Strain identifier

BacDive ID: 133598

Type strain: Yes

Species: Flavobacterium beibuense

Strain Designation: F44-8

NCBI tax ID(s): 1406840 (strain), 657326 (species)

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General

@ref: 29692

BacDive-ID: 133598

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

description: Flavobacterium beibuense F44-8 is a Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

NCBI tax idMatching level
1406840strain
657326species

doi: 10.13145/bacdive133598.20230509.8.1

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 beibuense
  • full scientific name: Flavobacterium beibuense Fu et al. 2011

@ref: 29692

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium beibuense

strain designation: F44-8

type strain: yes

Morphology

cell morphology

  • @ref: 29692
  • gram stain: negative
  • cell length: 3.1 µm
  • cell width: 1.35 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 29692
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29692positivegrowth04-41
29692positiveoptimum28mesophilic

culture pH

@refabilitytypepH
29692positivegrowth06-08
29692positiveoptimum6.5

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
29692NaClpositivegrowth0-9 %
29692NaClpositiveoptimum3 %

observation

  • @ref: 29692
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2969217057cellobiose+carbon source
2969228757fructose+carbon source
2969228087glycogen+carbon source
2969217306maltose+carbon source
2969237684mannose+carbon source
2969226546rhamnose+carbon source
2969217814salicin+carbon source
2969230911sorbitol+carbon source
2969217992sucrose+carbon source
2969227082trehalose+carbon source
2969217151xylitol+carbon source
296924853esculin+hydrolysis

enzymes

@refvalueactivityec
29692acid phosphatase+3.1.3.2
29692alkaline phosphatase+3.1.3.1
29692alpha-galactosidase+3.2.1.22
29692gelatinase+
29692cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 29692
  • sample type: marine sediment

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_26596.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_66;96_7303;97_8758;98_10736;99_26596&stattab=map
  • Last taxonomy: Flavobacterium beibuense
  • 16S sequence: GQ245972
  • Sequence Identity:
  • Total samples: 215
  • soil counts: 45
  • aquatic counts: 131
  • animal counts: 18
  • plant counts: 21

Sequence information

16S sequences

  • @ref: 29692
  • description: Flavobacterium beibuense F44-8 16S ribosomal RNA gene, partial sequence
  • accession: GQ245972
  • length: 1480
  • database: nuccore
  • NCBI tax ID: 1406840

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Flavobacterium beibuense F44-8GCA_000769915contigncbi1406840
66792Flavobacterium beibuense F44-81406840.3wgspatric1406840
66792Flavobacterium beibuense F44-82630968333draftimg1406840

GC content

  • @ref: 29692
  • GC-content: 38.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno88.443no
gram-positiveno98.757yes
anaerobicno99.432no
halophileno91.813no
spore-formingno96.352no
thermophileno98.527yes
glucose-utilyes83.788no
aerobicyes90.126no
glucose-fermentno91.729no
flagellatedno94.851no

External links

@ref: 29692

culture collection no.: CCTCC AB 209067, LMG 25233, MCCC 1A02877

straininfo link

  • @ref: 91518
  • straininfo: 361231

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20190020Flavobacterium beibuense sp. nov., isolated from marine sediment.Fu Y, Tang X, Lai Q, Zhang C, Zhong H, Li W, Liu Y, Chen L, Sun F, Shao ZInt J Syst Evol Microbiol10.1099/ijs.0.018846-02010Base Composition, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/*isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny22247214Flavobacterium rakeshii sp. nov., isolated from marine sediment, and emended description of Flavobacterium beibuense Fu et al. 2011.Kaur I, Kaur C, Khan F, Mayilraj SInt J Syst Evol Microbiol10.1099/ijs.0.035691-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, India, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/analysis, *Phylogeny, Polyamines/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny23456809Flavobacterium hauense sp. nov., isolated from soil and emended descriptions of Flavobacterium subsaxonicum, Flavobacterium beibuense and Flavobacterium rivuli.Dong K, Xu B, Zhu F, Wang GInt J Syst Evol Microbiol10.1099/ijs.0.048652-02013Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny25362094Flavobacterium suzhouense sp. nov., isolated from farmland river sludge.Zhang H, Cheng MG, Sun B, Guo SH, Song M, Li Q, Huang XInt J Syst Evol Microbiol10.1099/ijs.0.068932-02014*Agriculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Sewage/*microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26868635Flavobacterium suaedae sp. nov., an endophyte isolated from the root of Suaeda corniculata.Sun JQ, Xu L, Liu M, Wang XY, Wu XLInt J Syst Evol Microbiol10.1099/ijsem.0.0009672016Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, China, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryEnzymology
Phylogeny29485392Flavobacterium cyanobacteriorum sp. nov., isolated from cyanobacterial aggregates in a eutrophic lake.Cai H, Zeng Y, Wang Y, Cui H, Jiang HInt J Syst Evol Microbiol10.1099/ijsem.0.0026642018Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Lakes/*microbiology, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, *Water MicrobiologyTranscriptome
Phylogeny32496180Flavobacterium alkalisoli sp. nov., isolated from rhizosphere soil of Suaeda salsa.Xu L, Wang HT, Zhang JX, Zhang H, Wang S, Sun JQInt J Syst Evol Microbiol10.1099/ijsem.0.0042552020Bacterial Typing Techniques, Base Composition, Chenopodiaceae/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, 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
29692Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172607728776041
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/
91518Reimer, 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-ID361231.1