Strain identifier

BacDive ID: 140814

Type strain: Yes

Species: Cribrihabitans pelagius

Strain Designation: KMU-32

Strain history: <- Y. Muramatsu, NBRC; NBRC 111834 <- J. Yoon; Keimyung University, Daegu; KMU-32

NCBI tax ID(s): 1765746 (species)

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General

@ref: 64819

BacDive-ID: 140814

DSM-Number: 108273

keywords: 16S sequence, Bacteria, obligate aerobe, chemoheterotroph, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Cribrihabitans pelagius KMU-32 is an obligate aerobe, chemoheterotroph, mesophilic bacterium that forms circular colonies and was isolated from seawater.

NCBI tax id

  • NCBI tax id: 1765746
  • Matching level: species

strain history

  • @ref: 64819
  • history: <- Y. Muramatsu, NBRC; NBRC 111834 <- J. Yoon; Keimyung University, Daegu; KMU-32

doi: 10.13145/bacdive140814.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Cribrihabitans
  • species: Cribrihabitans pelagius
  • full scientific name: Cribrihabitans pelagius Yoon et al. 2016

@ref: 64819

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Cribrihabitans

species: Cribrihabitans pelagius

full scientific name: Cribrihabitans pelagius Yoon et al. 2016

strain designation: KMU-32

type strain: yes

Morphology

cell morphology

  • @ref: 43601
  • gram stain: negative
  • cell length: 1.8-2 µm
  • cell width: 0.7-0.8 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: lophotrichous

colony morphology

  • @ref: 43601
  • colony color: Cream coloured
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine agar 2216

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43601Marine agar (MA)yes
64819BACTO 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

culture temp

@refgrowthtypetemperaturerange
43601positivegrowth25-37mesophilic
43601nogrowth4psychrophilic
43601nogrowth45thermophilic
43601positiveoptimum30mesophilic
64819positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43601positivegrowth6-9alkaliphile
43601positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43601
  • oxygen tolerance: obligate aerobe

nutrition type

  • @ref: 43601
  • type: chemoheterotroph

halophily

@refsaltgrowthtested relationconcentration
43601NaClpositivemaximum6 %(w/v)
43601NaClnogrowth7 %(w/v)
43601NaClpositiveoptimum3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
43601168082-dehydro-D-gluconate-builds acid from
43601581435-dehydro-D-gluconate-builds acid from
4360115963ribitol-builds acid from
4360127613amygdalin-builds acid from
4360118305arbutin-builds acid from
4360117057cellobiose-builds acid from
4360117108D-arabinose-builds acid from
4360118333D-arabitol-builds acid from
4360162318D-lyxose-builds acid from
4360116443D-tagatose-builds acid from
4360165327D-xylose-builds acid from
4360116813galactitol-builds acid from
4360117113erythritol-builds acid from
4360128757fructose-builds acid from
4360128260galactose-builds acid from
4360128066gentiobiose-builds acid from
4360124265gluconate-builds acid from
4360117234glucose-builds acid from
4360115978glycerol 3-phosphate-builds acid from
4360128087glycogen-builds acid from
4360117268myo-inositol-builds acid from
4360115443inulin-builds acid from
4360130849L-arabinose-builds acid from
4360118403L-arabitol-builds acid from
4360118287L-fucose-builds acid from
4360165328L-xylose-builds acid from
4360129864mannitol-builds acid from
436016731melezitose-builds acid from
43601320061methyl alpha-D-glucopyranoside-builds acid from
4360143943methyl alpha-D-mannoside-builds acid from
4360174863methyl beta-D-xylopyranoside-builds acid from
43601506227N-acetylglucosamine-builds acid from
4360116634raffinose-builds acid from
4360126546rhamnose-builds acid from
4360133942ribose-builds acid from
4360130911sorbitol-builds acid from
4360127922sorbose-builds acid from
4360128017starch-builds acid from
4360127082trehalose-builds acid from
4360132528turanose-builds acid from
4360117151xylitol-builds acid from
436012509agar-hydrolysis
43601casein-hydrolysis
4360116991dna-hydrolysis
4360128017starch-hydrolysis
4360153424tween 20-hydrolysis
4360153426tween 80-hydrolysis
4360118186tyrosine-hydrolysis
4360117632nitrate-reduction
4360116947citrate+assimilation
4360128847D-fucose+builds acid from
436014853esculin+builds acid from
4360131605ferric citrate+builds acid from
4360117716lactose+builds acid from
4360117306maltose+builds acid from
4360137684mannose+builds acid from
4360128053melibiose+builds acid from
4360117814salicin+builds acid from
4360117992sucrose+builds acid from
436015291gelatin+hydrolysis
4360116199urea+hydrolysis
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
4360116136hydrogen sulfideno
4360135581indoleno
4360115688acetoinyes
6836935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
4360115688acetoin+
6836935581indole-

enzymes

@refvalueactivityec
43601arginine dihydrolase+3.5.3.6
43601lysine decarboxylase-4.1.1.18
43601ornithine decarboxylase-4.1.1.17
43601esterase (C 4)+
43601esterase Lipase (C 8)+
43601leucine arylamidase+3.4.11.1
43601naphthol-AS-BI-phosphohydrolase+
43601alkaline phosphatase-3.1.3.1
43601valine arylamidase-
43601acid phosphatase-3.1.3.2
43601trypsin-3.4.21.4
43601beta-galactosidase-3.2.1.23
43601alpha-glucosidase-3.2.1.20
43601beta-glucosidase-3.2.1.21
43601N-acetyl-beta-glucosaminidase-3.2.1.52
43601alpha-galactosidase-3.2.1.22
43601lipase (C 14)-
43601cystine arylamidase-3.4.11.3
43601alpha-chymotrypsin-3.4.21.1
43601beta-glucuronidase-3.2.1.31
43601alpha-mannosidase-3.2.1.24
43601alpha-fucosidase-3.2.1.51
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase-3.1.3.1
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43601C15:0 anteiso13.1
    43601C17:0 anteiso55.9
    43601C16:01.2
    43601C15:0 iso3.7
    43601C16:0 iso23
    43601C17:0 iso2.5
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine agar 2216
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 3
  • incubation pH: 7
  • incubation_oxygen: aerobic
  • library/peak naming table: TSBA6.1
  • system: MIS MIDI
  • cutoff value:

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
64819--+/---+/-----++/----++/----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
64819-------+--+/-+/---------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
43601seawaterNajeong Beach, Gyeongsangbuk-doRepublic of KoreaKORAsia2015-08
64819SeawaterNajeong Beach, Gyeongsangbuk-doRepublic of KoreaKORAsia

isolation source categories

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

Safety information

risk assessment

  • @ref: 64819
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 43601
  • description: 16S rRNA gene sequence
  • accession: LC101916
  • database: nuccore

GC content

  • @ref: 43601
  • GC-content: 63.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 64819

culture collection no.: KCTC 42980, NBRC 111834, DSM 108273, KCTC 42981

straininfo link

  • @ref: 96795
  • straininfo: 406779

literature

  • topic: Phylogeny
  • Pubmed-ID: 27216538
  • title: Cribrihabitans pelagius sp. nov., a marine alphaproteobacterium isolated from seawater.
  • authors: Yoon J, Lee KC, Lee JS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001171
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodobacteraceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
43601Jaewoo Yoon, Keun Chul Lee, Jung-Sook LeeCribrihabitans pelagius sp. nov., a marine alphaproteobacterium isolated from seawater10.1099/ijsem.0.001171IJSEM 66: 3195-3200 201627216538
64819Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-108273Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 108273)
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
96795Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID406779.1