Strain identifier

BacDive ID: 140642

Type strain: Yes

Species: Halorubrum pallidum

Strain Designation: PJ61

Strain history: H. Xiang; Inst. of Microbiol., CAS, China; PJ61.

NCBI tax ID(s): 1526114 (species)

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General

@ref: 43078

BacDive-ID: 140642

keywords: 16S sequence, Archaea, aerobe, mesophilic, Gram-negative, sphere-shaped, colony-forming

description: Halorubrum pallidum PJ61 is an aerobe, mesophilic, Gram-negative archaeon that forms circular colonies and was isolated from subterranean rock salt.

NCBI tax id

  • NCBI tax id: 1526114
  • Matching level: species

strain history

  • @ref: 67770
  • history: H. Xiang; Inst. of Microbiol., CAS, China; PJ61.

doi: 10.13145/bacdive140642.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Haloferacales
  • family: Halorubraceae
  • genus: Halorubrum
  • species: Halorubrum pallidum
  • full scientific name: Halorubrum pallidum Chen et al. 2016

@ref: 43078

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Haloferacales

family: Halorubraceae

genus: Halorubrum

species: Halorubrum pallidum

strain designation: PJ61

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
43078negative1.0-1.2 µm0.5-0.8 µmsphere-shapedno
43078oval-shaped

colony morphology

  • @ref: 43078
  • colony size: 1.0-2.0 mm
  • colony color: pale
  • colony shape: circular
  • medium used: AS-158 agar

Culture and growth conditions

culture medium

  • @ref: 43078
  • name: AS-158 agar
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43078positiveoptimum38mesophilic
43078positivegrowth25-45
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
43078positivegrowth7.5-8.5alkaliphile
43078positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 43078
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
43078NaClpositivegrowth2.6-5.1 M
43078NaClpositiveoptimum3.4 M

observation

  • @ref: 43078
  • observation: Cell lysis in distilled water

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4307818420magnesium(2+)+required for growth
4307817632nitrate-reduction
4307816301nitrite-reduction
4307828017starch-hydrolysis
430785291gelatin-hydrolysis
43078casein-hydrolysis
4307853424tween 20-hydrolysis
4307853423tween 40-hydrolysis
4307853425tween 60-hydrolysis
4307853426tween 80-hydrolysis
4307817634D-glucose+carbon source
4307816024D-mannose+carbon source
4307812936D-galactose+carbon source
4307815824D-fructose+carbon source
4307865327D-xylose+carbon source
4307817306maltose+carbon source
4307817754glycerol+carbon source
4307825115malate+carbon source
4307829985L-glutamate+carbon source
4307815361pyruvate+carbon source
4307824996lactate+carbon source
4307830031succinate+carbon source
4307829806fumarate+carbon source
4307817317D-sorbose-carbon source
4307816988D-ribose-carbon source
4307817992sucrose-carbon source
4307817716lactose-carbon source
4307828017starch-carbon source
4307816899D-mannitol-carbon source
4307817924D-sorbitol-carbon source
4307816947citrate-carbon source
4307815428glycine-carbon source
4307816977L-alanine-carbon source
4307816467L-arginine-carbon source
4307829991L-aspartate-carbon source
4307818019L-lysine-carbon source
4307815729L-ornithine-carbon source
4307817634D-glucose+builds acid from
4307816024D-mannose+builds acid from
4307812936D-galactose+builds acid from
4307815824D-fructose+builds acid from
4307865327D-xylose+builds acid from
4307817317D-sorbose+builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
4307828971ampicillinyesyes10 µg (disc)
4307828669bacitracinyesyes0.04 Unit
4307817698chloramphenicolyesyes30 µg (disc)
43078100241ciprofloxacinyesyes5 µg (disc)
4307848923erythromycinyesyes15 µg (disc)
430786104kanamycinyesyes10 µg (disc)
430787507neomycinyesyes30 µg (disc)
43078100246norfloxacinyesyes10 µg (disc)
4307828368novobiocinyesyes30 µg (disc)
4307818208penicillin gyesyes10 Unit
4307828077rifampicinyesyes5 µg (disc)
4307817076streptomycinyesyes10 µg (disc)
4307827902tetracyclineyesyes30 µg (disc)
4307828001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4307816136hydrogen sulfideyes
4307835581indoleno

enzymes

@refvalueactivityec
43078cytochrome oxidase+1.9.3.1
43078catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
43078subterranean rock saltYuanyongjing Salt Mine, Yunnan province, ChinaChinaCHNAsia25101
67770Subterranean rock salt of Yuanyongjing Salt MineYunnanChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Condition#Saline
#Environmental#Terrestrial#Geologic

Sequence information

16S sequences

  • @ref: 43078
  • description: 16S rRNA gene sequences
  • accession: KJ644242
  • length: 1471
  • database: ena
  • NCBI tax ID: 1526114

GC content

  • @ref: 67770
  • GC-content: 65.1
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 43078

culture collection no.: CGMCC 1.15212, JCM 30955

literature

  • topic: Phylogeny
  • Pubmed-ID: 27150166
  • title: Halorubrum pallidum sp. nov., an extremely halophilic archaeon isolated from a subterranean rock salt.
  • authors: Chen S, Liu HC, Zhou J, Xiang H
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001129
  • year: 2016
  • mesh: Base Composition, China, DNA, Archaeal/genetics, Genes, Archaeal, Halorubrum/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Peptide Elongation Factor 2/genetics, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride
  • topic2: Transcriptome

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
43078Shaoxing Chen, Hong-Can Liu, Jian Zhou and Hua XiangHalorubrum pallidum sp. nov., an extremely halophilic archaeon isolated from a subterranean rock salt10.1099/ijsem.0.001129IJSEM 66: 2980-2986 201627150166
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/