Strain identifier

BacDive ID: 1653

Type strain: Yes

Species: Chelatococcus sambhunathii

Strain Designation: HT4

Strain history: S. K. Das HT4.

NCBI tax ID(s): 363953 (species)

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General

@ref: 7341

BacDive-ID: 1653

DSM-Number: 18167

keywords: genome sequence, 16S sequence, Bacteria, chemoorganotroph, thermophilic, Gram-negative, motile, rod-shaped

description: Chelatococcus sambhunathii HT4 is a chemoorganotroph, thermophilic, Gram-negative bacterium that was isolated from sediment of hot sulfur spring.

NCBI tax id

  • NCBI tax id: 363953
  • Matching level: species

strain history

@refhistory
7341<- S. K. Das, Inst. Life Sci., Bhubaneswar, India; HT4
67770S. K. Das HT4.

doi: 10.13145/bacdive1653.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Chelatococcaceae
  • genus: Chelatococcus
  • species: Chelatococcus sambhunathii
  • full scientific name: Chelatococcus sambhunathii Panday and Das 2010

@ref: 7341

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Chelatococcaceae

genus: Chelatococcus

species: Chelatococcus sambhunathii

full scientific name: Chelatococcus sambhunathii Panday and Das 2010

strain designation: HT4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23363negative2.3-2.7 µm0.8-1.0 µmrod-shapedyespolar
69480negative99.999

colony morphology

  • @ref: 23363
  • incubation period: 3 days
  • medium used: TSA

Culture and growth conditions

culture medium

  • @ref: 23363
  • name: Trypticase Soy Agar (TSA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
23363positivemaximum50thermophilic
23363positiveminimum20psychrophilic
23363positiveoptimum37-42
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
23363positiveminimum6.0
23363positivemaximum8.5alkaliphile
23363positiveoptimum7.5-8.0

Physiology and metabolism

nutrition type

  • @ref: 23363
  • type: chemoorganotroph

spore formation

@refspore formationconfidence
23363no
69481no100
69480no99.997

halophily

  • @ref: 23363
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336329016arginine-assimilation
2336317716lactose-assimilation
2336317306maltose-assimilation
2336329864mannitol-assimilation
2336330623oxalate-assimilation
2336328044phenylalanine-assimilation
2336316634raffinose-assimilation
2336330911sorbitol-assimilation
2336327922sorbose-assimilation
2336317992sucrose-assimilation
2336327897tryptophan-assimilation
2336315963ribitol-carbon source
2336317057cellobiose-carbon source
2336315356cysteine-carbon source
2336317108D-arabinose-carbon source
233634853esculin-carbon source
2336328260galactose-carbon source
2336324265gluconate-carbon source
2336317754glycerol-carbon source
2336317268myo-inositol-carbon source
2336325094lysine-carbon source
2336337684mannose-carbon source
2336316811methionine-carbon source
2336326546rhamnose-carbon source
2336317814salicin-carbon source
2336326986threonine-carbon source
2336318186tyrosine-carbon source
2336317151xylitol-carbon source
2336318222xylose-carbon source
2336317234glucose-fermentation
2336316449alanine+assimilation
2336335391aspartate+assimilation
2336316947citrate+assimilation
2336328300glutamine+assimilation
2336327570histidine+assimilation
2336324898isoleucine+assimilation
2336317196L-asparagine+assimilation
2336329985L-glutamate+assimilation
2336325017leucine+assimilation
2336326271proline+assimilation
2336317822serine+assimilation
2336327266valine+assimilation
2336322599arabinose+builds acid from
2336317234glucose+builds acid from
2336317268myo-inositol+builds acid from
2336326546rhamnose+builds acid from
2336315428glycine+carbon source
2336327897tryptophan+energy source
2336328017starch+hydrolysis
2336316136hydrogen sulfide+other

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
233637507neomycinyesyes30 µg/mL
233636104kanamycinyesyes50 µg/mL
2336327902tetracyclineyesyes15 µg/mL
23363100147nalidixic acidyesyes20 µg/mL
2336328077rifampicinyesyes20 µg/mL
2336317076streptomycinyesyes25 µg/mL
2336317698chloramphenicolyesyes30 µg/mL
2336328971ampicillinyesyes40 µg/mL

metabolite production

@refChebi-IDmetaboliteproduction
2336315688acetoinno
2336335581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole test
2336315688acetoin-
2336317234glucose-
2336335581indole+

enzymes

@refvalueactivityec
23363arginine dihydrolase+3.5.3.6
23363catalase+1.11.1.6
23363cytochrome oxidase+1.9.3.1
23363tryptophan deaminase+4.1.99.1
23363urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7341sediment of hot sulfur springOrissa, AthamallikIndiaINDAsia
67770Hot springIndiaINDAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1514.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_86;96_866;97_1014;98_1197;99_1514&stattab=map
  • Last taxonomy: Chelatococcus
  • 16S sequence: DQ322070
  • Sequence Identity:
  • Total samples: 680
  • soil counts: 286
  • aquatic counts: 127
  • animal counts: 207
  • plant counts: 60

Safety information

risk assessment

  • @ref: 7341
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7341
  • description: Chelatococcus sambhunathii strain HT4 16S ribosomal RNA gene, partial sequence
  • accession: DQ322070
  • length: 1378
  • database: ena
  • NCBI tax ID: 363953

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chelatococcus sambhunathii strain DSM 18167363953.4wgspatric363953
66792Chelatococcus sambhunathii DSM 181672615840613draftimg363953
67770Chelatococcus sambhunathii DSM 18167GCA_001517345scaffoldncbi363953
67770Chelatococcus sambhunathii DSM 18167GCA_001418005scaffoldncbi363953

GC content

  • @ref: 7341
  • GC-content: 67.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.586yes
anaerobicno97.763no
halophileno88.88no
spore-formingno94.29no
glucose-utilyes87.81no
aerobicyes87.255no
motileyes87.989yes
flagellatedyes53.892yes
thermophileno88.667no
glucose-fermentno91.341no

External links

@ref: 7341

culture collection no.: DSM 18167, JCM 14988

straininfo link

  • @ref: 71300
  • straininfo: 369417

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19661510Chelatococcus sambhunathii sp. nov., a moderately thermophilic alphaproteobacterium isolated from hot spring sediment.Panday D, Das SKInt J Syst Evol Microbiol10.1099/ijs.0.013466-02009Bacterial Typing Techniques, Beijerinckiaceae/*classification/genetics/*isolation & purification/physiology, DNA, Ribosomal/analysis/genetics, Fatty Acids/analysis, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Hot Springs/*microbiology, Hot Temperature, India, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Genetics27516514Draft Genome Sequence of Chelatococcus sambhunathii Strain HT4T (DSM 18167T) Isolated from a Hot Spring in India.Badhai J, Whitman WB, Das SKGenome Announc10.1128/genomeA.00825-162016Phylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7341Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18167)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18167
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
23363Digvijay Panday, Subrata K. Das10.1099/ijs.0.013466-0Chelatococcus sambhunathii sp. nov., a moderately thermophilic alphaproteobacterium isolated from hot spring sedimentIJSEM 60: 861-865 201019661510
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71300Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID369417.1StrainInfo: A central database for resolving microbial strain identifiers