Strain identifier

BacDive ID: 5744

Type strain: Yes

Species: Flagellimonas flava

Strain Designation: A11

Strain history: <- B.-J. Yoon, Jeju National Univ., Rep. of Korea; A11T

NCBI tax ID(s): 570519 (species)

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General

@ref: 16443

BacDive-ID: 5744

DSM-Number: 22638

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

description: Flagellimonas flava A11 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from marine sponge Halichondria oshoro.

NCBI tax id

  • NCBI tax id: 570519
  • Matching level: species

strain history

  • @ref: 16443
  • history: <- B.-J. Yoon, Jeju National Univ., Rep. of Korea; A11T

doi: 10.13145/bacdive5744.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flagellimonas
  • species: Flagellimonas flava
  • full scientific name: Flagellimonas flava (Yoon and Oh 2012) Choi et al. 2018

  • synonyms

    @refsynonym
    20215Allomuricauda flava
    20215Spongiibacterium flavum
    20215Muricauda flava

@ref: 16443

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Muricauda

species: Muricauda flava

full scientific name: Muricauda flava (Yoon and Oh 2012) García-López et al. 2020

strain designation: A11

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29944negative2.25 µm0.4 µmrod-shapedno
69480negative99.978

pigmentation

  • @ref: 29944
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 16443
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16443positivegrowth28mesophilic
29944positivegrowth20-35
29944positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
29944positivegrowth06-10alkaliphile
29944positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 29944
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no99
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
29944NaClpositivegrowth1-6 %
29944NaClpositiveoptimum2.50 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2994417234glucose+carbon source
2994425115malate+carbon source
2994429864mannitol+carbon source
2994437684mannose+carbon source
29944506227N-acetylglucosamine+carbon source
299444853esculin+hydrolysis

enzymes

@refvalueactivityec
29944alkaline phosphatase+3.1.3.1
29944alpha-galactosidase+3.2.1.22
29944catalase+1.11.1.6
29944cytochrome oxidase+1.9.3.1
29944urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 16443
  • sample type: marine sponge Halichondria oshoro
  • host species: Halichondria oshoro
  • geographic location: Jeju Island, coastal area (33° 29.41' N 126° 25.48' E)
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia
  • latitude: 33.4902
  • longitude: 126.425

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Porifera (Sponges)

Safety information

risk assessment

  • @ref: 16443
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16443
  • description: Spongiibacterium flavum strain A11 16S ribosomal RNA gene, partial sequence
  • accession: FJ348473
  • length: 1382
  • database: ena
  • NCBI tax ID: 570519

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Allomuricauda flava DSM 22638GCA_900129665contigncbi570519
66792Spongiibacterium flavum strain DSM 22638570519.5wgspatric570519
66792Flagellimonas flava DSM 226382617270824draftimg570519

GC content

@refGC-contentmethod
1644341.7thermal denaturation, midpoint method (Tm)
2994441.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
gram-positiveno98.104yes
anaerobicno99.23no
halophileno73.959no
spore-formingno96.476no
glucose-utilyes88.434yes
thermophileno98.138yes
flagellatedno96.089yes
motileno88.732yes
aerobicyes86.636yes
glucose-fermentno89.273no

External links

@ref: 16443

culture collection no.: DSM 22638, KCTC 22665

straininfo link

  • @ref: 75223
  • straininfo: 398834

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21724954Spongiibacterium flavum gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from the marine sponge Halichondria oshoro, and emended descriptions of the genera Croceitalea and Flagellimonas.Yoon BJ, Oh DCInt J Syst Evol Microbiol10.1099/ijs.0.027243-02011Aerobiosis, Animals, Aquatic Organisms/microbiology, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Oxidoreductases/metabolism, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, Porifera/*microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNAMetabolism
Phylogeny30113301Flagellimonas aquimarina sp. nov., and transfer of Spongiibacterium flavum Yoon and Oh 2012 and S. pacificum Gao et al. 2015 to the genus Flagellimonas Bae et al. 2007 as Flagellimonas flava comb. nov. and F. pacifica comb. nov., respectively.Choi S, Lee JH, Kang JW, Choe HN, Seong CNInt J Syst Evol Microbiol10.1099/ijsem.0.0029752018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Phaeophyta/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seaweed/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31776653Flagellimonas algicola sp. nov., Isolated from a Marine Red Alga, Asparagopsis taxiformis.Kim J, Kim KH, Chun BH, Khan SA, Jeon COCurr Microbiol10.1007/s00284-019-01821-62019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/chemistry/*classification/*genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodophyta/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny34516364Muricauda onchidii sp. nov., isolated from a marine invertebrate from South China Sea, and transfers of Flagellimonas algicola, Flagellimonas pacifica and Flagellimonas maritima to Muricauda algicola comb. nov., Muricauda parva nom. nov. and Muricauda aurantiaca nom. nov., respectively, and emended description of the genus Muricauda.Liang J, Yin Q, Zheng X, Wang Y, Song ZM, Zhang Y, Hao L, Xu YInt J Syst Evol Microbiol10.1099/ijsem.0.0049822021Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, *Gastropoda/microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16443Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22638)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22638
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29944Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2631328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75223Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID398834.1StrainInfo: A central database for resolving microbial strain identifiers