Strain identifier

BacDive ID: 166097

Type strain: No

Species: Pararhodobacter zhoushanensis

Strain Designation: ZQ420

NCBI tax ID(s): 2184063 (species), 2479545 (species)

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General

@ref: 68203

BacDive-ID: 166097

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

description: Pararhodobacter zhoushanensis ZQ420 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from marine sediment.

NCBI tax id

NCBI tax idMatching level
2184063species
2479545species

doi: 10.13145/bacdive166097.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Pararhodobacter
  • species: Pararhodobacter zhoushanensis
  • full scientific name: Pararhodobacter zhoushanensis Zhang et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Pararhodobacter marinus

@ref: 68203

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Pararhodobacter

species: Pararhodobacter marinus

strain designation: ZQ420

type strain: no

Morphology

cell morphology

  • @ref: 68203
  • gram stain: negative
  • cell length: 1.0-2.8 µm
  • cell width: 0.3-0.9 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 68203
  • colony size: 1 mm
  • colony color: cream-coloured
  • colony shape: circular
  • incubation period: 1 day
  • medium used: Marine agar (MA)

Culture and growth conditions

culture temp

@refgrowthtypetemperature
68203positivegrowth10-45
68203positiveoptimum35-40

culture pH

@refabilitytypepHPH range
68203positivegrowth5.5-9alkaliphile
68203positiveoptimum6.5-7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 68203
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 91

halophily

@refsaltgrowthtested relationconcentration
68203NaClpositivegrowth0-12 %(w/v)
68203NaClpositiveoptimum1-2 %(w/v)

observation

  • @ref: 68203
  • observation: Cells divide by binary fission

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6820328017starch+hydrolysis
68203casein+hydrolysis
6820353424tween 20+hydrolysis
6820353423tween 40+hydrolysis
6820353426tween 80+hydrolysis
6820317234glucose-fermentation
682035291gelatin-hydrolysis
682034853esculin-hydrolysis
6820353425tween 60-hydrolysis
682034853esculin+builds acid from
6820330849L-arabinose+builds acid from
6820318333D-arabitol+builds acid from
6820315824D-fructose+builds acid from
6820328847D-fucose+builds acid from
68203168082-dehydro-D-gluconate+builds acid from
6820316899D-mannitol+builds acid from
6820316988D-ribose+builds acid from
6820317814salicin+builds acid from
6820317924D-sorbitol+builds acid from
6820365327D-xylose+builds acid from
6820317634D-glucose-builds acid from
68203320061methyl alpha-D-glucopyranoside-builds acid from
68203506227N-acetyl-D-glucosamine-builds acid from
6820318305arbutin-builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.
682032676amoxicillinyesyes20 µg (disc)
682033393carbenicillinyesyes100 µg (disc)
68203474053cefazolinyesyes30 µg (disc)
682033547cephradineyesyes30 µg (disc)
6820317833gentamicinyesyes10 µg (disc)
682037507neomycinyesyes30 µg (disc)
682037809oxacillinyesyes1 µg (disc)
682038309polymyxin byesyes300 Unit (disc)
6820328001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6820316136hydrogen sulfideyes
6820335581indoleno
6820315688acetoinno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
6820317234glucose-
6820315688acetoin-

enzymes

@refvalueactivityec
68203catalase+1.11.1.6
68203cytochrome oxidase+1.9.3.1
68203nitrate reductase+1.7.99.4
68203urease+3.5.1.5
68203arginine dihydrolase+3.5.3.6
68203alkaline phosphatase+3.1.3.1
68203esterase (C 4)+
68203esterase Lipase (C 8)+
68203leucine arylamidase+3.4.11.1
68203cystine arylamidase+3.4.11.3
68203acid phosphatase+3.1.3.2
68203naphthol-AS-BI-phosphohydrolase+
68203N-acetyl-beta-glucosaminidase+3.2.1.52
68203alpha-glucosidase+3.2.1.20
68203valine arylamidase-
68203trypsin-3.4.21.4
68203alpha-chymotrypsin-3.4.21.1
68203alpha-galactosidase-3.2.1.22
68203beta-galactosidase-3.2.1.23

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    68203C10:00.7
    68203C16:015.5
    68203C18:01.6
    68203C10:0 3OH4.7
    68203C17:0 cyclo0.7
    68203C18:1 w7c60.9
    68203C18:1 w7c 11-Methyl10
    68203C19:0 cyclo w8c4
    68203C16:1 w7c/C16:1 w6c1.5
  • type of FA analysis: whole cell analysis
  • incubation medium: MB
  • incubation temperature: 28
  • software version: Sherlock 6.1
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 68203
  • sample type: marine sediment
  • sampling date: 2017-08-01
  • geographic location: Zhoushan Island
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 29.7667
  • longitude: 123.45
  • enrichment culture: Marine broth 2216
  • enrichment culture duration: 3 days
  • enrichment culture temperature: 28

taxonmaps

  • @ref: 69479
  • File name: preview.99_34182.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_2882;97_3541;98_25258;99_34182&stattab=map
  • Last taxonomy: Pararhodobacter zhoushanensis subclade
  • 16S sequence: MH087458
  • Sequence Identity:
  • Total samples: 114
  • soil counts: 4
  • aquatic counts: 62
  • animal counts: 48

Sequence information

16S sequences

  • @ref: 68203
  • description: Pararhodobacter sp. strain ZQ420 16S ribosomal RNA gene, partial sequence
  • accession: MH087458
  • length: 1426
  • database: nuccore
  • NCBI tax ID: 2127056

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pararhodobacter zhoushanensis ZQ4202883834571draftimg2479545
68203Pararhodobacter zhoushanensis ZQ420GCA_003990445scaffoldncbi2479545

GC content

  • @ref: 68203
  • GC-content: 64.8
  • method: genome sequence analysis

Genome-based predictions

predictions

  • @ref: 69481
  • trait: spore-forming
  • model: spore-forming
  • description: Ability to form endo- or exospores
  • prediction: no
  • confidence: 91
  • training_data: no

External links

@ref: 68203

culture collection no.: KCTC 62579, MCCC 1K03530

literature

  • topic: Phylogeny
  • Pubmed-ID: 31385783
  • title: Pararhodobacter marinus sp. nov., a bacterium isolated from marine sediment in the East China Sea and emended description of the genus Pararhodobacter.
  • authors: Zhang W, Chen C, Yuan Y, Su D, Ding L, Epstein SS, He S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003627
  • year: 2019
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournal
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
68203Weiyan Zhang, Can Chen, Ye Yuan, Dengquan Su, Lijian Ding, Slava S. Epstein and Shan HePararhodobacter marinus sp. nov., a bacterium isolated from marine sediment in the East China Sea and emended description of the genus Pararhodobacter10.1099/ijsem.0.003627IJSEM 69: 3293-3298 2019
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/
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