Strain identifier

BacDive ID: 140665

Type strain: Yes

Species: Thermoflexus hugenholtzii

Strain Designation: JAD2

Strain history: J. Dodsworth and B. P. Hedlund JAD2.

NCBI tax ID(s): 1495650 (species)

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General

@ref: 43390

BacDive-ID: 140665

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, chemoheterotroph, thermophilic, Gram-negative, filament-shaped, colony-forming

description: Thermoflexus hugenholtzii JAD2 is a microaerophile, chemoheterotroph, thermophilic bacterium that forms circular colonies and was isolated from sediment of Great Boiling Spring in Nevada, USA.

NCBI tax id

  • NCBI tax id: 1495650
  • Matching level: species

strain history

  • @ref: 67770
  • history: J. Dodsworth and B. P. Hedlund JAD2.

doi: 10.13145/bacdive140665.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/chloroflexota
  • domain: Bacteria
  • phylum: Chloroflexota
  • class: Thermoflexia
  • order: Thermoflexales
  • family: Thermoflexaceae
  • genus: Thermoflexus
  • species: Thermoflexus hugenholtzii
  • full scientific name: Thermoflexus hugenholtzii Dodsworth et al. 2014

@ref: 43390

domain: Bacteria

phylum: Chloroflexi

class: Thermoflexia

order: Thermoflexales

family: Thermoflexaceae

genus: Thermoflexus

species: Thermoflexus hugenholtzii

strain designation: JAD2

type strain: yes

Morphology

cell morphology

  • @ref: 43390
  • gram stain: negative
  • cell length: 4 µm
  • cell width: 0.3 µm
  • cell shape: filament-shaped
  • motility: no

colony morphology

  • @ref: 43390
  • colony size: 0.2-0.3 mm
  • colony color: translucent, lack colour
  • colony shape: circular
  • medium used: GBS salts medium

Culture and growth conditions

culture medium

  • @ref: 43390
  • name: GBS salts medium
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43390positiveoptimum72.5-75thermophilic
43390positivegrowth67.5-75thermophilic
67770positivegrowth75thermophilic

culture pH

@refabilitytypepH
43390positivegrowth6.5-7.75
43390positiveoptimum6.75

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43390microaerophile
43390facultative anaerobe

nutrition type

  • @ref: 43390
  • type: chemoheterotroph

spore formation

  • @ref: 43390
  • spore formation: no

halophily

  • @ref: 43390
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 0-100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4339062968cellulose-growth
4339085146carboxymethylcellulose-growth
43390casamino acids-growth
4339017057cellobiose-growth
4339015824D-fructose-growth
4339012936D-galactose-growth
4339017634D-glucose-growth
4339065327D-xylose-growth
4339015428glycine-growth
4339016467L-arginine-growth
4339029991L-aspartate-growth
4339029985L-glutamate-growth
4339015971L-histidine-growth
4339017191L-isoleucine-growth
4339015603L-leucine-growth
4339018019L-lysine-growth
4339016643L-methionine-growth
4339016414L-valine-growth
4339016183methane-growth
43390peptone+growth
433909215spectinomycin-growth
4339017992sucrose-growth
43390tryptone+growth
43390yeast extract+growth

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43390C16:042
    43390C19:016.1
    43390C18:07.7
    43390C20:07.2
    43390C19:16.6
    43390C18:1ω7t3.9
    43390C16:0 iso3.6
    43390C18:1ω9t3.1
    4339010-methyl C16:02.6
    43390cyclopropane C19:02.3
    43390C16:0 anteiso1.8
    43390C18:11.3
    43390C17:01.1
  • type of FA analysis: whole cell analysis
  • incubation medium: GBS salts medium
  • agar/liquid: agar
  • incubation temperature: 73
  • incubation pH: 6.75
  • incubation_oxygen: microaerophil
  • software version: Sherlock 6.2
  • library/peak naming table: TSBA 6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
43390sediment of Great Boiling Spring in Nevada, USAGreat boiling spring, NevadaUSAUSANorth America40-119
67770Sediment of Great Boiling SpringNVUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Spring
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_9102.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_915;96_4330;97_5279;98_6684;99_9102&stattab=map
  • Last taxonomy: Thermoflexus hugenholtzii subclade
  • 16S sequence: KC526151
  • Sequence Identity:
  • Total samples: 151
  • soil counts: 4
  • aquatic counts: 120
  • animal counts: 27

Sequence information

16S sequences

  • @ref: 43390
  • description: 16S rRNA gene sequence
  • accession: KC526151
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermoflexus hugenholtzii JAD22140918011draftimg877466
67770Thermoflexus hugenholtzii JAD2GCA_900187885scaffoldncbi877466

GC content

  • @ref: 43390
  • GC-content: 69.3
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 43390

culture collection no.: JCM 19131, CCTCC AB 2014030

literature

  • topic: Phylogeny
  • Pubmed-ID: 24676733
  • title: Thermoflexus hugenholtzii gen. nov., sp. nov., a thermophilic, microaerophilic, filamentous bacterium representing a novel class in the Chloroflexi, Thermoflexia classis nov., and description of Thermoflexaceae fam. nov. and Thermoflexales ord. nov.
  • authors: Dodsworth JA, Gevorkian J, Despujos F, Cole JK, Murugapiran SK, Ming H, Li WJ, Zhang G, Dohnalkova A, Hedlund BP
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.055855-0
  • year: 2014
  • mesh: Bacterial Typing Techniques, Base Composition, Chloroflexi/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Hot Springs/*microbiology, Hot Temperature, Molecular Sequence Data, Nevada, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Stress

Reference

@idauthorstitledoi/urljournalpubmed
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
43390Jeremy A. Dodsworth, Jonathan Gevorkian, Fairuz Despujos, Jessica K. Cole, Senthil K. Murugapiran, Hong Ming, Wen-Jun Li, Gengxin Zhang, Alice Dohnalkova, Brian P. HedlundThermoflexus hugenholtzii gen. nov., sp. nov., a thermophilic, microaerophilic, filamentous bacterium representing a novel class in the Chloroflexi, Thermoflexia classis nov., and description of Thermoflexaceae fam. nov. and Thermoflexales ord. nov.10.1099/ijs.0.055855-0IJSEM 64: 2119-2127 201424676733
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/