Strain identifier

BacDive ID: 160635

Type strain: Yes

Species: Clostridium thermarum

Strain history: <- W.-J. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; SYSU GA15002 <- L. Liu

NCBI tax ID(s): 1716543 (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 8.1 (current version)

General

@ref: 67544

BacDive-ID: 160635

DSM-Number: 100530

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, thermophilic, Gram-positive, motile, rod-shaped

description: Clostridium thermarum DSM 100530 is an obligate aerobe, spore-forming, thermophilic bacterium that was isolated from water-sludge mixture of hot spring.

NCBI tax id

  • NCBI tax id: 1716543
  • Matching level: species

strain history

  • @ref: 67544
  • history: <- W.-J. Li, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; SYSU GA15002 <- L. Liu

doi: 10.13145/bacdive160635.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Clostridium
  • species: Clostridium thermarum
  • full scientific name: Clostridium thermarum Liu et al. 2021

@ref: 67544

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Clostridiaceae

genus: Clostridium

species: Clostridium thermarum

full scientific name: Clostridium thermarum Liu et al. 2020

type strain: yes

Morphology

cell morphology

  • @ref: 69625
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
67544RCM MEDIUM (DSMZ Medium 634)yeshttps://mediadive.dsmz.de/medium/634Name: RCM MEDIUM (DSMZ Medium 634) Composition: Sodium resazurin 0.0005 g/l dehydrated RCM medium
69625reinforced clostridial medium (RCM)yes

culture temp

@refgrowthtypetemperaturerange
67544positivegrowth45thermophilic
69625positivegrowth28-50
69625positiveoptimum45thermophilic

culture pH

@refabilitytypepH
69625positivegrowth6-8
69625positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 69625
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69625
  • type of spore: spore
  • spore formation: yes

halophily

  • @ref: 69625
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-1 %(w/v)

observation

  • @ref: 69625
  • observation: lignocellulose biodegradation

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6962516988D-ribose-assimilation
6962516634raffinose-assimilation
6962517108D-arabinose-carbon source
6962516899D-mannitol+assimilation
6962565327D-xylose+assimilation
6962530849L-arabinose+assimilation
6962517268myo-inositol+assimilation
6962517057cellobiose+builds acid from
6962517234glucose+builds acid from
6962517754glycerol+builds acid from
6962529864mannitol+builds acid from
6962518222xylose+builds acid from
6962585146carboxymethylcellulose+hydrolysis
6962562968cellulose+hydrolysis
696254853esculin+hydrolysis
696255291gelatin+hydrolysis
6962517754glycerol+hydrolysis
6962528017starch+hydrolysis
6962537166xylan+hydrolysis

metabolite production

  • @ref: 69625
  • Chebi-ID: 16236
  • metabolite: ethanol
  • production: yes

enzymes

@refvalueactivityec
69625arginine dihydrolase-3.5.3.6
69625alpha-galactosidase-3.2.1.22
69625alpha-glucosidase-3.2.1.20
69625phenylalanine arylamidase-
69625leucine arylamidase-3.4.11.1
69625serine arylamidase-
69625alanine arylamidase+3.4.11.2
69625alpha-arabinosidase+
69625arginine arylamidase+
69625beta-glucosidase+3.2.1.21
69625glutamyl-glutamate arylamidase+
69625glycin arylamidase+
69625histidine arylamidase+
69625leucyl glycin arylamidase+3.4.11.1
69625proline-arylamidase+3.4.11.5
69625tyrosine arylamidase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling datelatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationisolation date
67544water-sludge mixture of hot springYunnan provinceChinaCHNAsia
69625hot springYunnan provinceChinaCHNAsia2016-01-0225.441198.462 × enrichment mediumsee papers materials and methods section2 days2016-09-20

taxonmaps

  • @ref: 69479
  • File name: preview.99_136743.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_34;96_11532;97_68132;98_91162;99_136743&stattab=map
  • Last taxonomy: Clostridium thermarum subclade
  • 16S sequence: KR052807
  • Sequence Identity:
  • Total samples: 2510
  • soil counts: 1523
  • aquatic counts: 455
  • animal counts: 376
  • plant counts: 156

Sequence information

16S sequences

  • @ref: 67544
  • description: Clostridium sp. SYSU GA15002 16S ribosomal RNA gene, partial sequence
  • accession: KR052807
  • length: 1510
  • database: ena
  • NCBI tax ID: 1716543

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
69625Clostridium thermarum SYSU GA15002GCA_006351925completencbi1716543
69625Whole genome shotgunCP040924ncbi1716543

GC content

@refGC-contentmethod
6754436.6sequence analysis
6962536.6genome sequence analysis

External links

@ref: 67544

culture collection no.: DSM 100530, YIM A18, KCTC 15658, SYSU GA15002

straininfo link

  • @ref: 112873
  • straininfo: 403594

literature

  • topic: Phylogeny
  • Pubmed-ID: 32847779
  • title: Isolation of Clostridium from Yunnan-Tibet hot springs and description of Clostridium thermarum sp. nov. with lignocellulosic ethanol production.
  • authors: Liu L, Jiao JY, Fang BZ, Lv AP, Ming YZ, Li MM, Salam N, Li WJ
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2020.126104
  • year: 2020
  • mesh: Bacterial Typing Techniques, Cellobiose/metabolism, Cellulose/metabolism, China, Clostridium/classification/genetics/*isolation & purification/*metabolism, DNA, Bacterial/genetics, Ethanol/*metabolism, Fatty Acids/analysis, Fermentation, Genes, rRNA, Genome, Bacterial, Hot Springs/*microbiology, Lignin/*metabolism, Lipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Xylans/metabolism
  • topic2: Metabolism

Reference

@idauthorstitledoi/urlcatalogue
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
67544Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100530Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100530)
69479João 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 betahttps://microbeatlas.org/
69625Lan Liu, Jian-Yu Jiao, Bao-Zhu Fang, Ai-Ping Lv, Yu-Zhen Ming, Meng-Meng Li, Nimaichand Salam, Wen-Jun LiIsolation of Clostridium from Yunnan-Tibet hot springs and description of Clostridium thermarum sp. nov. with lignocellulosic ethanol production10.1016/j.syapm.2020.126104
112873Reimer, 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-ID403594.1