Strain identifier

BacDive ID: 159890

Type strain: Yes

Species: Thalassospira marina

Strain Designation: CSC3H3

Strain history: <- Renju Liu, Third institute of Oceanography, State Oceanic Administration(SOA)

NCBI tax ID(s): 2048283 (species)

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General

@ref: 66655

BacDive-ID: 159890

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, curved-shaped, colony-forming

description: Thalassospira marina CSC3H3 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from From the surface seawater.

NCBI tax id

  • NCBI tax id: 2048283
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Renju Liu, Third institute of Oceanography, State Oceanic Administration(SOA)

doi: 10.13145/bacdive159890.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Thalassospiraceae
  • genus: Thalassospira
  • species: Thalassospira marina
  • full scientific name: Thalassospira marina Dong et al. 2018

@ref: 66655

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Thalassospiraceae

genus: Thalassospira

species: Thalassospira marina

strain designation: CSC3H3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
66655negative1.7-2.8 µm0.5-0.8 µmcurved-shapedyesmonotrichous, polar
69480negative97.5

colony morphology

  • @ref: 66655
  • colony size: 1-2 mm
  • colony color: opalescent or yellowish
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine agar (MA)

Culture and growth conditions

culture medium

  • @ref: 66655
  • name: Marine agar (MA)
  • growth: yes

culture temp

@refgrowthtypetemperature
66655positiveoptimum28
66655positivegrowth10-40
67771positivegrowth28

culture pH

@refabilitytypepHPH range
66655positivegrowth5-10alkaliphile
66655positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
66655aerobe
67771aerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 100

halophily

@refsaltgrowthtested relationconcentrationhalophily level
66655NaClpositivegrowth0-15 %(w/v)
66655NaClpositiveoptimum2-3 %(w/v)slightly halophilic

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6665518401phenylacetate-assimilation
6665527689decanoate-assimilation
666553557154-nitrophenyl beta-D-galactopyranoside-assimilation
6665516024D-mannose+assimilation
6665516899D-mannitol+assimilation
6665517306maltose+assimilation
6665517634D-glucose+assimilation
6665525115malate+assimilation
6665530849L-arabinose+assimilation
6665532032potassium gluconate+assimilation
6665559640N-acetylglucosamine+assimilation
6665517128adipate+/-assimilation
6665553258sodium citrate+/-assimilation
6665517268myo-inositol-builds acid from
6665517992sucrose-builds acid from
6665526546rhamnose-builds acid from
6665527613amygdalin-builds acid from
6665528053melibiose-builds acid from
6665529864mannitol-builds acid from
6665530911sorbitol-builds acid from
6665517234glucose+builds acid from
6665522599arabinose+builds acid from
6665517634D-glucose-fermentation
666554853esculin-hydrolysis
666555291gelatin-hydrolysis
6665553426tween 80-hydrolysis
6665517632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6665515688acetoinyes
6665516136hydrogen sulfideno
6665535581indoleno

metabolite tests

  • @ref: 66655
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
66655alpha-chymotrypsin-3.4.21.1
66655alpha-fucosidase-3.2.1.51
66655alpha-galactosidase-3.2.1.22
66655alpha-mannosidase-3.2.1.24
66655arginine dihydrolase-3.5.3.6
66655beta-galactosidase-3.2.1.23
66655cystine aminopeptidase-3.4.11.3
66655lipase (C 14)-
66655lysine decarboxylase-4.1.1.18
66655N-acetyl-beta-glucosaminidase-3.2.1.52
66655ornithine decarboxylase-4.1.1.17
66655trypsin-3.4.21.4
66655tryptophan decarboxylase-4.1.1.27
66655acid phosphatase+3.1.3.2
66655alkaline phosphatase+3.1.3.1
66655beta-glucosidase+3.2.1.21
66655catalase+1.11.1.6
66655cytochrome oxidase+1.9.3.1
66655esterase+
66655esterase (C 4)+
66655esterase Lipase (C 8)+
66655leucine aminopeptidase+3.4.1.1
66655naphthol-AS-BI-phosphohydrolase+
66655urease+3.5.1.5
66655valine aminopeptidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66655C13:1 at 12-131
    66655C18:0 3OH1
    66655C16:012
    66655C12:0 aldehyde0.7
    66655C17:00.7
    66655C16:1 w5c0.8
    66655C19:0 cyclo w6c12.9
    66655C16:1 w6/7c2.5
    66655C18:02.7
    66655C14:0 3OH3.8
    66655C18:1 w7c30.4
    66655C14:04.2
    66655C16:0 3OH4.3
    66655C12:04.9
    66655C17:0 cyclo5.2
    66655C18:1 2OH9.1
  • type of FA analysis: whole cell analysis
  • incubation medium: MA
  • incubation temperature: 28
  • incubation time: 2
  • software version: Sherlock 6.0B
  • library/peak naming table: TSBA 6.0
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic locationlatitudelongitude
67771From the surface seawaterChinaCHNAsia
66655surface seawater2016-10South China Sea21.3026117.711

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

Sequence information

16S sequences

  • @ref: 66655
  • description: Thalassospira marina strain CSC3H3 16S ribosomal RNA gene, partial sequence
  • accession: MG458350
  • length: 1508
  • database: nuccore
  • NCBI tax ID: 2048283

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thalassospira marina CSC3H3GCA_002844375completencbi2048283
66792Thalassospira marina CSC3H32775506933completeimg2048283

GC content

  • @ref: 66655
  • GC-content: 54.60
  • method: genome sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno97.5yes
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.161no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes78.504yes
69480spore-formingspore-formingAbility to form endo- or exosporesno88.09no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno98.982yes
69480flagellatedmotile2+Ability to perform flagellated movementyes84.247no

External links

@ref: 66655

culture collection no.: MCCC 1A11786, KCTC 62333

literature

  • topic: Phylogeny
  • Pubmed-ID: 30028290
  • title: Thalassospira marina sp. nov., isolated from surface seawater.
  • authors: Dong C, Liu R, Lai Q, Liu Y, Shao Z
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002925
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodospirillaceae/*classification/genetics/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry
  • 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
66655Chunming Dong, Renju Liu, Qiliang Lai, Yang Liu and Zongze ShaoThalassospira marina sp. nov., isolated from surface seawater10.1099/ijsem.0.002925IJSEM 68: 2943-2948 201830028290
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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