Strain identifier

BacDive ID: 140627

Type strain: Yes

Species: Marinobacterium zhoushanense

Strain Designation: WM3

NCBI tax ID(s): 1679163 (species)

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General

@ref: 43152

BacDive-ID: 140627

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-negative, motile, rod-shaped, colony-forming

description: Marinobacterium zhoushanense WM3 is a facultative anaerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from surface seawater.

NCBI tax id

  • NCBI tax id: 1679163
  • Matching level: species

doi: 10.13145/bacdive140627.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacterium
  • species: Marinobacterium zhoushanense
  • full scientific name: Marinobacterium zhoushanense Han et al. 2016

@ref: 43152

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacterium

species: Marinobacterium zhoushanense

strain designation: WM3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43152negative1.0-2.0 µm0.4-0.6 µmrod-shapedyes
69480yes97.961
69480negative99.995

colony morphology

  • @ref: 43152
  • colony size: 0.5-1.0 mm
  • colony color: cream
  • colony shape: circular
  • incubation period: 1 day
  • medium used: MA

Culture and growth conditions

culture medium

  • @ref: 43152
  • name: Marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43152positiveoptimum37-40
43152nogrowth45thermophilic
43152nogrowth4psychrophilic
43152positivegrowth15-43

culture pH

@refabilitytypepHPH range
43152positivegrowth5.5-9.5alkaliphile
43152positiveoptimum6.5-7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 43152
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.992

halophily

@refsaltgrowthtested relationconcentration
43152NaClpositivegrowth0.25-9.0 %(w/v)
43152NaClpositiveoptimum1.0-1.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4315217234glucose+fermentation
4315218186tyrosine+hydrolysis
431524853esculin-hydrolysis
43152casein-hydrolysis
431525291gelatin-hydrolysis
4315228017starch-hydrolysis
4315285146carboxymethylcellulose-hydrolysis
4315222599arabinose+builds acid from
4315228757fructose+builds acid from
4315217634D-glucose+builds acid from
4315216024D-mannose+builds acid from
4315230849L-arabinose+carbon source
4315218333D-arabitol+carbon source
4315215824D-fructose+carbon source
4315212936D-galactose+carbon source
4315217925alpha-D-glucose+carbon source
4315217306maltose+carbon source
4315216899D-mannitol+carbon source
4315217992sucrose+carbon source
4315227082trehalose+carbon source
4315232528turanose+carbon source
4315215740formate+carbon source
4315218024D-galacturonic acid+carbon source
431528391D-gluconate+carbon source
4315215748D-glucuronate+carbon source
431528295beta-hydroxybutyrate+carbon source
43152181014-hydroxyphenylacetic acid+carbon source
43152309162-oxoglutarate+carbon source
4315224996lactate+carbon source
4315215792malonate+carbon source
4315217272propionate+carbon source
4315226490quinate+carbon source
4315230031succinate+carbon source
4315221217L-alaninamide+carbon source
4315216977L-alanine+carbon source
4315215570D-alanine+carbon source
4315229985L-glutamate+carbon source
4315215729L-ornithine+carbon source
4315217295L-phenylalanine+carbon source
4315217203L-proline+carbon source
4315218183L-pyroglutamic acid+carbon source
4315216865gamma-aminobutyric acid+carbon source
4315250048phenylethylamine+carbon source
4315217148putrescine+carbon source
4315217754glycerol+carbon source
4315228087glycogen+/-carbon source
4315253423tween 40+/-carbon source
4315253426tween 80+/-carbon source
4315251850methyl pyruvate+/-carbon source
4315230089acetate+/-carbon source
4315216383cis-aconitate+/-carbon source
4315216947citrate+/-carbon source
43152167244-hydroxybutyrate+/-carbon source
4315233801D-saccharate+/-carbon source
4315273706bromosuccinate+/-carbon source
4315273786L-alanylglycine+/-carbon source
4315217196L-asparagine+/-carbon source
4315229991L-aspartate+/-carbon source
4315217632nitrate+reduction
4315216301nitrite-reduction
4315275146monomethyl succinate-carbon source
4315216199urea-hydrolysis

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
431522637amikacinyesyes30 µg (disc)
4315228971ampicillinyesyes10 µg (disc)
4315228669bacitracinyesyes0.04 Unit
431523393carbenicillinyesyes100 µg (disc)
43152474053cefazolinyesyes30 µg (disc)
431523547cephradineyesyes30 µg (disc)
4315229007ceftriaxoneyesyes30 µg (disc)
4315217698chloramphenicolyesyes30 µg (disc)
4315248923erythromycinyesyes15 µg (disc)
4315217833gentamicinyesyes10 µg (disc)
431526104kanamycinyesyes30 µg (disc)
431526472lincomycinyesyes2 µg (disc)
43152100147nalidixic acidyesyes30 µg (disc)
431527507neomycinyesyes30 µg (disc)
4315271415nitrofurantoinyesyes300 µg (disc)
431528309polymyxin byesyes300 Unit
4315228077rifampicinyesyes5 µg (disc)
4315217076streptomycinyesyes10 µg (disc)
4315227902tetracyclineyesyes30 µg (disc)
4315228001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4315253388polyhydroxybutyrateyes
4315215688acetoinno
4315235581indoleno
4315216136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
4315217234glucose+
4315215688acetoin-

enzymes

@refvalueactivityec
43152catalase+1.11.1.6
43152cytochrome oxidase+1.9.3.1
43152alkaline phosphatase+3.1.3.1
43152acid phosphatase+3.1.3.2
43152esterase (C 4)+
43152leucine arylamidase+3.4.11.1
43152alpha-glucosidase+3.2.1.20
43152esterase Lipase (C 8)+/-
43152naphthol-AS-BI-phosphohydrolase+/-
43152valine arylamidase-
43152beta-glucosidase-3.2.1.21

Isolation, sampling and environmental information

isolation

  • @ref: 43152
  • sample type: surface seawater
  • sampling date: 2014-04
  • geographic location: Zhoushan Islands, East China Sea
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 30
  • longitude: 122

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7602.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_240;96_3541;97_4348;98_5565;99_7602&stattab=map
  • Last taxonomy: Marinobacterium zhoushanense subclade
  • 16S sequence: KT248536
  • Sequence Identity:
  • Total samples: 1689
  • soil counts: 245
  • aquatic counts: 1084
  • animal counts: 304
  • plant counts: 56

Sequence information

16S sequences

  • @ref: 43152
  • description: 16S rRNA gene sequences
  • accession: KT248536
  • length: 1486
  • database: ena
  • NCBI tax ID: 1679163

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacterium zhoushanense CGMCC 1.15341GCA_014641945scaffoldncbi1679163
66792Marinobacterium zhoushanense strain CGMCC 1.153411679163.3wgspatric1679163

GC content

  • @ref: 43152
  • GC-content: 55.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes89.633no
gram-positiveno99.166yes
anaerobicno98.613no
aerobicno52.368yes
halophileyes66.033yes
spore-formingno95.893no
glucose-utilyes92.78yes
thermophileno98.908no
motileyes93.41yes
glucose-fermentno74.065yes

External links

@ref: 43152

culture collection no.: CGMCC 1.15341, KCTC 42782

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27265099Marinobacterium zhoushanense sp. nov., isolated from surface seawater.Han SB, Wang RJ, Yu XY, Su Y, Sun C, Fu GY, Zhang CY, Zhu XF, Wu MInt J Syst Evol Microbiol10.1099/ijsem.0.0012132016Alteromonadaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny30566074Marinobacterium boryeongense sp. nov., isolated from seawater.Kang JY, Kim MJ, Chun J, Son KP, Jahng KYInt J Syst Evol Microbiol10.1099/ijsem.0.0031842018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Oceanospirillaceae/*classification/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

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
43152Shuai-Bo Han, Rui-Jun Wang, Xiao-Yun Yu, Yue Su, Cong Sun, Ge-Yi Fu, Chong-Ya Zhang, Xu-Fen Zhu and Min WuMarinobacterium zhoushanense sp. nov., isolated from surface seawater10.1099/ijsem.0.001213IJSEM 66: 3437-3442 201627265099
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
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