Strain identifier

BacDive ID: 133294

Type strain: Yes

Species: Idiomarina tyrosinivorans

Strain Designation: CC-PW-9

Strain history: C.-C. Young; Natl. Chung Hsing Univ., Taiwan; CC-PW-9.

NCBI tax ID(s): 1445662 (species)

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General

@ref: 25071

BacDive-ID: 133294

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-negative, motile, vibrio-shaped, colony-forming

description: Idiomarina tyrosinivorans CC-PW-9 is an obligate aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from surface seawater collected at an estuary.

NCBI tax id

  • NCBI tax id: 1445662
  • Matching level: species

strain history

  • @ref: 67770
  • history: C.-C. Young; Natl. Chung Hsing Univ., Taiwan; CC-PW-9.

doi: 10.13145/bacdive133294.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Idiomarinaceae
  • genus: Idiomarina
  • species: Idiomarina tyrosinivorans
  • full scientific name: Idiomarina tyrosinivorans Hameed et al. 2016

@ref: 25071

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Idiomarinaceae

genus: Idiomarina

species: Idiomarina tyrosinivorans

strain designation: CC-PW-9

type strain: yes

Morphology

cell morphology

  • @ref: 25071
  • gram stain: negative
  • cell length: 1.0-2.4 µm
  • cell width: 0.3-0.4 µm
  • cell shape: vibrio-shaped
  • motility: yes
  • flagellum arrangement: monotrichous, polar

colony morphology

  • @ref: 25071
  • colony size: 0.5-1.5 mm
  • colony color: beige
  • colony shape: circular
  • incubation period: 2 days
  • medium used: MA (marine agar)

Culture and growth conditions

culture medium

  • @ref: 25071
  • name: Marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
25071positivegrowth20.0-40.0
25071positiveoptimum37mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
25071positivegrowth6.0-9.0alkaliphile
25071positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 25071
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 25071
  • spore formation: no

halophily

@refsalttested relationconcentrationgrowth
25071NaCloptimum8.0-10.0 %
25071NaClgrowth6.0-12.0 %(w/v)positive

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2507117521(-)-quinic acid-oxidation
25071645522-hydroxybutyrate-oxidation
25071620642,3-butanediol-oxidation
25071370543-hydroxybutyrate-oxidation
25071182404-hydroxy-L-proline-oxidation
25071167244-hydroxybutyrate-oxidation
25071181014-hydroxyphenylacetic acid-oxidation
250713557154-nitrophenyl beta-D-galactopyranoside-hydrolysis
2507130089acetate-oxidation
2507115963ribitol-oxidation
2507117925alpha-D-glucose-oxidation
2507136219alpha-lactose-oxidation
2507173706bromosuccinate-oxidation
2507185146carboxymethylcellulose-hydrolysis
2507117126carnitine-oxidation
2507117029chitin-hydrolysis
2507116383cis-aconitate-oxidation
2507115570D-alanine-oxidation
2507118333D-arabitol-oxidation
2507117057cellobiose-oxidation
2507115824D-fructose-oxidation
2507115895D-galactonic acid lactone-oxidation
2507112936D-galactose-oxidation
2507118024D-galacturonic acid-oxidation
2507130612D-glucarate-oxidation
250718391D-gluconate-oxidation
2507117784D-glucosaminic acid-oxidation
2507114314D-glucose 6-phosphate-oxidation
2507115748D-glucuronate-oxidation
2507116899D-mannitol-oxidation
2507116024D-mannose-oxidation
2507116523D-serine-oxidation
2507117924D-sorbitol-oxidation
2507123652dextrin-oxidation
25071egg yolk-hydrolysis
2507117113erythritol-oxidation
250714853esculin-hydrolysis
2507116000ethanolamine-oxidation
2507115740formate-oxidation
2507116865gamma-aminobutyric acid-oxidation
2507128066gentiobiose-oxidation
2507117234glucose-fermentation
2507129042glucose 1-phosphate-oxidation
2507132323glucuronamide-oxidation
2507117754glycerol-oxidation
2507114336glycerol 1-phosphate-oxidation
2507117596inosine-oxidation
2507117268myo-inositol-oxidation
2507117240itaconate-oxidation
2507130849L-arabinose-oxidation
2507118287L-fucose-oxidation
2507115971L-histidine-oxidation
2507115729L-ornithine-oxidation
2507117295L-phenylalanine-oxidation
2507118183L-pyroglutamic acid-oxidation
2507162345L-rhamnose-oxidation
2507116857L-threonine-oxidation
2507124996lactate-oxidation
2507115792malonate-oxidation
2507117306maltose-oxidation
2507128053melibiose-oxidation
25071320055methyl beta-D-glucopyranoside-oxidation
2507175146monomethyl succinate-oxidation
2507128037N-acetylgalactosamine-oxidation
25071506227N-acetylglucosamine-oxidation
2507173784glycyl-l-glutamate-oxidation
2507117632nitrate-reduction
2507150048phenylethylamine-oxidation
2507117272propionate-oxidation
2507117148putrescine-oxidation
2507116634raffinose-oxidation
2507141865sebacic acid-oxidation
2507128017starch-hydrolysis
25071143136succinamate-oxidation
2507130031succinate-oxidation
2507117992sucrose-oxidation
2507117748thymidine-oxidation
2507127082trehalose-oxidation
2507127897tryptophan-energy source
2507116704uridine-oxidation
2507127248urocanic acid-oxidation
2507137166xylan-hydrolysis
2507117151xylitol-oxidation
25071167632-oxobutanoate+oxidation
25071309162-oxoglutarate+oxidation
25071286442-oxopentanoate+oxidation
2507117128adipate+assimilation
2507140585alpha-cyclodextrin+oxidation
25071casein+hydrolysis
2507116947citrate+oxidation
2507117634D-glucose+assimilation
2507116899D-mannitol+assimilation
2507116024D-mannose+assimilation
2507127605D-psicose+oxidation
2507127689decanoate+assimilation
250715291gelatin+hydrolysis
2507128087glycogen+oxidation
2507173804glycyl L-aspartic acid+oxidation
2507121217L-alaninamide+oxidation
2507116977L-alanine+oxidation
2507173786L-alanylglycine+oxidation
2507130849L-arabinose+assimilation
2507117196L-asparagine+oxidation
2507129991L-aspartate+oxidation
2507129985L-glutamate+oxidation
2507115603L-leucine+oxidation
2507117203L-proline+oxidation
2507117115L-serine+oxidation
2507117895L-tyrosine+hydrolysis
250716359lactulose+oxidation
2507125115malate+assimilation
2507117306maltose+assimilation
2507151850methyl pyruvate+oxidation
25071506227N-acetylglucosamine+assimilation
2507118401phenylacetate+assimilation
2507132032potassium gluconate+assimilation
2507153258sodium citrate+assimilation
2507132528turanose+oxidation
2507153424tween 20+hydrolysis
2507153423tween 40+oxidation
2507153426tween 80+hydrolysis
2507153426tween 80+oxidation
2507116199urea+hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivegroup IDis resistant
250719587ticarcillinyesyes
250719587ticarcillinyesyes18
2507148947clavulanic acidyesyes18
250718232piperacillinyesyes
250718232piperacillinyesyes16
250719421tazobactamyesyes16
25071478164cefepimeyesyes
25071471744imipenemyesyes
2507143968meropenemyesyes
250713508ceftazidimeyesyes
25071100241ciprofloxacinyesyes
250712637amikacinyesyes
2507117833gentamicinyesyes
2507128864tobramycinyesyes
2507137943colistinyesyes
250713770co-trimoxazoleyesyes
2507128971ampicillinyesyes20
250719321sulbactamyesyes20
250719587ticarcillinyesyes24
250718653pyocyaninyesyes24
250719587ticarcillinyesyes23
2507148947clavulanic acidyesyes23
250718653pyocyaninyesyes23
250718232piperacillinyesyes21
250718653pyocyaninyesyes21
250718232piperacillinyesyes22
250719421tazobactamyesyes22
250718653pyocyaninyesyes22

metabolite production

  • @ref: 25071
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 25071
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
25071acid phosphatase+3.1.3.2
25071alkaline phosphatase+3.1.3.1
25071alpha-chymotrypsin+3.4.21.1
25071alpha-fucosidase-3.2.1.51
25071alpha-galactosidase-3.2.1.22
25071alpha-glucosidase-3.2.1.20
25071alpha-mannosidase-3.2.1.24
25071arginine dihydrolase-3.5.3.6
25071beta-galactosidase-3.2.1.23
25071beta-glucosidase-3.2.1.21
25071beta-glucuronidase-3.2.1.31
25071catalase+1.11.1.6
25071cystine arylamidase+3.4.11.3
25071cytochrome oxidase+1.9.3.1
25071esterase (C 4)+
25071esterase Lipase (C 8)+
25071leucine arylamidase+3.4.11.1
25071lipase (C 14)-
25071N-acetyl-beta-glucosaminidase-3.2.1.52
25071naphthol-AS-BI-phosphohydrolase+
25071trypsin-3.4.21.4
25071tryptophan deaminase-4.1.99.1
25071valine arylamidase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture temperatureisolation procedure
25071surface seawater collected at an estuaryPingtungTaiwanTWNAsia22120.444marine agar 2216 (MA; BD Difco)30standard dilution-to-extinction plating technique
67770Estuarine water at PingtungTaiwanTWNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Estuary
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_18036.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_197;96_9219;97_11086;98_13624;99_18036&stattab=map
  • Last taxonomy: Idiomarina tyrosinivorans subclade
  • 16S sequence: KF732819
  • Sequence Identity:
  • Total samples: 233
  • soil counts: 58
  • aquatic counts: 141
  • animal counts: 27
  • plant counts: 7

Sequence information

16S sequences

  • @ref: 25071
  • description: Idiomarina sp. CC-PW-9 16S ribosomal RNA gene, partial sequence
  • accession: KF732819
  • length: 1508
  • database: nuccore
  • NCBI tax ID: 1445662

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Idiomarina tyrosinivorans CC-PW-92895617523draftimg1445662
67770Idiomarina tyrosinivorans CC-PW-9GCA_003987475contigncbi1445662

GC content

@refGC-contentmethod
2507151.1high performance liquid chromatography (HPLC)
6777049.25genome sequence analysis

External links

@ref: 25071

culture collection no.: JCM 19757, BCRC 80745

literature

  • topic: Phylogeny
  • Pubmed-ID: 27692036
  • title: Idiomarina tyrosinivorans sp. nov., isolated from estuarine surface water.
  • authors: Hameed A, Lin SY, Lai WA, Shahina M, Liu YC, Hsu YH, Young CC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001525
  • year: 2016
  • mesh: Alteromonadaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Estuaries, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
25071A. L. Hameed, S. Y.,Lai, W. A.,Shahina, M.,Liu, Y. C.,Hsu, Y. H.,Young, C. C.Idiomarina tyrosinivorans sp. nov., isolated from estuarine surface water10.1099/ijsem.0.001525IJSEM 66: 5384-5391 201627692036
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/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/