Strain identifier

BacDive ID: 160775

Type strain: Yes

Species: Aestuariivirga litoralis

Strain history: <- W.-J. Li, State Key Lab. for Biocontrol, Sun Yat-sen Univ., Guangzhou, People's Republic of China; SYSU M10001 <- X. Li

NCBI tax ID(s): 2650924 (species)

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General

@ref: 67713

BacDive-ID: 160775

DSM-Number: 105254

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

description: Aestuariivirga litoralis DSM 105254 is an aerobe, psychrophilic, Gram-negative bacterium that forms irregular colonies and was isolated from freshwater-marine samples.

NCBI tax id

  • NCBI tax id: 2650924
  • Matching level: species

strain history

  • @ref: 67713
  • history: <- W.-J. Li, State Key Lab. for Biocontrol, Sun Yat-sen Univ., Guangzhou, People's Republic of China; SYSU M10001 <- X. Li

doi: 10.13145/bacdive160775.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Aestuariivirgaceae
  • genus: Aestuariivirga
  • species: Aestuariivirga litoralis
  • full scientific name: Aestuariivirga litoralis Li et al. 2019

@ref: 67713

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Aestuariivirgaceae

genus: Aestuariivirga

species: Aestuariivirga litoralis

full scientific name: Aestuariivirga litoralis Li et al. 2019

type strain: yes

Morphology

cell morphology

  • @ref: 67778
  • gram stain: negative
  • cell length: 1-1.8 µm
  • cell width: 0.7-0.9 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 67778
  • colony color: light beige
  • colony shape: irregular
  • medium used: Reasoner's 2A agar (R2A)

Culture and growth conditions

culture medium

  • @ref: 67713
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
67713positivegrowth20psychrophilic
67778positivegrowth20-37
67778positiveoptimum28mesophilic

culture pH

@refabilitytypepH
67778positivegrowth6-7
67778positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 67778
  • oxygen tolerance: aerobe

spore formation

  • @ref: 67778
  • spore formation: no

observation

  • @ref: 67778
  • observation: Cannot tolerate NaCl in the growth medium.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6777817632nitrate-reduction
67778milk-assimilation
6777853423tween 40+hydrolysis
677783557154-nitrophenyl beta-D-galactopyranoside+hydrolysis
6777817234glucose+assimilation
6777862968cellulose-hydrolysis
677785291gelatin-hydrolysis
6777828017starch-hydrolysis
6777853424tween 20-hydrolysis
6777853425tween 60-hydrolysis
6777853426tween 80-hydrolysis
6777832323glucuronamide+carbon source
6777817164stachyose+carbon source
6777817925alpha-D-glucose+carbon source
6777812936D-galactose+carbon source
6777828847D-fucose+carbon source
6777816977L-alanine+carbon source
6777818024D-galacturonic acid+carbon source
6777823652dextrin-carbon source
67778167632-oxobutanoate-carbon source
6777813705acetoacetate-carbon source
6777853423tween 40-carbon source
6777817306maltose-carbon source
6777816551D-trehalose-carbon source
6777817057cellobiose-carbon source
6777828066gentiobiose-carbon source
6777817992sucrose-carbon source
6777832528turanose-carbon source
6777816634raffinose-carbon source
6777836219alpha-lactose-carbon source
6777828053melibiose-carbon source
67778320055methyl beta-D-glucopyranoside-carbon source
6777817814salicin-carbon source
6777859640N-acetylglucosamine-carbon source
6777863153N-acetyl-D-mannosamine-carbon source
6777828800N-acetylgalactosamine-carbon source
6777835418n-acetylneuraminate-carbon source
6777816024D-mannose-carbon source
6777815824D-fructose-carbon source
67778739183-O-methyl-D-glucose-carbon source
6777818287L-fucose-carbon source
6777862345L-rhamnose-carbon source
6777817596inosine-carbon source
6777817924D-sorbitol-carbon source
6777816899D-mannitol-carbon source
6777818333D-arabitol-carbon source
6777817268myo-inositol-carbon source
6777817754glycerol-carbon source
6777814314D-glucose 6-phosphate-carbon source
6777878697D-fructose 6-phosphate-carbon source
6777829990D-aspartate-carbon source
6777816523D-serine-carbon source
677785291gelatin-carbon source
6777870744glycine-proline-carbon source
6777816467L-arginine-carbon source
6777829991L-aspartate-carbon source
6777829988L-glutamate-carbon source
6777815971L-histidine-carbon source
6777857606L-pyroglutamate-carbon source
6777817115L-serine-carbon source
6777817309pectin-carbon source
6777817464L-galactonic acid gamma-lactone-carbon source
677788391D-gluconate-carbon source
6777815748D-glucuronate-carbon source
6777816537galactarate-carbon source
6777826490quinate-carbon source
6777830612D-glucarate-carbon source
67778181014-hydroxyphenylacetic acid-carbon source
6777851850methyl pyruvate-carbon source
6777874611methyl (R)-lactate-carbon source
6777816651(S)-lactate-carbon source
6777816947citrate-carbon source
67778168102-oxoglutarate-carbon source
6777815588D-malate-carbon source
6777815589L-malate-carbon source
6777873706bromosuccinate-carbon source
6777816865gamma-aminobutyric acid-carbon source
67778645522-hydroxybutyrate-carbon source
67778370543-hydroxybutyrate-carbon source
6777817272propionate-carbon source
6777830089acetate-carbon source
6777815740formate-carbon source

metabolite production

@refChebi-IDmetaboliteproduction
6777816136hydrogen sulfideno
6777835581indoleno

enzymes

@refvalueactivityec
67778catalase+1.11.1.6
67778cytochrome oxidase+1.9.3.1
67778acid phosphatase+3.1.3.2
67778alkaline phosphatase+3.1.3.1
67778chymotrypsin+3.4.4.5
67778cystine arylamidase+3.4.11.3
67778esterase (C 4)+
67778esterase Lipase (C 8)+
67778leucine arylamidase+3.4.11.1
67778naphthol-AS-BI-phosphohydrolase+
67778trypsin+3.4.21.4
67778valine arylamidase+
67778urease-3.5.1.5
67778beta-glucosidase-3.2.1.21
67778beta-D-fucosidase-3.2.1.38
67778alpha-galactosidase-3.2.1.22
67778beta-galactosidase-3.2.1.23
67778beta-glucuronidase-3.2.1.31
67778N-acetyl-beta-glucosaminidase-3.2.1.52
67778alpha-glucosidase-3.2.1.20
67778lipase (C 14)-
67778alpha-mannosidase-3.2.1.24

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    67778C10:0 3OH0.5
    67778C12:0 iso0.3
    67778C12:02.2
    67778C11:0 2OH0.2
    67778C14:00.2
    67778C14:0 2OH0.3
    67778C16:015
    67778C17:0 iso0.5
    67778C17:0 anteiso0.2
    67778C17:00.5
    67778C18:3 w6,9,12c0.4
    67778C18:02.5
    67778C18:1 w7c 11-Methyl1.8
    67778C19:0 cyclo w8c50.7
    67778C18:1 2OH1
    67778C20:4 w6,9,12,15c0.3
    67778C20:0 iso0.2
    67778C20:1 w7c0.6
    67778C20:00.5
    67778C16:1 w7c / C16:1 w6c0.7
    67778C18:1 w7c and/or C18:1 w6c21.4
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A agar
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 4
  • incubation pH: 7
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
67713freshwater-marine samplesGuangdong province, Coastal of Pearl River EstuaryChinaCHNAsia23.1065113.595
67778water sampleconjunct point of freshwater and sea water, located along the coastal region of Pearl River estuary, Guangdong ProvinceChinaCHNAsia23.1089113.595R2A agarpH 7.014 days28The sample was diluted 100-fold with sterile water and 0.2 ml aliquots spread on Reasoner's 2A agar plates. The isolation plates were incubated at 28°C for 14 days.

Sequence information

16S sequences

  • @ref: 67778
  • description: Aestuariivirga litoralis strain SYSU M10001 16S ribosomal RNA gene, partial sequence
  • accession: MH371374
  • length: 1499
  • database: ena
  • NCBI tax ID: 2650924

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhizobiales bacterium KCTC 529452219703.3wgspatric2650924
66792Aestuariivirga litoralis KCTC 529452893929457draftimg2650924
67778Aestuariivirga litoralis KCTC 52945GCA_003234965contigncbi2650924

GC content

  • @ref: 67778
  • GC-content: 65.5
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno85.783yes
gram-positiveno97.81no
anaerobicno97.611yes
aerobicyes84.651no
halophileno85.856no
spore-formingno95.752no
glucose-utilyes90.927yes
flagellatedno94.205no
thermophileno95.068yes
glucose-fermentno87.761no

External links

@ref: 67713

culture collection no.: DSM 105254, KCTC 52945, NBRC 112960, SYSU M10001

straininfo link

  • @ref: 112993
  • straininfo: 406054

literature

  • topic: Phylogeny
  • Pubmed-ID: 30608224
  • title: Aestuariivirga litoralis gen. nov., sp. nov., a proteobacterium isolated from a water sample, and proposal of Aestuariivirgaceae fam. nov.
  • authors: Li X, Salam N, Li JL, Chen YM, Yang ZW, Han MX, Mou X, Xiao M, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003087
  • year: 2019
  • mesh: Alphaproteobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Estuaries, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry, *Water Microbiology
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournal
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
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
67713Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-105254Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105254)
67778Xin Li, Nimaichand Salam, Jia-Ling Li, Yi-Min Chen, Zi-Wen Yang, Ming-Xian Han, Xiaozhen Mou, Min Xiao, Wen-Jun LiAestuariivirga litoralis gen. nov., sp. nov., a proteobacterium isolated from a water sample, and proposal of Aestuariivirgaceae fam. nov.10.1099/ijsem.0.003087IJSEM 69: 299-306 2019
112993Reimer, 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-ID406054.1