Strain identifier

BacDive ID: 2523

Type strain: Yes

Species: Caloramator australicus

Strain Designation: RC3

Strain history: <- Christopher Ogg ,Griffith Univ, Australia

NCBI tax ID(s): 857293 (strain), 515264 (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 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 16258

BacDive-ID: 2523

DSM-Number: 22476

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

description: Caloramator australicus RC3 is an anaerobe, thermophilic, Gram-positive bacterium that was isolated from microbial mat sample.

NCBI tax id

NCBI tax idMatching level
515264species
857293strain

strain history

@refhistory
16258<- T. Itoh, JCM/RIKEN <- C. Ogg and B. Patel; RC3
67770C. D. Ogg and B. K. C. Patel RC3.
67771<- Christopher Ogg ,Griffith Univ, Australia

doi: 10.13145/bacdive2523.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Clostridiaceae
  • genus: Caloramator
  • species: Caloramator australicus
  • full scientific name: Caloramator australicus Ogg and Patel 2009

@ref: 16258

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Clostridiaceae

genus: Caloramator

species: Caloramator australicus

full scientific name: Caloramator australicus Ogg and Patel 2009 emend. Ogg and Patel 2011

strain designation: RC3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
28898positive2.5-4.2 µm0.8-1 µmrod-shapedyes
25338peritrichous
67771rod-shapedperitrichous
67771positive

Culture and growth conditions

culture medium

  • @ref: 16258
  • name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104
  • composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

@refgrowthtypetemperaturerange
16258positivegrowth60thermophilic
28898positivegrowth45-70thermophilic
28898positiveoptimum60thermophilic
67770positivegrowth60thermophilic
67771positivegrowth60thermophilic

culture pH

@refabilitytypepHPH range
28898positivegrowth05-09alkaliphile
28898positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16258anaerobe
28898anaerobe
67771anaerobe

spore formation

@refspore formation
28898no
67771no

halophily

  • @ref: 28898
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2 %

observation

  • @ref: 25338
  • observation: grew poorly in the presence of 500 µg/ml sodium azide 21 (43 % inhibition)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2889817057cellobiose+carbon source
2889828757fructose+carbon source
2889828260galactose+carbon source
2889817234glucose+carbon source
2889817306maltose+carbon source
2889837684mannose+carbon source
2889815361pyruvate+carbon source
2889816634raffinose+carbon source
2889817992sucrose+carbon source
2889826986threonine+carbon source
2889818222xylose+carbon source
2533830089acetate-assimilation
2533816449alanine-assimilation
2533828102amylose+assimilation
2533822599arabinose-assimilation
2533829016arginine-assimilation
2533835391aspartate-assimilation
2533816150benzoate-assimilation
2533816526carbon dioxide-assimilation
2533885146carboxymethylcellulose-assimilation
25338casamino acids-assimilation
25338casein-assimilation
2533862968cellulose+assimilation
2533817029chitin-assimilation
2533818276dihydrogen-assimilation
2533833403elemental sulfur+electron acceptor
2533816236ethanol-assimilation
2533829034ferric iron+electron acceptor
2533815740formate-assimilation
2533828757fructose+fermentation
2533828260galactose+fermentation
2533817234glucose+fermentation
2533828300glutamine-assimilation
2533817754glycerol-assimilation
2533815428glycine-assimilation
2533824898isoleucine-assimilation
2533824996lactate-assimilation
2533817716lactose-assimilation
2533825017leucine-assimilation
2533817306maltose+fermentation
2533818291manganese+electron acceptor
2533829864mannitol-assimilation
2533816811methionine-assimilation
2533817268myo-inositol-assimilation
2533817632nitrate-electron acceptor
2533816301nitrite-electron acceptor
25338peptone+assimilation
2533817272propionate-assimilation
2533833942ribose-assimilation
2533817822serine-assimilation
25338278547sodium azide-growth
2533828017starch+assimilation
2533830031succinate-assimilation
2533817992sucrose+fermentation
2533816189sulfate-electron acceptor
2533817359sulfite-electron acceptor
2533816094thiosulfate-electron acceptor
25338tryptone-carbon source
25338tryptone-required for growth
25338tryptone+assimilation
2533837166xylan+assimilation
25338yeast extract (0.01 %, w/v)+carbon source
25338yeast extract (0.01 %, w/v)+required for growth

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
2533817698chloramphenicolyesyes100 µg/mL
2533817334penicillinyesyes100 µg/mL
2533817076streptomycinyesyes100 µg/mL
2533828971ampicillinyesyes10 µg/mL
2533827902tetracyclineyesyes10 µg/mL

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
16258microbial mat sampleQueensland, some 1000 km north-west of Brisbane, near Blackall, outflow of the Great Artesian Basin bore - "the New Lorne Bore"AustraliaAUSAustralia and Oceania-24.9133145.138
67771From microbial mat existing in the runoff channel from groundwatersGreat Artesian Basin bore, QueenslandAustraliaAUSAustralia and Oceania
67770Microbial mat sample from the outflow of a Great Artesian Basin bore in QueenslandAustraliaAUSAustralia and Oceania

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Microbial community
  • Cat3: #Microbial mat

taxonmaps

  • @ref: 69479
  • File name: preview.99_8018.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_285;96_3707;97_4555;98_5845;99_8018&stattab=map
  • Last taxonomy: Caloramator australicus subclade
  • 16S sequence: EU409943
  • Sequence Identity:
  • Total samples: 465
  • soil counts: 30
  • aquatic counts: 176
  • animal counts: 254
  • plant counts: 5

Sequence information

16S sequences

  • @ref: 16258
  • description: Caloramator australicus strain KCTC 5601 16S ribosomal RNA gene, partial sequence
  • accession: EU409943
  • length: 1471
  • database: ena
  • NCBI tax ID: 857293

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Caloramator australicus RC3857293.11wgspatric857293
66792Caloramator australicus RC32524023184draftimg857293
67770Caloramator australicus RC3GCA_000297115contigncbi857293

GC content

@refGC-contentmethod
1625834thermal denaturation, midpoint method (Tm)
2889834
6777133.0-35.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.807yes
flagellatedno61.045yes
gram-positiveyes62.773yes
anaerobicyes99.354yes
halophileno85.42no
spore-formingyes73.669yes
thermophileyes99.747yes
glucose-utilyes86.936no
aerobicno98.219yes
glucose-fermentyes65.501yes

External links

@ref: 16258

culture collection no.: DSM 22476, JCM 15081, KCTC 5601

straininfo link

  • @ref: 72057
  • straininfo: 362646

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19126731Caloramator australicus sp. nov., a thermophilic, anaerobic bacterium from the Great Artesian Basin of Australia.Ogg CD, Patel BKInt J Syst Evol Microbiol10.1099/ijs.0.000802-02009Australia, Bacteria, Anaerobic/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Culture Media, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fresh Water/*microbiology, Genes, rRNA, Gram-Positive Asporogenous Rods/*classification/genetics/isolation & purification/metabolism, *Hot Temperature, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityEnzymology
Genetics21421756Draft genome sequence of Caloramator australicus strain RC3T, a thermoanaerobe from the Great Artesian Basin of Australia.Ogg CD, Patel BKJ Bacteriol10.1128/JB.00193-112011Bacteria, Anaerobic/*genetics/isolation & purification, DNA, Bacterial/*chemistry/*genetics, Environmental Microbiology, *Genome, Bacterial, Gram-Positive Bacteria/*genetics/isolation & purification, Molecular Sequence Data, Queensland, Sequence Analysis, DNAEnzymology

Reference

@idauthorscataloguedoi/urltitlepubmedID_cross_referencejournal
16258Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22476)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22476
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
2533810.1099/ijs.0.000802-019126731
28898Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604125338
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
72057Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID362646.1StrainInfo: A central database for resolving microbial strain identifiers