Strain identifier

BacDive ID: 158403

Type strain: Yes

Species: Carnobacterium antarcticum

Strain Designation: CP-1

Strain history: <- J. Chen, Zhejiang Wanli Univ., Ningbo, China; CP-1 <- S. Zhu and J. Chen

NCBI tax ID(s): 2126436 (species)

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General

@ref: 65079

BacDive-ID: 158403

DSM-Number: 103363

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

description: Carnobacterium antarcticum CP-1 is a facultative anaerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from sandy soil collected from the surrounding environment of the Davis Station.

NCBI tax id

  • NCBI tax id: 2126436
  • Matching level: species

strain history

  • @ref: 65079
  • history: <- J. Chen, Zhejiang Wanli Univ., Ningbo, China; CP-1 <- S. Zhu and J. Chen

doi: 10.13145/bacdive158403.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Carnobacteriaceae
  • genus: Carnobacterium
  • species: Carnobacterium antarcticum
  • full scientific name: Carnobacterium antarcticum Zhu et al. 2018

@ref: 65079

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Carnobacterium

species: Carnobacterium antarcticum

full scientific name: Carnobacterium antarcticum Zhu et al. 2018

strain designation: CP-1

type strain: yes

Morphology

cell morphology

  • @ref: 65473
  • gram stain: positive
  • cell length: 1.0-1.5 µm
  • cell width: 0.8-1.0 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 65473
  • colony size: 1-2 mm
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Tryptic soy broth solid medium

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
65079TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
65473Tryptic soy broth solid mediumyes

culture temp

@refgrowthtypetemperaturerange
65079positivegrowth30mesophilic
65473positivegrowth4-36
65473positiveoptimum28-32mesophilic

culture pH

@refabilitytypepHPH range
65473positivegrowth6-9.5alkaliphile
65473positiveoptimum8-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 65473
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 65473
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
65473NaClpositivegrowth0-5 %(w/v)
65473NaClpositiveoptimum1 %(w/v)

observation

@refobservation
65473without flagella
65473occurrs singly or in pairs or short chains
65473cell wall contained meso-diaminopimelic acid and of the peptidoglycan type A1g

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6547327613amygdalin-builds acid from
6547318305arbutin-builds acid from
6547317057cellobiose-builds acid from
6547315963ribitol-builds acid from
6547317108D-arabinose-builds acid from
6547318333D-arabitol-builds acid from
6547315824D-fructose+builds acid from
6547328847D-fucose-builds acid from
6547312936D-galactose-builds acid from
6547317634D-glucose+builds acid from
6547362318D-lyxose-builds acid from
6547316899D-mannitol-builds acid from
6547316024D-mannose+builds acid from
6547316988D-ribose-builds acid from
6547317924D-sorbitol-builds acid from
6547316443D-tagatose-builds acid from
6547365327D-xylose-builds acid from
6547316813galactitol-builds acid from
6547317113erythritol-builds acid from
654734853esculin+growth
65473esculin ferric citrate-hydrolysis
654735291gelatin-hydrolysis
6547328066gentiobiose-builds acid from
6547317234glucose+builds gas from
6547317754glycerol+growth
6547328087glycogen-builds acid from
6547317268myo-inositol-builds acid from
6547315443inulin-builds acid from
6547330849L-arabinose-builds acid from
6547318403L-arabitol-builds acid from
6547318287L-fucose-builds acid from
6547362345L-rhamnose-builds acid from
6547317266L-sorbose-builds acid from
6547365328L-xylose-builds acid from
6547317716lactose-builds acid from
6547317306maltose-builds acid from
654736731melezitose-builds acid from
6547328053melibiose-builds acid from
65473320061methyl alpha-D-glucopyranoside-builds acid from
6547374863methyl beta-D-xylopyranoside-builds acid from
65473506227N-acetylglucosamine+builds acid from
65473O-nitrophenyl-beta-D-galactopyranosid-hydrolysis
65473potassium 2-dehydro-D-gluconate-builds acid from
65473potassium 5-dehydro-D-gluconate-builds acid from
6547332032potassium gluconate-builds acid from
6547316634raffinose-builds acid from
6547317814salicin+growth
6547328017starch-builds acid from
6547317992sucrose+builds acid from
6547327082trehalose-builds acid from
6547332528turanose-builds acid from
6547317151xylitol-builds acid from

metabolite production

  • @ref: 65473
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6547315688acetoin-
6547335581indole-

enzymes

@refvalueactivityec
65473catalase-1.11.1.6
65473cytochrome oxidase-1.9.3.1
65473urease-3.5.1.5
65473nitrate reductase-1.7.99.4
65473alkaline phosphatase+3.1.3.1
65473esterase (C 4)+
65473esterase Lipase (C 8)+
65473leucine arylamidase+3.4.11.1
65473valine arylamidase+
65473cystine arylamidase+3.4.11.3
65473alpha-chymotrypsin+3.4.21.1
65473acid phosphatase+3.1.3.2
65473naphthol-AS-BI-phosphohydrolase+
65473beta-glucosidase+3.2.1.21
65473lipase (C 14)+
65473trypsin-3.4.21.4
65473alpha-galactosidase-3.2.1.22
65473beta-galactosidase-3.2.1.23
65473beta-glucuronidase-3.2.1.31
65473alpha-glucosidase-3.2.1.20
65473alpha-mannosidase-3.2.1.24
65473beta-D-fucosidase-3.2.1.38
65473N-acetyl-beta-glucosaminidase-3.2.1.52

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65473C10:01.3
    65473C12:05.8
    65473C14:060.2
    65473C16:08.8
    65473C16:1ω9c22.5
  • type of FA analysis: whole cell analysis
  • incubation medium: tryptic soy broth
  • incubation temperature: 32
  • incubation time: 3
  • incubation pH: 8
  • system: MIS MIDI
  • method/protocol: Miller 1982
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentlatitudelongitudegeographic locationenrichment culture temperatureisolation dateisolation procedure
65079sandy soil collected from the surrounding environment of the Davis StationAntarcticaATAAustralia and Oceania-68.5877.96
65473sandy soil near the Davis StationAntarcticaATAAustralia and Oceania-68.579177.9625East8February 201was isolated from the enrichment using the standard dilution plating technique at 8°C on a solid medium containing 0.5 % tryptone (Oxoid), 0.1 % yeast extract (Oxoid), 1.5 % agar and artificial seawater (half-strength)

isolation source categories

Cat1Cat2Cat3
#Climate#Cold#Polar
#Environmental#Terrestrial#Sandy
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_3143.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_41;97_395;98_1702;99_3143&stattab=map
  • Last taxonomy: Carnobacterium
  • 16S sequence: MG734178
  • Sequence Identity:
  • Total samples: 1024
  • soil counts: 97
  • aquatic counts: 106
  • animal counts: 792
  • plant counts: 29

Sequence information

16S sequences

  • @ref: 65079
  • description: Carnobacterium antarcticum strain CP1 16S ribosomal RNA gene, partial sequence
  • accession: MG734178
  • length: 1432
  • database: ena
  • NCBI tax ID: 2126436

GC content

@refGC-contentmethod
6507938.1
6547338.1genome sequence analysis

External links

@ref: 65079

culture collection no.: DSM 103363, CGMCC 1.15643

straininfo link

  • @ref: 111206
  • straininfo: 396976

literature

  • topic: Phylogeny
  • Pubmed-ID: 29616891
  • title: Carnobacterium antarcticum sp. nov., a psychrotolerant, alkaliphilic bacterium isolated from sandy soil in Antarctica.
  • authors: Zhu S, Lin D, Xiong S, Wang X, Xue Z, Dong B, Shen X, Ma X, Chen J, Yang J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002727
  • year: 2018
  • mesh: Antarctic Regions, Bacterial Typing Techniques, Base Composition, Carnobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
65079Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103363Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103363)
65473Sidong Zhu, Danqiu Lin, Shangling Xiong, Xing Wang, Zehao Xue, Bingxia Dong, Xudong Shen, Xiangdong Ma, Jigang Chen, Jifang YangCarnobacterium antarcticum sp. nov., a psychrotolerant, alkaliphilic bacterium isolated from sandy soil in Antarctica10.1099/ijsem.0.002727IJSEM 68: 1672-1677 201829616891
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/
111206Reimer, 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-ID396976.1