Strain identifier

BacDive ID: 158599

Type strain: Yes

Species: Pseudooceanicola lipolyticus

Strain Designation: 157

NCBI tax ID(s): 2029104 (species)

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General

@ref: 65315

BacDive-ID: 158599

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

description: Pseudooceanicola lipolyticus 157 is a Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from seawater .

NCBI tax id

  • NCBI tax id: 2029104
  • Matching level: species

doi: 10.13145/bacdive158599.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Pseudooceanicola
  • species: Pseudooceanicola lipolyticus
  • full scientific name: Pseudooceanicola lipolyticus Huang et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Aliioceanicola lipolyticus

@ref: 65315

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Pseudooceanicola

species: Pseudooceanicola lipolyticus

strain designation: 157

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
65315negative1.5-2.5 µm0.6-1 µmrod-shapedno
69480negative99.996

colony morphology

  • @ref: 65315
  • colony size: 1 mm
  • colony color: cream
  • colony shape: circular
  • incubation period: 3 days
  • medium used: marine agar 2216

Culture and growth conditions

culture medium

  • @ref: 65315
  • name: Marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
65315positivegrowth15-40
65315positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
65315positivegrowth6-8.5alkaliphile
65315positiveoptimum7

Physiology and metabolism

spore formation

@refspore formationconfidence
65315no
69480no99.999
69481no100

halophily

@refsaltgrowthtested relationconcentration
65315NaClpositivegrowth0.5-10 %(w/v)
65315NaClpositiveoptimum3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6531517128adipate+carbon source
6531527689decanoate-carbon source
6531512936D-galactose-builds acid from
6531517634D-glucose-carbon source
6531516899D-mannitol+builds acid from
6531516899D-mannitol+carbon source
6531516024D-mannose-builds acid from
6531516024D-mannose-carbon source
6531517924D-sorbitol-builds acid from
6531591260disodium malate-carbon source
653154853esculin-carbon source
653154853esculin-hydrolysis
6531516236ethanol-builds acid from
6531516236ethanol-carbon source
653155291gelatin-hydrolysis
6531517234glucose-builds acid from
6531517268myo-inositol-builds acid from
6531524898isoleucine+carbon source
6531516977L-alanine+carbon source
6531530849L-arabinose-carbon source
6531517561L-cysteine+carbon source
6531562345L-rhamnose-builds acid from
6531517266L-sorbose-builds acid from
6531517266L-sorbose-carbon source
6531517716lactose-builds acid from
6531517716lactose-carbon source
6531525115malate+carbon source
6531517306maltose-builds acid from
6531517306maltose-carbon source
653156731melezitose-builds acid from
65315506227N-acetylglucosamine+carbon source
6531517632nitrate-reduction
65315peptone+carbon source
6531518401phenylacetate+carbon source
6531516634raffinose-builds acid from
6531516634raffinose-carbon source
6531515963ribitol-builds acid from
6531532954sodium acetate+carbon source
6531553258sodium citrate+carbon source
6531584997sodium gluconate-carbon source
6531528017starch-hydrolysis
6531517992sucrose-builds acid from
6531517992sucrose-carbon source
6531527082trehalose-builds acid from
6531527082trehalose+carbon source
65315tryptone+carbon source
6531553424tween 20+hydrolysis
6531553423tween 40+hydrolysis
6531553425tween 60+hydrolysis
6531553426tween 80+hydrolysis
6531516199urea+hydrolysis
65315yeast extract+carbon source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6531528077rifampicinyesyes5 µg (disc)
6531528971ampicillinyesyes10 µg (disc)
6531517833gentamicinyesyes10 µg (disc)
6531517334penicillinyesyes10 µg (disc)
6531528864tobramycinyesyes10 µg (disc)
6531517076streptomycinyesyes10 µg (disc)
6531548923erythromycinyesyes15 µg (disc)
653152676amoxicillinyesyes20 µg (disc)
65315209807cefoxitinyesyes30 µg (disc)
6531517698chloramphenicolyesyes30 µg (disc)
653156104kanamycinyesyes30 µg (disc)
6531528368novobiocinyesyes30 µg (disc)
653153393carbenicillinyesyes100 µg (disc)
6531571415nitrofurantoinyesyes300 µg (disc)
653158309polymyxin byesyes300 Unit (disc)
6531528001vancomycinyesyes30 µg (disc)
653157660nystatinyesyes100 µg (disc)
6531528669bacitracinyesyes0.04 Unit (disc)

metabolite production

  • @ref: 65315
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
65315cytochrome oxidase+1.9.3.1
65315catalase+1.11.1.6
65315acid phosphatase+3.1.3.2
65315alkaline phosphatase+3.1.3.1
65315cystine arylamidase+3.4.11.3
65315esterase (C 4)+
65315esterase Lipase (C 8)+
65315leucine arylamidase+3.4.11.1
65315naphthol-AS-BI-phosphohydrolase+
65315valine arylamidase+
65315alpha-chymotrypsin-3.4.21.1
65315alpha-fucosidase-3.2.1.51
65315alpha-galactosidase-3.2.1.22
65315beta-galactosidase-3.2.1.23
65315beta-glucuronidase-3.2.1.31
65315beta-glucosidase-3.2.1.21
65315alpha-glucosidase-3.2.1.20
65315lipase (C 14)-
65315alpha-mannosidase-3.2.1.24
65315N-acetyl-beta-glucosaminidase-3.2.1.52
65315arginine dihydrolase-3.5.3.6

Isolation, sampling and environmental information

isolation

  • @ref: 65315
  • sample type: seawater (depth of 100 m)
  • sampling date: 2015-12
  • geographic location: Philippine Sea
  • country: Northwest Pacific
  • enrichment culture: natural seawater agar
  • enrichment culture composition: natural seawater supplemented with 0.05 % peptone, 0.01 % yeast extract and agar 1.5 %, w/v, pH 7.2-7.4
  • enrichment culture duration: 1 month
  • enrichment culture temperature: 25-28

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_155271.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_2240;97_15669;98_102378;99_155271&stattab=map
  • Last taxonomy: Pseudooceanicola lipolyticus subclade
  • 16S sequence: KY273603
  • Sequence Identity:
  • Total samples: 187
  • aquatic counts: 186
  • animal counts: 1

Sequence information

16S sequences

  • @ref: 65315
  • description: 16S rRNA gene sequence
  • accession: KY273603
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudooceanicola lipolyticus 157GCA_002786325scaffoldncbi2029104
66792Pseudooceanicola lipolyticus 1572837358148draftimg2029104

GC content

  • @ref: 65315
  • GC-content: 64.6
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno88.772yes
gram-positiveno97.63yes
anaerobicno98.609no
halophileyes60.416no
spore-formingno96.384yes
glucose-utilyes75.049yes
aerobicyes92.149no
thermophileno91.847yes
motileno56.166yes
glucose-fermentno90.907no

External links

@ref: 65315

culture collection no.: KCTC 52654, MCCC 1K03317

literature

  • topic: Phylogeny
  • Pubmed-ID: 29219804
  • title: Pseudooceanicola lipolyticus sp. nov., a marine alphaproteobacterium, reclassification of Oceanicola flagellatus as Pseudooceanicola flagellatus comb. nov. and emended description of the genus Pseudooceanicola.
  • authors: Huang MM, Guo LL, Wu YH, Lai QL, Shao ZZ, Wang CS, Wu M, Xu XW
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002521
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Philippines, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry, *Water Microbiology
  • 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
65315Meng-Meng Huang, Li-Li Guo, Yue-Hong Wu, Qi-Liang Lai, Zong-Ze Shao, Chun-Sheng Wang, Min Wu, Xue-Wei XuPseudooceanicola lipolyticus sp. nov., a marine alphaproteobacterium, reclassification of Oceanicola flagellatus as Pseudooceanicola flagellatus comb. nov. and emended description of the genus Pseudooceanicola10.1099/ijsem.0.002521IJSEM 68: 409-415 201829219804
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
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