Archive BacDiveID:10.13145/bacdive17530.20221219.7.1

Strain identifier

BacDive ID: 17530

Type strain:

Species: Silanimonas lenta

Strain Designation: 25-4

Strain history: <- C.-J. Kim, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea; 25-4 <- E. M. Lee

NCBI tax ID(s): 1123253 (strain), 265429 (species)

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

General

@ref: 6272

BacDive-ID: 17530

DSM-Number: 16282

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Silanimonas lenta 25-4 is a mesophilic bacterium that was isolated from hot spring water.

NCBI tax id

NCBI tax id	Matching level
1123253	strain
265429	species

strain history: <- C.-J. Kim, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Republic of Korea; 25-4 <- E. M. Lee

doi: 10.13145/bacdive17530.20221219.7.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/pseudomonadota
domain: Bacteria
phylum: Pseudomonadota
class: Gammaproteobacteria
order: Lysobacterales
family: Lysobacteraceae
genus: Silanimonas
species: Silanimonas lenta
full scientific name: Silanimonas lenta Lee et al. 2005

@ref: 6272

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Xanthomonadales

family: Lysobacteraceae

genus: Silanimonas

species: Silanimonas lenta

full scientific name: Silanimonas lenta Lee et al. 2005

strain designation: 25-4

type strain: yes

Morphology

cell morphology

@ref: 69480
gram stain: negative
confidence: 99.605

multimedia

@ref	multimedia content	caption	intellectual property rights
66793	EM_DSM_16282_1.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_16282_2.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_16282_3.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_16282_4.jpg	electron microscopic image	© HZI/Manfred Rohde
66793	EM_DSM_16282_5.jpg	electron microscopic image	© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
6272	NUTRIENT AGAR (DSMZ Medium 1)	yes	https://mediadive.dsmz.de/medium/1	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
6272	R2A MEDIUM (DSMZ Medium 830)	yes	https://mediadive.dsmz.de/medium/830	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@ref: 6272
growth: positive
type: growth
temperature: 37
range: mesophilic

Physiology and metabolism

spore formation

@ref: 69480
spore formation: no
confidence: 99.198

halophily

@ref: 69480
halophily level: non-halophilic
confidence: 66.351

Isolation, sampling and environmental information

isolation

@ref: 6272
sample type: hot spring water
country: Republic of Korea
origin.country: KOR
continent: Asia

isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Thermal spring
#Condition	#Thermophilic (>45°C)

taxonmaps

@ref: 69479
File name: preview.99_6486.png
url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_3067;97_3767;98_4783;99_6486&stattab=map
Last taxonomy: Silanimonas lenta subclade
16S sequence: AY557615
Sequence Identity:
Total samples: 1396
soil counts: 333
aquatic counts: 877
animal counts: 110
plant counts: 76

Safety information

risk assessment

@ref: 6272
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 6272
description: Silanimonas lenta strain 25-4 16S ribosomal RNA gene, partial sequence
accession: AY557615
length: 1382
database: ena
NCBI tax ID: 265429

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Silanimonas lenta DSM 16282 DSM 16282	GCA_000429065	scaffold	ncbi	1123253
66792	Silanimonas lenta DSM 16282	1123253.3	wgs	patric	1123253
66792	Silanimonas lenta DSM 16282	2524614862	draft	img	1123253

External links

@ref: 6272

culture collection no.: DSM 16282

straininfo link

@ref: 20218
passport: http://www.straininfo.net/strains/382833

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	15653905	Silanimonas lenta gen. nov., sp. nov., a slightly thermophilic and alkaliphilic gammaproteobacterium isolated from a hot spring.	Lee EM, Jeon CO, Choi I, Chang KS, Kim CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.63328-0	2005	Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Hot Springs/microbiology, Hot Temperature, Hydrogen-Ion Concentration, Korea, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Xanthomonadaceae/chemistry/classification/genetics/isolation & purification	Stress
Phylogeny	28829021	Silanimonas algicola sp. nov., isolated from laboratory culture of a bloom-forming cyanobacterium, Microcystis.	Chun SJ, Cui Y, Ko SR, Lee HG, Oh HM, Ahn CY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002102	2017	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Eutrophication, Fatty Acids/chemistry, Lakes/microbiology, Microcystis, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistry, Xanthomonadaceae/classification/genetics/isolation & purification	Transcriptome

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
6272	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16282)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-16282
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
20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.		10.1016/j.syapm.2013.11.002	StrainInfo introduces electronic passports for microorganisms.	Syst Appl Microbiol. 37: 42-50 2014	24321274
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)
66793	Mukherjee et al.		10.1038/nbt.3886	GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life	35: 676-683 2017	28604660
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.		https://microbeatlas.org/	MicrobeAtlas 1.0 beta
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)