Strain identifier

BacDive ID: 488

Type strain: Yes

Species: Marinobacter gudaonensis

Strain Designation: SLO14B-61A

Strain history: CIP <- 2007, DSMZ <- X.L. Wu, Tsinghua Univ., Beijing, China: strain SLO14B-61A

NCBI tax ID(s): 375760 (species)

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General

@ref: 7359

BacDive-ID: 488

DSM-Number: 18066

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

description: Marinobacter gudaonensis SLO14B-61A is a mesophilic, Gram-negative, motile bacterium that was isolated from from oil-polluted soil in Gudao Oil Product.

NCBI tax id

  • NCBI tax id: 375760
  • Matching level: species

strain history

@refhistory
7359<- X.-L. Wu; SLO14B-61A <- H. Cai
119751CIP <- 2007, DSMZ <- X.L. Wu, Tsinghua Univ., Beijing, China: strain SLO14B-61A

doi: 10.13145/bacdive488.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacter
  • species: Marinobacter gudaonensis
  • full scientific name: Marinobacter gudaonensis Gu et al. 2007

@ref: 7359

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacter

species: Marinobacter gudaonensis

full scientific name: Marinobacter gudaonensis Gu et al. 2007

strain designation: SLO14B-61A

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31849negative1.5 µm0.4 µmrod-shapedyes
69480yes94.122
69480negative99.994
119751negativerod-shapedyes

pigmentation

  • @ref: 31849
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7359BACTO 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
37277Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119751CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
7359positivegrowth30mesophilic
31849positivegrowth10-45
31849positiveoptimum27.5mesophilic
37277positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
31849positivegrowth6-9.5alkaliphile
31849positiveoptimum7.75

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no100

halophily

@refsaltgrowthtested relationconcentration
31849NaClpositivegrowth0-15 %
31849NaClpositiveoptimum2.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3184930089acetate+carbon source
3184916449alanine+carbon source
3184917057cellobiose+carbon source
3184916947citrate+carbon source
3184923652dextrin+carbon source
3184916236ethanol+carbon source
3184928757fructose+carbon source
3184928260galactose+carbon source
3184917234glucose+carbon source
3184917754glycerol+carbon source
3184917306maltose+carbon source
3184926271proline+carbon source
3184917272propionate+carbon source
3184915361pyruvate+carbon source
3184930911sorbitol+carbon source
3184930031succinate+carbon source
3184917992sucrose+carbon source
3184927082trehalose+carbon source
3184953426tween 80+carbon source
3184918222xylose+carbon source
3184917632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
11975117632nitrate+reduction
11975116301nitrite-reduction

metabolite production

  • @ref: 119751
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31849catalase+1.11.1.6
31849cytochrome oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)+
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
119751oxidase+
119751catalase+1.11.1.6
119751urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119751-++++++---++---+-+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119751+/----------+/-+/----------------+/---+/-+/-----+/-------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7359from oil-polluted soil in Gudao Oil ProductShangdong, Shengli OilfieldChinaCHNAsia
119751Environment, Soil, oil-pollutedGudaoChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination#Oil (Fuel)
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_52759.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_89;96_1317;97_5482;98_12249;99_52759&stattab=map
  • Last taxonomy: Marinobacter gudaonensis subclade
  • 16S sequence: DQ414419
  • Sequence Identity:
  • Total samples: 503
  • soil counts: 36
  • aquatic counts: 435
  • animal counts: 20
  • plant counts: 12

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
73591Risk group (German classification)
1197511Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7359
  • description: Marinobacter gudaonensis strain SL014B61A 16S ribosomal RNA gene, partial sequence
  • accession: DQ414419
  • length: 1501
  • database: ena
  • NCBI tax ID: 375760

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacter gudaonensis CGMCC 1.6294GCA_900115175scaffoldncbi375760
66792Marinobacter gudaonensis strain CGMCC 1.6294375760.4wgspatric375760
66792Marinobacter gudaonensis CGMCC 1.62942617270919draftimg375760

GC content

@refGC-contentmethod
735957.9thermal denaturation, midpoint method (Tm)
3184957.9

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.08yes
flagellatedyes88.064no
gram-positiveno98.808yes
anaerobicno97.083no
aerobicyes83.344no
halophileyes90.047no
spore-formingno95.922no
glucose-fermentno88.115no
thermophileno98.712no
glucose-utilyes52.493yes

External links

@ref: 7359

culture collection no.: DSM 18066, CGMCC 1.6294, CIP 109534, LMG 23509

straininfo link

  • @ref: 70167
  • straininfo: 290412

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17267959Marinobacter gudaonensis sp. nov., isolated from an oil-polluted saline soil in a Chinese oilfield.Gu J, Cai H, Yu SL, Qu R, Yin B, Guo YF, Zhao JY, Wu XLInt J Syst Evol Microbiol10.1099/ijs.0.64522-02007Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Environmental Pollution, Fatty Acids/analysis/chemistry, Genes, rRNA, Marinobacter/*classification/cytology/*isolation & purification/physiology, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, *Petroleum, Phylogeny, Quinones/analysis/chemistry, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Soil Pollutants/*analysisGenetics
Phylogeny19060077Marinobacter mobilis sp. nov. and Marinobacter zhejiangensis sp. nov., halophilic bacteria isolated from the East China Sea.Huo YY, Wang CS, Yang JY, Wu M, Xu XWInt J Syst Evol Microbiol10.1099/ijs.0.2008/000786-02008China, Geologic Sediments/*microbiology, Marinobacter/*classification/genetics/*physiology, Molecular Sequence Data, Oceans and Seas, Phylogeny, RNA, Ribosomal, 16S/genetics, Species SpecificityGenetics
Phylogeny19542119Marinobacter lacisalsi sp. nov., a moderately halophilic bacterium isolated from the saline-wetland wildfowl reserve Fuente de Piedra in southern Spain.Aguilera M, Jimenez-Pranteda ML, Kharroub K, Gonzalez-Paredes A, Durban JJ, Russell NJ, Ramos-Cormenzana A, Monteoliva-Sanchez MInt J Syst Evol Microbiol10.1099/ijs.0.007518-02009Bacterial Typing Techniques, Base Composition, *Conservation of Natural Resources, DNA, Bacterial/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Genotype, Marinobacter/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride, Spain, Species Specificity, *WetlandsGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7359Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18066)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18066
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
31849Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2811328776041
37277Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7288
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)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
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
70167Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID290412.1StrainInfo: A central database for resolving microbial strain identifiers
119751Curators of the CIPCollection of Institut Pasteur (CIP 109534)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109534