medium/83	Name: CZAPEK PEPTONE AGAR (DSMZ Medium 83) Composition: Sucrose 30.0 g/l Agar 20.0 g/l Peptone 5.0 g/l NaNO3 3.0 g/l Yeast extract 2.0 g/l K2HPO4 1.0 g/l MgSO4 x 7 H2O 0.5 g/l KCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Distilled water

culture temp

@ref	growth	type	temperature	range
21048	positive	growth	37	mesophilic
30995	positive	growth	23-37
30995	positive	optimum	28	mesophilic

culture pH

@ref	ability	type	pH	PH range
30995	positive	growth	5.0-9.0	alkaliphile
30995	positive	optimum	7

Physiology and metabolism

oxygen tolerance

@ref: 30995
oxygen tolerance: aerobe

spore formation

@ref	spore formation	confidence
30995	yes
69481	yes	100
69480	yes	100

halophily

@ref	salt	growth	tested relation	concentration
30995	NaCl	positive	growth	0-5 %
30995	NaCl	positive	optimum	2 %

metabolite utilization

@ref	Chebi-ID	metabolite	utilization activity	kind of utilization tested
30995	22599	arabinose	+	carbon source
30995	33984	fucose	+	carbon source
30995	17234	glucose	+	carbon source
30995	29864	mannitol	+	carbon source
30995	16634	raffinose	+	carbon source
30995	33942	ribose	+	carbon source
30995	17992	sucrose	+	carbon source

enzymes

@ref	value	activity	ec
30995	catalase	+	1.11.1.6
30995	gelatinase	+

Isolation, sampling and environmental information

isolation

@ref: 21048
sample type: Aiding lake sediment
geographic location: Xinjiang, Tulufan Basin
country: China
origin.country: CHN
continent: Asia

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

taxonmaps

@ref: 69479
File name: preview.99_94330.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_27815;97_35023;98_64835;99_94330&stattab=map
Last taxonomy: Streptomyces aidingensis subclade
16S sequence: HQ286045
Sequence Identity:
Total samples: 50
soil counts: 31
aquatic counts: 6
animal counts: 11
plant counts: 2

Safety information

risk assessment

@ref: 21048
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 21048
description: Streptomyces aidingensis strain TRM 46012 16S ribosomal RNA gene, partial sequence
accession: HQ286045
length: 1528
database: ena
NCBI tax ID: 910347

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Streptomyces aidingensis CGMCC 4.5739	GCA_900112355	scaffold	ncbi	910347
66792	Streptomyces aidingensis strain CGMCC 4.5739	910347.3	wgs	patric	910347
66792	Streptomyces aidingensis CGMCC 4.5739	2675903061	draft	img	910347

GC content

@ref: 21048
GC-content: 74.4

Genome-based predictions

predictions

trait	prediction	confidence	training_data
spore-forming	yes	100	no
motile	no	93.47	no
flagellated	no	97.975	no
gram-positive	yes	89.221	yes
anaerobic	no	98.484	no
aerobic	yes	90.392	no
halophile	no	73.555	no
spore-forming	yes	93.201	yes
glucose-ferment	no	87.856	no
thermophile	no	92.016	yes
glucose-util	yes	87.622	yes

External links

@ref: 21048

culture collection no.: DSM 42133, CGMCC 4.5739, NBRC 108211, TRM 46012

straininfo link

@ref: 88463
straininfo: 403997

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	23456804	Streptomyces aidingensis sp. nov., an actinomycete isolated from lake sediment.	Xia ZF, Ruan JS, Huang Y, Zhang LL	Int J Syst Evol Microbiol	10.1099/ijs.0.049205-0	2013	Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/microbiology, Glycolipids/analysis, Lakes/microbiology, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/analysis	Genetics
Phylogeny	27217157	Streptomyces canalis sp. nov., an actinomycete isolated from an alkali-removing canal.	Xie YX, Han XX, Luo XX, Xia ZF, Wan CX, Zhang LL	Int J Syst Evol Microbiol	10.1099/ijsem.0.001180	2016	Alkalies, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistry	Transcriptome

Reference

@id	authors	title	doi/url	catalogue	ID_cross_reference	pubmed	journal
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
21048	Curators of the DSMZ		https://www.dsmz.de/collection/catalogue/details/culture/DSM-42133	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 42133)
30995	Barberan A, Caceres Velazquez H, Jones S, Fierer N.	Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information	10.1128/mSphere.00237-17		27325	28776041
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann	Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)	https://diaspora-project.de/progress.html#genomes
66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	10.1093/nar/gkaa1025			33211880	Nucleic Acids Res. 49: D498-D508 2020
69479	João 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 beta	https://microbeatlas.org/
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
88463	Reimer, 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 identifiers	10.60712/SI-ID403997.1