Strain identifier

BacDive ID: 133902

Type strain: Yes

Species: Flavobacterium noncentrifugens

Strain Designation: R-HLS-17

NCBI tax ID(s): 1128970 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 8.1 (current version)

General

@ref: 30833

BacDive-ID: 133902

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

description: Flavobacterium noncentrifugens R-HLS-17 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from meltwater of a glacier.

NCBI tax id

  • NCBI tax id: 1128970
  • Matching level: species

doi: 10.13145/bacdive133902.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flavobacterium
  • species: Flavobacterium noncentrifugens
  • full scientific name: Flavobacterium noncentrifugens Zhu et al. 2013

@ref: 30833

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium noncentrifugens

strain designation: R-HLS-17

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30833negative1.25 µm0.35 µmrod-shapedno
69480negative99.966

pigmentation

  • @ref: 30833
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30833positivegrowth0-29
30833positiveoptimum15psychrophilic

culture pH

@refabilitytypepHPH range
30833positivegrowth6.0-8.5alkaliphile
30833positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30833
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

  • @ref: 30833
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3083317234glucose+carbon source
3083328053melibiose+carbon source
3083327082trehalose+carbon source
308334853esculin+hydrolysis

enzymes

@refvalueactivityec
30833acid phosphatase+3.1.3.2
30833alkaline phosphatase+3.1.3.1
30833catalase+1.11.1.6
30833cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 30833
  • sample type: meltwater of a glacier

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Glacier

taxonmaps

  • @ref: 69479
  • File name: preview.99_128891.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_66;96_39022;97_64717;98_86341;99_128891&stattab=map
  • Last taxonomy: Flavobacterium noncentrifugens subclade
  • 16S sequence: JQ002654
  • Sequence Identity:
  • Total samples: 888
  • soil counts: 236
  • aquatic counts: 344
  • animal counts: 197
  • plant counts: 111

Sequence information

16S sequences

  • @ref: 30833
  • description: Flavobacterium noncentrifugens strain R-HLS-17 16S ribosomal RNA gene, partial sequence
  • accession: JQ002654
  • length: 1359
  • database: nuccore
  • NCBI tax ID: 1128970

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium noncentrifugens CGMCC 1.10076GCA_900100375scaffoldncbi1128970
66792Flavobacterium noncentrifugens NBRC 108844GCA_007992475contigncbi1128970
66792Flavobacterium noncentrifugens strain CGMCC 1.100761128970.3wgspatric1128970
66792Flavobacterium noncentrifugens strain NBRC 1088441128970.6wgspatric1128970
66792Flavobacterium noncentrifugens CGMCC 1.100762619618994draftimg1128970

GC content

  • @ref: 30833
  • GC-content: 46.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.302no
flagellatedno94.577yes
gram-positiveno98.392yes
anaerobicno99.744yes
aerobicyes92.085yes
halophileno94.034yes
spore-formingno94.039no
glucose-fermentno90.551no
thermophileno99.48yes
glucose-utilyes82.794yes

External links

@ref: 30833

culture collection no.: CGMCC 1.10076, NBRC 108844

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23064352Flavobacterium noncentrifugens sp. nov., a psychrotolerant bacterium isolated from glacier meltwater.Zhu L, Liu Q, Liu H, Zhang J, Dong X, Zhou Y, Xin YInt J Syst Evol Microbiol10.1099/ijs.0.045534-02012Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, Ice Cover/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water MicrobiologyGenetics
Phylogeny24710649Flavobacterium qiangtangensis sp. nov., isolated from Qiangtang basin in Qinghai-Tibetan Plateau, China.Huang F, Zhang Y, Zhu Y, Wang P, Lu J, Lv JCurr Microbiol10.1007/s00284-014-0579-72014Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification/physiology, Hydrogen-Ion Concentration, Microscopy, Electron, Scanning, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology, Temperature, Tibet, Vitamin K 2/analysisGenetics
Phylogeny29458488Flavobacterium kingsejongi sp. nov., a carotenoid-producing species isolated from Antarctic penguin faeces.Choi JY, Kim JH, Lee PCInt J Syst Evol Microbiol10.1099/ijsem.0.0026102018Animals, Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/microbiology, Flavobacterium/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spheniscidae/*microbiology, Vitamin K 2/analogs & derivatives/chemistry, Zeaxanthins/*chemistryTranscriptome
Phylogeny30238204Flavobacterium dasani sp. nov., a psychrotolerant bacterium isolated from Arctic soil.Chaudhary DK, Kim D, Kim JArch Microbiol10.1007/s00203-018-1574-32018Arctic Regions, Bacterial Typing Techniques, Base Composition, Cold Temperature, DNA, Bacterial/genetics, Fatty Acids/analysis, *Flavobacterium/classification/genetics/isolation & purification, Ice Cover/microbiology, Phosphatidylethanolamines/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil, Soil Microbiology, Vitamin K 2/analysisTranscriptome
Phylogeny31584868Flavobacterium macacae sp. nov., isolated from Macaca mulatta faeces.Li GD, Jiang Y, Li YL, Chen X, Zhang K, Shen R, Han L, Huang XS, Jiang CLInt J Syst Evol Microbiol10.1099/ijsem.0.0037082020Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/microbiology, Flavobacterium/*classification/isolation & purification, Macaca mulatta/*microbiology, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

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
30833Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172716328776041
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/
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