Strain identifier

BacDive ID: 141114

Type strain: Yes

Species: Rhabdanaerobium thermarum

Strain history: <- Wenjun Li, Sun Sat-Sen Univ.

NCBI tax ID(s): 1715347 (species)

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General

@ref: 64955

BacDive-ID: 141114

DSM-Number: 105239

keywords: 16S sequence, Bacteria, anaerobe, Gram-positive, motile, rod-shaped

description: Rhabdanaerobium thermarum CGMCC 1.5219 is an anaerobe, Gram-positive, motile bacterium that was isolated from a hot spring.

NCBI tax id

  • NCBI tax id: 1715347
  • Matching level: species

strain history

@refhistory
64955<- W.-J. Li, Sun Sat-Sen University; SYSU GA15001 <- L. Liu {2012}
67771<- Wenjun Li, Sun Sat-Sen Univ.

doi: 10.13145/bacdive141114.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Eubacteriaceae
  • genus: Rhabdanaerobium
  • species: Rhabdanaerobium thermarum
  • full scientific name: Rhabdanaerobium thermarum Liu et al. 2017

@ref: 64955

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Eubacteriaceae

genus: Rhabdanaerobium

species: Rhabdanaerobium thermarum

full scientific name: Rhabdanaerobium thermarum Liu et al. 2017

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityflagellum arrangement
44022positiverod-shapedyes
67771rod-shapedyessubpolar
67771positive

Culture and growth conditions

culture medium

  • @ref: 64955
  • name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/503
  • composition: Name: ANAEROBIC FRESHWATER (FWM) MEDIUM (DSMZ Medium 503; with strain-specific modifications) Composition: D-Glucose 4.98504 g/l Yeast extract 1.99402 g/l Na2CO3 1.49551 g/l NaCl 0.997008 g/l KCl 0.498505 g/l MgCl2 x 6 H2O 0.398803 g/l Na2S x 9 H2O 0.299103 g/l NH4Cl 0.249252 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149552 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498505 g/l NaOH 0.000498504 g/l Pyridoxine hydrochloride 0.000299103 g/l Nicotinic acid 0.000199402 g/l Thiamine-HCl x 2 H2O 0.000199402 g/l CoCl2 x 6 H2O 0.000189432 g/l Calcium pantothenate 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Vitamin B12 9.97009e-05 g/l p-Aminobenzoic acid 7.97607e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l D-(+)-biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
44022positivegrowth25-55
44022positiveoptimum45thermophilic
64955positivegrowth45thermophilic
67771positivegrowth45thermophilic

culture pH

@refabilitytypepH
44022positivegrowth6.0-8.0
44022positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: anaerobe

halophily

@refsaltgrowthtested relationconcentration
44022NaClpositivegrowth0.5-5.0 %
44022NaClpositiveoptimum1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4402227082trehalose-carbon source
440224853esculin-hydrolysis
4402215428glycine-nitrogen source
4402217561L-cysteine-nitrogen source
4402217191L-isoleucine-nitrogen source
4402215603L-leucine-nitrogen source
4402218019L-lysine-nitrogen source
44022beef extract+assimilation
44022peptone+assimilation
4402228017starch+assimilation
44022yeast extract+assimilation
4402227082trehalose+builds acid from
4402217108D-arabinose+carbon source
4402212936D-galactose+carbon source
4402216024D-mannose+carbon source
4402217924D-sorbitol+carbon source
4402216813galactitol+carbon source
4402217234glucose+carbon source
4402262345L-rhamnose+carbon source
4402217716lactose+carbon source
4402217306maltose+carbon source
4402216634raffinose+carbon source
4402217151xylitol+carbon source
440225291gelatin+hydrolysis
4402231206ammonium chloride+nitrogen source
4402216977L-alanine+nitrogen source
4402216467L-arginine+nitrogen source
4402217203L-proline+nitrogen source
4402216857L-threonine+nitrogen source
4402216811methionine+nitrogen source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
440222637amikacinyesyes30 µg (disc)
4402217698chloramphenicolyesyes30 µg (disc)
44022100241ciprofloxacinyesyes5 µg (disc)
440226104kanamycinyesyes30 µg (disc)
440227528netilmycinyesyes30 µg (disc)
4402218208penicillin gyesyes10 Unit
440228309polymyxin byesyes300 Unit
4402227902tetracyclineyesyes30 µg (disc)
4402228864tobramycinyesyes10 µg (disc)
4402228001vancomycinyesyes30 µg (disc)
4402228368novobiocinyesyes5 µg
4402217076streptomycinyesyes10 µg

metabolite production

@refChebi-IDmetaboliteproduction
4402235581indoleno
4402216199ureano

enzymes

@refvalueactivityec
44022phenylalanine arylamidase-
44022arginine arylamidase+
44022phenylalanine arylamidase+
44022cytochrome oxidase-1.9.3.1
44022catalase-1.11.1.6
44022leucine arylamidase+3.4.11.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
44022a hot springTengchong county, Yunnan provinceChinaCHNAsia
64955hot springYunnan province, Tengchong countyChinaCHNAsia
67771From hot springTengchong county, Yunnan provinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Thermal spring
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_164646.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1342;96_61722;97_79960;98_108164;99_164646&stattab=map
  • Last taxonomy: Rhabdanaerobium thermarum subclade
  • 16S sequence: KR054687
  • Sequence Identity:
  • Total samples: 1709
  • soil counts: 792
  • aquatic counts: 128
  • animal counts: 507
  • plant counts: 282

Safety information

risk assessment

  • @ref: 64955
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64955
  • description: Rhabdanaerobium thermarum strain SYSU GA15001 16S ribosomal RNA gene, partial sequence
  • accession: KR054687
  • length: 1542
  • database: ena
  • NCBI tax ID: 1715347

GC content

@refGC-contentmethod
6495535.6high performance liquid chromatography (HPLC)
6777135.6

External links

@ref: 64955

culture collection no.: CGMCC 1.5219, KCTC 15623, DSM 105239, SYSU GA15001

straininfo link

  • @ref: 96860
  • straininfo: 405721

literature

  • topic: Phylogeny
  • Pubmed-ID: 28945534
  • title: Rhabdanaerobium thermarum gen. nov., sp. nov., a novel anaerobic bacterium isolated from a hot spring.
  • authors: Liu L, Jiao JY, Salam N, Zhou EM, Fang BZ, Xian WD, Li MM, Ding YP, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002335
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, China, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
44022Lan Liu, Jian-Yu Jiao, Nimaichand Salam, En-Min Zhou, Bao-Zhu Fang, Wen-Dong Xian, Meng-Meng Li, Yi-Ping Ding, Wen-Jun LiRhabdanaerobium thermarum gen. nov., sp. nov., a novel anaerobic bacterium isolated from a hot spring10.1099/ijsem.0.002335IJSEM 67: 4584-4588 201728945534
64955Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105239Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105239)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/
96860Reimer, 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-ID405721.1