Strain identifier

BacDive ID: 159817

Type strain: Yes

Species: Litorivita pollutaquae

Strain Designation: FSX-11

Strain history: Y. Tian; Xiamen Univ., China; FSX-11.

NCBI tax ID(s): 2200892 (species)

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General

@ref: 66782

BacDive-ID: 159817

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, thermophilic, Gram-negative, oval-shaped, colony-forming

description: Litorivita pollutaquae FSX-11 is a facultative anaerobe, thermophilic, Gram-negative bacterium that forms circular colonies and was isolated from surface seawater sample.

NCBI tax id

  • NCBI tax id: 2200892
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y. Tian; Xiamen Univ., China; FSX-11.

doi: 10.13145/bacdive159817.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Litorivita
  • species: Litorivita pollutaquae
  • full scientific name: Litorivita pollutaquae Hetharua et al. 2018

@ref: 66782

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Litorivita

species: Litorivita pollutaquae

strain designation: FSX-11

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
66782negative0.8-1.7 µm0.5-0.8 µmoval-shapedno
69480negative99.998

colony morphology

  • @ref: 66782
  • colony size: 0.5-1 mm
  • colony color: pale white transparent
  • colony shape: circular
  • incubation period: 3 days
  • medium used: marine agar Sta+ Glu

Culture and growth conditions

culture medium

  • @ref: 66782
  • name: marine agar Sta+ Glu
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
66782nogrowth40thermophilic
66782positivegrowth15-37
66782positiveoptimum20-30
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
66782positivegrowth6-9alkaliphile
66782positiveoptimum7-8

Physiology and metabolism

oxygen tolerance

  • @ref: 66782
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69480no99.999
69481no100

halophily

@refsaltgrowthtested relationconcentration
66782NaClpositivegrowth0.5-4.0 %(w/v)
66782NaClpositiveoptimum2-3 %(w/v)
66782NaClnogrowth5 %(w/v)

observation

@refobservation
66782Major respiratory quinone is ubiquinone-10.
66782The predominant polar lipids are diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, five unidentified phospholipids and three unknown polar lipids.
67770quinones: Q-10, Q-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6678216024D-mannose-assimilation
6678216899D-mannitol-assimilation
6678217128adipate-assimilation
6678217234glucose-assimilation
6678217306maltose-assimilation
6678217634D-glucose-assimilation
6678217992sucrose-assimilation
6678218401phenylacetate-assimilation
6678225115malate-assimilation
6678226546rhamnose-assimilation
6678227689decanoate-assimilation
6678228260galactose-assimilation
6678229864mannitol-assimilation
6678230849L-arabinose-assimilation
6678232032potassium gluconate-assimilation
6678253258citric acid-assimilation
6678253258sodium citrate-assimilation
6678259640N-acetylglucosamine-assimilation
6678217268myo-inositol-builds acid from
6678217634D-glucose-builds acid from
6678217924D-sorbitol-builds acid from
6678217992sucrose-builds acid from
6678227613amygdalin-builds acid from
6678228053melibiose-builds acid from
6678229864mannitol-builds acid from
6678230849L-arabinose-builds acid from
6678262345L-rhamnose-builds acid from
6678228017starch-hydrolysis
6678253423tween 40-hydrolysis
6678253424tween 20-hydrolysis
6678253425tween 60-hydrolysis
6678253426tween 80-hydrolysis
6678262968cellulose-hydrolysis
667824853esculin+hydrolysis
6678216199urea+hydrolysis
6678229016arginine+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6678215688acetoinno
6678216136hydrogen sulfideno
6678235581indoleno

enzymes

@refvalueactivityec
66782acid phosphatase-3.1.3.2
66782alpha-fucosidase-3.2.1.51
66782alpha-galactosidase-3.2.1.22
66782alpha-glucosidase-3.2.1.20
66782alpha-mannosidase-3.2.1.24
66782beta-galactosidase-3.2.1.23
66782beta-glucosidase-3.2.1.21
66782beta-glucuronidase-3.2.1.31
66782chymotrypsin-3.4.4.5
66782esterase (C 4)-
66782gelatinase-
66782leucine aminopeptidase-3.4.1.1
66782lipase (C 14)-
66782lysine decarboxylase-4.1.1.18
66782N-acetyl-beta-glucosaminidase-3.2.1.52
66782nitrate reductase-1.7.99.4
66782ornithine decarboxylase-4.1.1.17
66782trypsin-3.4.21.4
66782valine aminopeptidase-
66782alkaline phosphatase+3.1.3.1
66782arginine dihydrolase+3.5.3.6
66782catalase+1.11.1.6
66782cytochrome oxidase+1.9.3.1
66782esterase Lipase (C 8)+
66782leucine arylamidase+3.4.11.1
66782naphthol-AS-BI-phosphohydrolase+
66782tryptophan deaminase+4.1.99.1
66782urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66782C10:0 3OH2
    66782C8:0 3OH1.2
    66782C18:01.6
    66782C14:0 anteiso3.7
    66782C12:1 3OH4.2
    66782C16:07.4
    6678211-methyl C18:1 w7c8.6
  • type of FA analysis: whole cell analysis
  • incubation medium: marine agar Sta+Glu
  • incubation temperature: 30
  • incubation time: 3
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • instrument: (GC6850, Agilent)
  • method/protocol: Sasser, 1990

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
66782surface seawater sampleXiamen portChinaCHNAsia24.4548118.0731% (v/v) diesel oil150 r.p.m.30 days30Strain FSX-11T was isolated by the standard dilution plating technique and incubated on modified marine agar media Sta +Glu (4 g tryptone, 2 g bacteriological peptone, 0.5 g yeast extract, 0.5 g soy peptone, 0.5 g (NH4)2SO4, 0.14mg FeSO4, 2 mg Fe2(SO4)3, 74 mg K2HPO4, 6.8mg KH2PO4, 1 g D-(+)-glucose, 1 g starch, 800 ml seawater, 200 ml distilled water and 15 g agar)
67770Surface seawater of Xiamen port in China

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_119495.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_7319;97_8783;98_80565;99_119495&stattab=map
  • Last taxonomy: Bacteroidetes
  • 16S sequence: MG051263
  • Sequence Identity:
  • Total samples: 73
  • soil counts: 1
  • aquatic counts: 70
  • animal counts: 2

Sequence information

16S sequences

  • @ref: 66782
  • description: Rhodobacteraceae bacterium strain FSX-11 16S ribosomal RNA gene, partial sequence
  • accession: MG051263
  • length: 1426
  • database: ena
  • NCBI tax ID: 1904441

Genome sequences

  • @ref: 67770
  • description: Litorivita pollutaquae FSX-11
  • accession: GCA_003205515
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 2200892

GC content

  • @ref: 67770
  • GC-content: 58.7
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno78.778yes
gram-positiveno98.016no
anaerobicno98.269no
halophileyes64.545no
spore-formingno96.287no
glucose-utilyes58.645no
aerobicyes81.869no
thermophileno94.004no
motileno60.498yes
glucose-fermentno91.019no

External links

@ref: 66782

culture collection no.: JCM 32715, MCCC 1K03503

literature

  • topic: Phylogeny
  • Pubmed-ID: 30339119
  • title: Litorivita pollutaquae gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae isolated from surface seawater of Xiamen Port, China.
  • authors: Hetharua B, Min D, Liao H, Lin L, Xu H, Tian Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003084
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*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
66782Buce Hetharua, Derong Min, Hu Liao, Li'an Lin, Hong Xu and Yun TianLitorivita pollutaquae gen. nov., sp. nov., a marine bacterium in the family Rhodobacteraceae isolated from surface seawater of Xiamen Port, China10.1099/ijsem.0.003084IJSEM 68: 3908-3913 201830339119
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
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