Strain identifier

BacDive ID: 24722

Type strain: Yes

Species: Nitritalea halalkaliphila

Strain Designation: LW7

Strain history: S. Shivaji LW7.

NCBI tax ID(s): 590849 (species)

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General

@ref: 21212

BacDive-ID: 24722

DSM-Number: 46695

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped

description: Nitritalea halalkaliphila LW7 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from water sample at a depth of 4,5m.

NCBI tax id

  • NCBI tax id: 590849
  • Matching level: species

strain history

@refhistory
21212<- JCM; JCM 15946 <- S. Shivaji; LW7
67770S. Shivaji LW7.

doi: 10.13145/bacdive24722.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Cyclobacteriaceae
  • genus: Nitritalea
  • species: Nitritalea halalkaliphila
  • full scientific name: Nitritalea halalkaliphila Anil Kumar et al. 2010

@ref: 21212

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Cyclobacteriaceae

genus: Nitritalea

species: Nitritalea halalkaliphila

full scientific name: Nitritalea halalkaliphila Anil Kumar et al. 2010

strain designation: LW7

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29759negative02-03 µm0.7-0.8 µmrod-shapedno
69480negative99.985

pigmentation

  • @ref: 29759
  • production: yes

multimedia

  • @ref: 21212
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46695.jpg
  • caption: Medium 514a 37°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29759positivegrowth25-40
29759positiveoptimum37mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29759positivegrowth7.5-12alkaliphile
29759positiveoptimum10

Physiology and metabolism

oxygen tolerance

  • @ref: 29759
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no93
69480no99.968

halophily

@refsaltgrowthtested relationconcentration
29759NaClpositivegrowth01-22 %
29759NaClpositiveoptimum02-05 %

observation

@refobservation
29759aggregates in chains
67770quinones: MK-4, MK-5

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2975935391aspartate+carbon source
2975917057cellobiose+carbon source
2975916947citrate+carbon source
2975928757fructose+carbon source
2975917234glucose+carbon source
2975929987glutamate+carbon source
2975927570histidine+carbon source
2975917716lactose+carbon source
2975915792malonate+carbon source
2975915361pyruvate+carbon source
2975916634raffinose+carbon source
2975930031succinate+carbon source
2975917992sucrose+carbon source
2975927082trehalose+carbon source

enzymes

@refvalueactivityec
29759catalase+1.11.1.6
29759cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
21212water sample at a depth of 4,5mMaharashtra, Buldhana district, Lonar, Lonar LakeIndiaINDAsia
61412Lake waterBuldhana district,Lake LonarIndiaINDAsia2008-08-25
67770Water sample collected at a depth of 4.5 m from Lonar LakeLonar, Buldhana district, MaharashtraIndiaINDAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_7349.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_3438;97_4220;98_5392;99_7349&stattab=map
  • Last taxonomy: Nitritalea halalkaliphila subclade
  • 16S sequence: FM991866
  • Sequence Identity:
  • Total samples: 303
  • soil counts: 48
  • aquatic counts: 145
  • animal counts: 104
  • plant counts: 6

Safety information

risk assessment

  • @ref: 21212
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21212
  • description: Nitritalea halalkaliphila 16S rRNA gene, type strain LW7T
  • accession: FM991866
  • length: 1499
  • database: ena
  • NCBI tax ID: 1189621

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nitritalea halalkaliphila LW7GCA_000265075contigncbi1189621
66792Nitritalea halalkaliphila LW71189621.7wgspatric1189621
66792Nitritalea halalkaliphila LW72513237132draftimg1189621

GC content

@refGC-contentmethod
2121249thermal denaturation, midpoint method (Tm)
2975949

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
motileno91.245yes
gram-positiveno98.567yes
anaerobicno98.038yes
aerobicyes93.047yes
halophileno66.414no
spore-formingno94.641no
flagellatedno97.511yes
glucose-utilyes85.762yes
thermophileno88.91yes
glucose-fermentno92.852no

External links

@ref: 21212

culture collection no.: DSM 46695, CCUG 57665, JCM 15946, NCCB 100279

straininfo link

  • @ref: 88552
  • straininfo: 370986

literature

  • topic: Phylogeny
  • Pubmed-ID: 19933591
  • title: Nitritalea halalkaliphila gen. nov., sp. nov., an alkaliphilic bacterium of the family 'Cyclobacteriaceae', phylum Bacteroidetes.
  • authors: Anil Kumar P, Srinivas TNR, Pavan Kumar P, Madhu S, Shivaji S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.020230-0
  • year: 2009
  • mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/*isolation & purification/physiology, Base Composition, Carotenoids/analysis, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, India, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
21212Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-46695Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46695)
29759Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172614028776041
61412Curators of the CCUGhttps://www.ccug.se/strain?id=57665Culture Collection University of Gothenburg (CCUG) (CCUG 57665)
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/
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88552Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID370986.1