Strain identifier

BacDive ID: 5651

Type strain: Yes

Species: Tenacibaculum maritimum

Strain Designation: R-2, R2

Strain history: CIP <- 1993, NCIMB <- H. Wakabayashi, Tokyo Univ., Tokyo, Japan: strain R2

NCBI tax ID(s): 1349785 (strain), 107401 (species)

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General

@ref: 7325

BacDive-ID: 5651

DSM-Number: 17995

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, motile, rod-shaped, animal pathogen

description: Tenacibaculum maritimum R-2 is an obligate aerobe, mesophilic, Gram-negative animal pathogen that was isolated from diseased red sea bream .

NCBI tax id

NCBI tax idMatching level
1349785strain
107401species

strain history

@refhistory
7325<- NBRC <- IFO <- IAM <- NCIMB <- H. Wakabayashi; R-2
120835CIP <- 1993, NCIMB <- H. Wakabayashi, Tokyo Univ., Tokyo, Japan: strain R2

doi: 10.13145/bacdive5651.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Tenacibaculum
  • species: Tenacibaculum maritimum
  • full scientific name: Tenacibaculum maritimum (Wakabayashi et al. 1986) Suzuki et al. 2001

  • synonyms

    @refsynonym
    20215Cytophaga marina
    20215Flexibacter maritimus

@ref: 7325

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Tenacibaculum

species: Tenacibaculum maritimum

full scientific name: Tenacibaculum maritimum (Wakabayashi et al. 1986) Suzuki et al. 2001

strain designation: R-2, R2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
43375negative1.5-30 µm0.4-0.5 µmrod-shapedyesgliding
120835negativerod-shapedno
125439negative97
125438no93.512
125438negative98

colony morphology

@refcolony sizecolony colorincubation period
433755 mmyellow5 days
525862 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7325BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: 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
41729MEDIUM 35 - for Flexibacter maritimusyesDistilled water make up to (300.000 ml);Agar (10.000 g);Yeast extract (0.500 g);Sodium acetate (0.200 g);Tryptone (0.500 g);Beef extract (0.200 g);Synthetic sea solution - M0216 (700.000 ml)
120835CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13
120835CIP Medium 35yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=35

culture temp

@refgrowthtypetemperature
7325positivegrowth30
41729positivegrowth20
43375positivegrowth15-34
52586positivegrowth25-30
120835positivegrowth10-30
120835nogrowth5
120835nogrowth37

culture pH

  • @ref: 43375
  • ability: positive
  • type: growth
  • pH: 5.9-8.6
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43375obligate aerobe
52586aerobe

spore formation

@refspore formationconfidence
125439no95.4
125438no90.4

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43375309162-oxoglutarate-growth
4337530089acetate-growth
433752509agar-degradation
4337516150benzoate-growth
43375casamino acids+growth
43375casein+degradation
4337562968cellulose-degradation
4337516947citrate-growth
4337525115malate-growth
4337516991dna+degradation
433754853esculin-degradation
4337516236ethanol-growth
4337529806fumarate-growth
433755291gelatin-degradation
4337517754glycerol-growth
4337515603L-leucine-growth
4337530924L-tartrate-growth
4337517790methanol-growth
4337517632nitrate+reduction
4337517272propionate-growth
4337515361pyruvate-growth
4337528017starch-degradation
4337530031succinate-growth
43375tryptone+growth
4337553426tween 80+degradation
4337518186tyrosine+degradation
12083517632nitrate-reduction
12083516301nitrite+reduction
120835132112sodium thiosulfate-builds gas from

metabolite production

  • @ref: 120835
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43375cytochrome oxidase+1.9.3.1
43375catalase+1.11.1.6
120835oxidase+
120835gelatinase+
120835DNase+
120835caseinase+3.4.21.50
120835catalase+1.11.1.6
120835lecithinase+
120835urease-3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationisolation date
7325diseased red sea bream (Pagrus major)JapanJPNAsia
52586Kidney of diseased sea breamJapanJPNAsiaHiroshima
120835Animal, Diseased red sea bream, kidneyJapanJPNAsiaHiroshima1977

isolation source categories

  • Cat1: #Host
  • Cat2: #Fishes

taxonmaps

  • @ref: 69479
  • File name: preview.99_1840.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_214;96_1040;97_1214;98_1455;99_1840&stattab=map
  • Last taxonomy: Tenacibaculum maritimum subclade
  • 16S sequence: AB681004
  • Sequence Identity:
  • Total samples: 3022
  • soil counts: 241
  • aquatic counts: 2026
  • animal counts: 748
  • plant counts: 7

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
7325yes1Risk group (German classification)
1208351Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Tenacibaculum maritimum gene for 16S rRNA, partial sequence, strain: NBRC 15946AB6810041445nuccore107401
20218Flexibacter maritimus 16S ribosomal RNAD140231283nuccore107401
20218Tenacibaculum maritimum small subunit ribosomal RNA gene, partial sequenceM646291468nuccore107401
7325Tenacibaculum maritimum gene for 16S rRNA, strain:IFO 15946AB0780571475nuccore1349785

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tenacibaculum maritimum NCIMB 2154 NCIMB 2154TGCA_900119795completencbi1349785
66792Tenacibaculum maritimum NCIMB 2154 NBRC 15946GCA_000509405contigncbi1349785
66792Tenacibaculum maritimum NBRC 159461349785.3wgspatric1349785
66792Tenacibaculum maritimum NCIMB 21542802429273completeimg1349785
66792Tenacibaculum maritimum NCIMB 21542568526045draftimg1349785

GC content

  • @ref: 43375
  • GC-content: 31.6

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno98no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.164yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes85.281no
125438spore-formingspore-formingAbility to form endo- or exosporesno90.4no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno95.167yes
125438motile2+flagellatedAbility to perform flagellated movementno93.512yes
125439BacteriaNetspore_formationAbility to form endo- or exosporesno95.4
125439BacteriaNetmotilityAbility to perform movementyes53.8
125439BacteriaNetgram_stainReaction to gram-stainingnegative97
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthaerobe67.1

External links

@ref: 7325

culture collection no.: DSM 17995, ATCC 43398, IAM 14317, IFO 15946, NBRC 15946, NCIMB 2154, CCUG 35198, LMG 11612, CIP 103528, JCM 21157

straininfo link

  • @ref: 75134
  • straininfo: 92565

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism20377642Acylhomoserine lactone production and degradation by the fish pathogen Tenacibaculum maritimum, a member of the Cytophaga-Flavobacterium-Bacteroides (CFB) group.Romero M, Avendano-Herrera R, Magarinos B, Camara M, Otero AFEMS Microbiol Lett10.1111/j.1574-6968.2009.01889.x2010Acyl-Butyrolactones/*metabolism, Amidohydrolases/metabolism, Bacterial Proteins/metabolism, Biosensing Techniques, Culture Media/chemistry, Flavobacteriaceae/enzymology/*metabolismBiotechnology
Phylogeny26960291Spongiiferula fulva gen. nov., sp. nov., a Bacterium of the Family Flavobacteriaceae Isolated from a Marine Sponge.Yoon J, Adachi K, Kasai HCurr Microbiol10.1007/s00284-016-1022-z2016Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Flavobacteriaceae/classification/genetics/*isolation & purification/metabolism, Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/microbiologyMetabolism
Genetics28744871Genotyping of Tenacibaculum maritimum isolates from farmed Atlantic salmon in Western Canada.Frisch K, Smage SB, Brevik OJ, Duesund H, Nylund AJ Fish Dis10.1111/jfd.126872017Animals, Aquaculture, Canada, Fish Diseases/*microbiology, Flavobacteriaceae Infections/*veterinary, *Genotype, Phylogeny, Salmo salar/*microbiology, Stomatitis/microbiology/veterinary, Tenacibaculum/*geneticsPhylogeny
Genetics28861057The Complete Genome Sequence of the Fish Pathogen Tenacibaculum maritimum Provides Insights into Virulence Mechanisms.Perez-Pascual D, Lunazzi A, Magdelenat G, Rouy Z, Roulet A, Lopez-Roques C, Larocque R, Barbeyron T, Gobet A, Michel G, Bernardet JF, Duchaud EFront Microbiol10.3389/fmicb.2017.015422017
Enzymology33962693Dual RNAseq highlights the kinetics of skin microbiome and fish host responsiveness to bacterial infection.Le Luyer J, Schull Q, Auffret P, Lopez P, Crusot M, Belliard C, Basset C, Carradec Q, Poulain J, Planes S, Saulnier DAnim Microbiome10.1186/s42523-021-00097-12021Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7325Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17995)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17995
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
41729Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15336
43375Makoto Suzuki, Yasuyoshi Nakagawa, Shigeaki Harayama, Satoshi Yamamoto10.1099/00207713-51-5-1639Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria : proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov.IJSEM 51: 1639-1652 200111594591
52586Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 35198)https://www.ccug.se/strain?id=35198
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
75134Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92565.1StrainInfo: A central database for resolving microbial strain identifiers
120835Curators of the CIPCollection of Institut Pasteur (CIP 103528)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103528
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1