Strain identifier

BacDive ID: 13731

Type strain: Yes

Species: Phaeobacter inhibens

Strain Designation: T5

Culture col. no.: DSM 16374, CIP 109289, LMG 22475

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General

@ref: 6411

BacDive-ID: 13731

DSM-Number: 16374

keywords: gram-negative, mesophilic, aerobe, Bacteria, 16S sequence, genome sequence, motile, ovoid-shaped

description: Phaeobacter inhibens T5 is an aerobe, mesophilic, gram-negative bacterium that was isolated from water sample.

strain history

doi: 10.13145/bacdive13731.20201210.5

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/proteobacteria
  • domain: Bacteria
  • phylum: Proteobacteria
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Rhodobacteraceae
  • genus: Phaeobacter
  • species: Phaeobacter inhibens
  • full scientific name: Phaeobacter inhibens Martens et al. 2006

@ref: 6411

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Phaeobacter

species: Phaeobacter inhibens

full scientific name: Phaeobacter inhibens Martens et al. 2006 emend. Vandecandelaere et al. 2008 emend. Dogs et al. 2013

strain designation: T5

type strain: yes

Morphology

cell morphology

  • @ref: 31517
  • gram stain: negative
  • cell length: 1.4-1.9 µm
  • cell width: 0.6-0.8 µm
  • cell shape: ovoid-shaped
  • motility: yes

colony morphology

  • @ref: 6411
  • incubation period: 1-2 days

pigmentation

  • @ref: 31517
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6411BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium514.pdf
37502Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
6411positivegrowth25mesophilic
31517positivegrowth04-36
31517positiveoptimum27-29mesophilic
37502positivegrowth20psychrophilic

culture pH

@refabilitytypepH
31517positivegrowth6-9.5
31517positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 31517
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31517
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31517NaClpositivegrowth0.05-8.6 %
31517NaClpositiveoptimum2.96-3.94 %

observation

  • @ref: 31517
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3151716449alanine+carbon source
3151729016arginine+carbon source
3151722653asparagine+carbon source
3151735391aspartate+carbon source
3151717057cellobiose+carbon source
3151728757fructose+carbon source
3151728260galactose+carbon source
3151717234glucose+carbon source
3151717754glycerol+carbon source
3151715428glycine+carbon source
3151727570histidine+carbon source
3151725017leucine+carbon source
3151737684mannose+carbon source
3151726271proline+carbon source
3151717272propionate+carbon source
3151733942ribose+carbon source
3151730911sorbitol+carbon source
3151726986threonine+carbon source
3151727082trehalose+carbon source
3151718222xylose+carbon source

enzymes

@refvalueactivityec
6411catalase+1.11.1.6
6411cytochrome-c oxidase+1.9.3.1
31517catalase+1.11.1.6
31517cytochrome oxidase+1.9.3.1

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARA
6411---------+-+-----+/---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
6411--------+/-+/-+/-+/-+/-++/--+++/-+/-

Isolation, sampling and environmental information

isolation

  • @ref: 6411
  • sample type: water sample
  • geographic location: Wadden Sea
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Safety information

risk assessment

  • @ref: 6411
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
6411Phaeobacter inhibens DSM 16374 16S ribosomal RNA gene, partial sequenceAY1777121386ena999548
6411Phaeobacter inhibens DSM 16374 16S ribosomal RNA gene, partial sequenceKC1762401380ena999548

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Phaeobacter inhibens P66GCA_002892065completencbi221822
66792Phaeobacter inhibens P88GCA_002892085completencbi221822
66792Phaeobacter inhibens P10GCA_002888685completencbi221822
66792Phaeobacter inhibens P80GCA_002892145completencbi221822
66792Phaeobacter inhibens P83GCA_002892225completencbi221822
66792Phaeobacter inhibens P72GCA_002891945completencbi221822
66792Phaeobacter inhibens BS107GCA_003443575completencbi221822
66792Phaeobacter inhibens 2.10GCA_003443555completencbi221822
66792Phaeobacter inhibens P74GCA_002892045completencbi221822
66792Phaeobacter inhibens P92GCA_002892025completencbi221822
66792Phaeobacter inhibens P70GCA_002892125completencbi221822
66792Phaeobacter inhibens P48GCA_002892265completencbi221822
66792Phaeobacter inhibens P59GCA_002892165completencbi221822
66792Phaeobacter inhibens DOK1-1GCA_001969345completencbi221822
66792Phaeobacter inhibens P54GCA_002892185completencbi221822
66792Phaeobacter inhibens P24GCA_002891665completencbi221822
66792Phaeobacter inhibens P30GCA_002892205completencbi221822
66792Phaeobacter inhibens P51GCA_002891985completencbi221822
66792Phaeobacter inhibens P57GCA_002892005completencbi221822
66792Phaeobacter inhibens P78GCA_002891965completencbi221822
66792Phaeobacter inhibens DSM 16374GCA_000473105scaffoldncbi999548
66792Phaeobacter inhibens S4SmGCA_001559785scaffoldncbi221822
66792Phaeobacter inhibens DSM 16374999548.6wgspatric999548
66792Phaeobacter inhibens strain 2.10221822.28completepatric221822
66792Phaeobacter inhibens strain BS107221822.29completepatric221822
66792Phaeobacter inhibens strain DOK1-1221822.7plasmidpatric221822
66792Phaeobacter inhibens strain DOK1-1221822.6completepatric221822
66792Phaeobacter inhibens strain DOK1-1221822.10plasmidpatric221822
66792Phaeobacter inhibens strain DOK1-1221822.8plasmidpatric221822
66792Phaeobacter inhibens strain DOK1-1221822.9plasmidpatric221822
66792Phaeobacter inhibens strain P10221822.11completepatric221822
66792Phaeobacter inhibens strain P24221822.12completepatric221822
66792Phaeobacter inhibens strain P30221822.25completepatric221822
66792Phaeobacter inhibens strain P48221822.27completepatric221822
66792Phaeobacter inhibens strain P51221822.15completepatric221822
66792Phaeobacter inhibens strain P54221822.24completepatric221822
66792Phaeobacter inhibens strain P57221822.16completepatric221822
66792Phaeobacter inhibens strain P59221822.23completepatric221822
66792Phaeobacter inhibens strain P66221822.19completepatric221822
66792Phaeobacter inhibens strain P70221822.21completepatric221822
66792Phaeobacter inhibens strain P72221822.13completepatric221822
66792Phaeobacter inhibens strain P74221822.18completepatric221822
66792Phaeobacter inhibens strain P78221822.14completepatric221822
66792Phaeobacter inhibens strain P80221822.22completepatric221822
66792Phaeobacter inhibens strain P83221822.26completepatric221822
66792Phaeobacter inhibens strain P88221822.20completepatric221822
66792Phaeobacter inhibens strain P92221822.17completepatric221822
66792Phaeobacter inhibens strain S4Sm221822.4wgspatric221822
66792Phaeobacter inhibens T5, DSM 163742574179718completeimg999548

GC content

  • @ref: 6411
  • GC-content: 55.7

External links

@ref: 6411

culture collection no.: DSM 16374, CIP 109289, LMG 22475

straininfo link

@refpassport
20218http://www.straininfo.net/strains/690188
20218http://www.straininfo.net/strains/691214
20218http://www.straininfo.net/strains/377766

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
6411Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16374)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16374
20215D.Gleim, M.Kracht, N.Weiss et. al.http://www.dsmz.de/bacterial-diversity/prokaryotic-nomenclature-up-to-date.htmlProkaryotic Nomenclature Up-to-date - compilation of all names of Bacteria and Archaea, validly published according to the Bacteriological Code since 1. Jan. 1980, and validly published nomenclatural changes since
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
2781210.1099/ijs.0.63724-0
31517Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information27812
37502Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7013
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)