Strain identifier

BacDive ID: 134174

Type strain: Yes

Species: Nonlabens tegetincola

Strain Designation: CKA-5

NCBI tax ID(s): 323273 (species)

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General

@ref: 31687

BacDive-ID: 134174

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

description: Nonlabens tegetincola CKA-5 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 323273
  • Matching level: species

doi: 10.13145/bacdive134174.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Nonlabens
  • species: Nonlabens tegetincola
  • full scientific name: Nonlabens tegetincola Lau et al. 2005

  • synonyms

    @refsynonym
    20215Nonlabens sediminis
    20215Sandarakinotalea sediminis

@ref: 31687

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Nonlabens

species: Nonlabens sediminis

strain designation: CKA-5

type strain: yes

Morphology

cell morphology

  • @ref: 31687
  • gram stain: negative
  • cell length: 03-05 µm
  • cell width: 0.5-0.7 µm
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31687positivegrowth10-40
31687positiveoptimum15-20psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 31687
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31687
  • spore formation: no

observation

  • @ref: 31687
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3168740585alpha-cyclodextrin+carbon source
3168735391aspartate+carbon source
3168723652dextrin+carbon source
3168728087glycogen+carbon source
3168717306maltose+carbon source
3168729864mannitol+carbon source
3168718257ornithine+carbon source
3168726271proline+carbon source
3168717822serine+carbon source
3168726986threonine+carbon source

enzymes

@refvalueactivityec
31687catalase+1.11.1.6
31687cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 31687
  • sample type: marine sediment

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_3786.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_420;96_1946;97_2340;98_2886;99_3786&stattab=map
  • Last taxonomy: Nonlabens
  • 16S sequence: AB206954
  • Sequence Identity:
  • Total samples: 6285
  • soil counts: 126
  • aquatic counts: 5409
  • animal counts: 721
  • plant counts: 29

Sequence information

16S sequences

  • @ref: 31687
  • description: Sandarakinotalea sediminis gene for 16S ribosomal RNA, partial sequence
  • accession: AB206954
  • length: 1448
  • database: nuccore
  • NCBI tax ID: 319236

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Nonlabens tegetincola NBRC 100970GCA_002117085completencbi323273
66792Nonlabens sediminis strain NBRC 100970319236.5completepatric323273
66792Nonlabens sediminis NBRC 1009702772190784completeimg319236

GC content

  • @ref: 31687
  • GC-content: 37

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno95.905yes
gram-positiveno97.556yes
anaerobicno99.064yes
halophileyes51.79no
spore-formingno95.016yes
glucose-utilyes81.138no
aerobicyes90.798yes
thermophileno98.896yes
motileno87.941yes
glucose-fermentno91.261no

External links

@ref: 31687

culture collection no.: NBRC 100970, LMG 23247

straininfo link

  • @ref: 91772
  • straininfo: 281202

literature

  • topic: Phylogeny
  • Pubmed-ID: 16627638
  • title: Sandarakinotalea sediminis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae.
  • authors: Khan ST, Nakagawa Y, Harayama S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.64055-0
  • year: 2006
  • mesh: Base Composition, DNA/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/isolation & purification, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Gelatin/metabolism, Genes, rRNA/genetics, Geologic Sediments/*microbiology, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Starch/metabolism, Water Microbiology
  • topic2: Metabolism

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
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
31687Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172796428776041
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/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
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/
91772Reimer, 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-ID281202.1