Strain identifier

BacDive ID: 130646

Type strain: Yes

Species: Allgaiera indica

Strain Designation: 20V17

Strain history: J. Jiang 20V17.

NCBI tax ID(s): 765699 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 22088

BacDive-ID: 130646

DSM-Number: 24802

keywords: Bacteria, 16S sequence, genome sequence, mesophilic

description: Allgaiera indica 20V17 is a mesophilic bacterium that was isolated from sulfide chimney of a deep-sea hydrothermal vent.

NCBI tax id

  • NCBI tax id: 765699
  • Matching level: species

strain history

doi: 10.13145/bacdive130646.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Rhodobacteraceae
  • genus: Allgaiera
  • species: Allgaiera indica
  • full scientific name: Allgaiera indica (Jiang et al. 2014) Hördt et al. 2020
  • synonyms

    @refsynonym
    20215Acidimangrovimonas indica
    20215Defluviimonas indica

@ref: 22088

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Allgaiera

species: Allgaiera indica

full scientific name: Allgaiera indica (Jiang et al. 2014) Hördt et al. 2020

strain designation: 20V17

type strain: yes

Morphology

colony morphology

  • @ref: 22088
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 22088
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://bacmedia.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22088positivegrowth28mesophilic
67770positivegrowth25mesophilic

Physiology and metabolism

observation

  • @ref: 67770
  • observation: quinones: Q10

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
22088sulfide chimney of a deep-sea hydrothermal ventSouthwest Indian Ridge (37.78° S 50.64° E at a depth of 2783 m)ChinaCHNAsia-37.7850.64
67770Deep-sea hydrothermal sulfide in the South-west Indian Ridge

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Hydrothermal vent
#Environmental#Aquatic#Marine
#Condition#Sulfuric
#Condition#Thermophilic (>45°C)

Safety information

risk assessment

  • @ref: 22088
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22088
  • description: Defluviimonas indica strain 20V17 16S ribosomal RNA gene, partial sequence
  • accession: HM050420
  • length: 1431
  • database: ena
  • NCBI tax ID: 765699

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Allgaiera indica DSM 24802GCA_900106675scaffoldncbi765699
66792Allgaiera indica CGMCC 1.10859GCA_014653075contigncbi765699
66792Acidimangrovimonas indica strain CGMCC 1.10859765699.5wgspatric765699
66792Defluviimonas indica strain DSM 24802765699.3wgspatric765699
66792Allgaiera indica DSM 248022693429897draftimg765699
67770Defluviimonas sp. 20V17, whole genome shotgun sequencing projectAYXI00000000ncbi1417296
67770Allgaiera indica strain DSM 24802, whole genome shotgun sequencing projectFNOB00000000ncbi765699

GC content

@refGC-contentmethod
2208866.3sequence analysis
6777066.3genome sequence analysis

External links

@ref: 22088

culture collection no.: DSM 24802, CGMCC 1.10859, JCM 17871, MCCC 1A01802

straininfo link

@refpassport
20218http://www.straininfo.net/strains/896818
20218http://www.straininfo.net/strains/896819
20218http://www.straininfo.net/strains/896820

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24670896Defluviimonas indica sp. nov., a marine bacterium isolated from a deep-sea hydrothermal vent environment.Jiang L, Xu H, Shao Z, Long MInt J Syst Evol Microbiol10.1099/ijs.0.061614-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrothermal Vents/*microbiology, Indian Ocean, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/microbiology, Sequence Analysis, DNA, UbiquinoneGenetics
Genetics24903865Draft Genome Sequence of Defluviimonas indica Strain 20V17T, Isolated from a Deep-Sea Hydrothermal Vent Environment in the Southwest Indian Ocean.Jiang L, Long M, Shao ZGenome Announc10.1128/genomeA.00479-142014Phylogeny
Phylogeny28809144Defluviimonas nitratireducens sp. nov., isolated from surface seawater.Liu Y, Lai Q, Wang W, Shao ZInt J Syst Evol Microbiol10.1099/ijsem.0.0020152017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny29458487Defluviimonas pyrenivorans sp. nov., a novel bacterium capable of degrading polycyclic aromatic hydrocarbons.Zhang S, Sun C, Xie J, Wei H, Hu Z, Wang HInt J Syst Evol Microbiol10.1099/ijsem.0.0026292018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Phospholipids/chemistry, *Phylogeny, Polycyclic Aromatic Hydrocarbons/*metabolism, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Rivers/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny31169491Acidimangrovimonas sediminis gen. nov., sp. nov., isolated from mangrove sediment and reclassification of Defluviimonas indica as Acidimangrovimonas indica comb. nov. and Defluviimonas pyrenivorans as Acidimangrovimonas pyrenivorans comb. nov.Ren H, Ma H, Li H, Huang L, Luo YInt J Syst Evol Microbiol10.1099/ijsem.0.0035132019Avicennia/*microbiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Estuaries, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
22088Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24802Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24802)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/