Strain identifier

BacDive ID: 164093

Type strain: Yes

Species: Nitrincola tapanii

Strain Designation: MEB193

Strain history: A. A. Joshi; NCCS, India; MEB193.

NCBI tax ID(s): 1708751 (species)

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General

@ref: 67770

BacDive-ID: 164093

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

description: Nitrincola tapanii MEB193 is a mesophilic, Gram-negative, motile bacterium that was isolated from Sediment from Lonar Lake.

NCBI tax id

  • NCBI tax id: 1708751
  • Matching level: species

strain history

  • @ref: 67770
  • history: A. A. Joshi; NCCS, India; MEB193.

doi: 10.13145/bacdive164093.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Oceanospirillaceae
  • genus: Nitrincola
  • species: Nitrincola tapanii
  • full scientific name: Nitrincola tapanii Joshi et al. 2020

@ref: 67770

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Oceanospirillaceae

genus: Nitrincola

species: Nitrincola tapanii

full scientific name: Nitrincola tapanii Joshi et al. 2020

strain designation: MEB193

type strain: yes

Morphology

cell morphology

  • @ref: 69574
  • gram stain: negative
  • cell length: 0.9-1.6 µm
  • cell width: 0.2-0.6 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

colony morphology

  • @ref: 69574
  • colony size: 1-2 mm
  • colony color: faint cream
  • medium used: Nutrient agar (NA)

Culture and growth conditions

culture medium

  • @ref: 69574
  • name: Nutrient agar (NA)
  • growth: yes
  • composition: (pH 9.0) medium

culture temp

@refgrowthtypetemperaturerange
67770positivegrowth30mesophilic
69574positivegrowth30mesophilic
69574positiveoptimum10-37

culture pH

@refabilitytypepH
69574positivegrowth8.0-10.5
69574positiveoptimum9

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
69574NaClpositivegrowth0-6 %(w/v)
69574NaClpositiveoptimum1 %(w/v)

observation

@refobservation
69574The strain is alkaliphilic. And the colonies are faint cream, entire, glistening, smooth and flat.
69574No fluorescent or visible pigments are produced on solid King's media A or B
69574The predominant polar lipids are phosphatidylglycerol and diphosphatidylglycerol.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6957435581indole-assimilation
6957417521(-)-quinic acid-assimilation
69574167632-oxobutanoate-assimilation
69574alpha-hydroxybutyrate-assimilation
6957473706bromosuccinate-assimilation
6957417057cellobiose-assimilation
6957418333D-arabitol-assimilation
6957429990D-aspartate-assimilation
6957418391D-gluconate-assimilation
6957415588D-malate-assimilation
6957416899D-mannitol-assimilation
6957433801D-saccharate-assimilation
6957417814D-salicin-assimilation
6957416523D-serine-assimilation
6957417924D-sorbitol-assimilation
6957423652dextrin-assimilation
69574esculin hydrolysate-assimilation
6957415740formate-assimilation
6957416537galactarate-assimilation
6957416865gamma-aminobutyric acid-assimilation
695745291gelatin-assimilation
6957417754glycerol-assimilation
6957470744glycyl-L-proline-assimilation
6957416136hydrogen sulfide-assimilation
6957417596inosine-assimilation
6957416977L-alanine-assimilation
6957416467L-arginine-assimilation
6957429991L-aspartate-assimilation
6957429985L-glutamate-assimilation
6957415971L-histidine-assimilation
6957415589L-malate-assimilation
6957490601L-pyroglutamic acid 2-naphthylamide-assimilation
6957417115L-serine-assimilation
6957424996lactate-assimilation
6957417716lactose-assimilation
6957417306maltose-assimilation
6957474611methyl (R)-lactate-assimilation
6957437657methyl D-glucoside-assimilation
6957451850methyl pyruvate-assimilation
6957417268myo-inositol-assimilation
6957463154N-acetyl-beta-D-mannosamine-assimilation
6957428037n-acetyl-D-galactosamine-assimilation
69574506227N-acetyl-D-glucosamine-assimilation
69574n-acetyl-neuraminic acid-assimilation
6957417309pectin-assimilation
6957417272propionate-assimilation
6957426490quinate-assimilation
6957416634raffinose-assimilation
6957417164stachyose-assimilation
6957417992sucrose-assimilation
6957427082trehalose-assimilation
6957432528turanose-assimilation
6957453423tween 40-assimilation
6957416991dna-hydrolysis
69574casein-hydrolysis
695745291gelatin-hydrolysis
6957428017starch-hydrolysis
6957453426tween 80-hydrolysis
6957416199urea-hydrolysis
6957417632nitrate-reduction

metabolite tests

@refChebi-IDmetabolitemethylred-testindole testvoges-proskauer-testcitrate test
6957435581indole--
6957416991dna-++

enzymes

@refvalueactivityec
69574cytochrome oxidase+1.9.3.1
69574catalase+1.11.1.6
69574leucine arylamidase+3.4.11.1
69574naphthol-AS-BI-phosphohydrolase+
69574alkaline phosphatase-3.1.3.1
69574esterase (C 4)-
69574esterase Lipase (C 8)-
69574lipase-
69574valine arylamidase-
69574cystine arylamidase-3.4.11.3
69574trypsin-3.4.21.4
69574alpha-chymotrypsin-3.4.21.1
69574acid phosphatase-3.1.3.2
69574alpha-galactosidase-3.2.1.22
69574beta-galactosidase-3.2.1.23
69574beta-glucuronidase-3.2.1.31
69574alpha-glucosidase-3.2.1.20
69574beta-glucosidase-3.2.1.21
69574N-acetyl-beta-glucosaminidase-3.2.1.52
69574alpha-mannosidase-3.2.1.24
69574alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    69574C10:02.6
    69574C10:0 3OH4.7
    69574C12:02.6
    69574C16:024.6
    69574C16:1 w7c/ C16:1 w6c9.9
    69574C18:01.5
    69574C18:1 w7c/C18:1 w6c52.3
  • type of FA analysis: whole cell analysis
  • incubation medium: Nutrient agar
  • incubation temperature: 28
  • software version: Sherlock 6.0
  • library/peak naming table: RTSBA6
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
67770Sediment from Lonar LakeIndiaINDAsia
69574sediment sample collected from Lonar Lake, India.IndiaINDAsiaLonar Lake

taxonmaps

  • @ref: 69479
  • File name: preview.99_150493.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_57152;97_73894;98_99446;99_150493&stattab=map
  • Last taxonomy: Nitrincola tapanii subclade
  • 16S sequence: KT633917
  • Sequence Identity:
  • Total samples: 52
  • soil counts: 5
  • aquatic counts: 39
  • animal counts: 8

Sequence information

16S sequences

  • @ref: 67770
  • description: Nitrincola sp. MEB193 16S ribosomal RNA gene, partial sequence
  • accession: KT633917
  • length: 1481
  • database: ena
  • NCBI tax ID: 1708751

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
67770Nitrincola tapanii MEB193GCA_008368715contigncbi1708751
69574genome sequenceGCA_008368715.1ncbi

GC content

  • @ref: 67770
  • GC-content: 50.79
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.76no
flagellatedyes87.821no
gram-positiveno99.003no
anaerobicno97.431no
aerobicyes63.687no
halophileyes70.65no
spore-formingno96.725no
glucose-utilno56.747no
glucose-fermentno80.07no
thermophileno98.762yes

External links

@ref: 67770

culture collection no.: JCM 31570, MCC 2863, KCTC 52390

literature

  • topic: Phylogeny
  • Pubmed-ID: 31751193
  • title: Nitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake.
  • authors: Joshi A, Thite S, Dhotre D, Moorthy M, Joseph N, Ramana VV, Shouche Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003883
  • year: 2020
  • mesh: *Alkalies, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydrogen-Ion Concentration, India, Lakes/*microbiology, Nucleic Acid Hybridization, Oceanospirillaceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/url
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
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/
69574Amaraja Joshi, Sonia Thite, Dhiraj Dhotre, Manju Moorthy, Neetha Joseph, V. Venkata Ramana and Yogesh ShoucheNitrincola tapanii sp. nov., a novel alkaliphilic bacterium from An Indian Soda Lake10.1099/ijsem.0.003883