Strain identifier

BacDive ID: 133625

Type strain: Yes

Species: Paracoccus fistulariae

Strain Designation: 22-May

NCBI tax ID(s): 658446 (species)

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General

@ref: 29821

BacDive-ID: 133625

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

description: Paracoccus fistulariae 22-May is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from bluespotted cornetfish.

NCBI tax id

  • NCBI tax id: 658446
  • Matching level: species

doi: 10.13145/bacdive133625.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Paracoccus
  • species: Paracoccus fistulariae
  • full scientific name: Paracoccus fistulariae Kim et al. 2010

@ref: 29821

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Paracoccus

species: Paracoccus fistulariae

strain designation: 22-May

type strain: yes

Morphology

cell morphology

  • @ref: 29821
  • gram stain: negative
  • cell length: 0.7-2.5 µm
  • cell width: 0.3-0.6 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 61680
  • incubation period: 1 day

pigmentation

  • @ref: 29821
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29821positivegrowth10-40
29821positiveoptimum30mesophilic
61680positivegrowth30mesophilic

culture pH

@refabilitytypepH
29821positivegrowth05-08
29821positiveoptimum07-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29821aerobe
61680aerobe

spore formation

  • @ref: 29821
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29821NaClpositivegrowth0-14 %
29821NaClpositiveoptimum02-05 %

observation

  • @ref: 29821
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2982122599arabinose+carbon source
2982117057cellobiose+carbon source
2982128757fructose+carbon source
2982128260galactose+carbon source
2982117234glucose+carbon source
2982117716lactose+carbon source
2982117306maltose+carbon source
2982137684mannose+carbon source
2982128053melibiose+carbon source
2982126546rhamnose+carbon source
2982133942ribose+carbon source
2982117814salicin+carbon source
2982117992sucrose+carbon source
2982127082trehalose+carbon source
2982118222xylose+carbon source
2982117632nitrate+reduction

enzymes

@refvalueactivityec
29821catalase+1.11.1.6
29821cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
29821bluespotted cornetfish
61680Bluespotted cornetfish,Fistularia commersonii2008South seaRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Fishes

taxonmaps

  • @ref: 69479
  • File name: preview.99_74127.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1884;97_2262;98_51871;99_74127&stattab=map
  • Last taxonomy: Paracoccus fistulariae subclade
  • 16S sequence: GQ260189
  • Sequence Identity:
  • Total samples: 50
  • aquatic counts: 35
  • animal counts: 15

Sequence information

16S sequences

  • @ref: 29821
  • description: Paracoccus sp. 22-5 16S ribosomal RNA gene, partial sequence
  • accession: GQ260189
  • length: 1383
  • database: nuccore
  • NCBI tax ID: 658446

Genome sequences

  • @ref: 66792
  • description: Paracoccus fistulariae KCTC 22803
  • accession: GCA_028553785
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 658446

GC content

  • @ref: 29821
  • GC-content: 63.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno72.714no
flagellatedno88.14yes
gram-positiveno97.443no
anaerobicno98.337no
aerobicyes89.773yes
halophileno65.891no
spore-formingno97.182yes
glucose-fermentno83.884no
thermophileno96.243yes
glucose-utilyes89.636yes

External links

@ref: 29821

culture collection no.: KCTC 22803, CCUG 58401

straininfo link

  • @ref: 91529
  • straininfo: 374141

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20097797Paracoccus fistulariae sp. nov., a lipolytic bacterium isolated from bluespotted cornetfish, Fistularia commersonii.Kim YO, Kong HJ, Park S, Kang SJ, Kim KK, Moon DY, Oh TK, Yoon JHInt J Syst Evol Microbiol10.1099/ijs.0.021808-02010Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Paracoccus/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Smegmamorpha/*microbiology, Ubiquinone/chemistryGenetics
Phylogeny33528347Paracoccus amoyensis sp. nov., isolated from the surface seawater along the coast of Xiamen Island, China.Lyu L, Lai Q, Li J, Yu Z, Shao ZInt J Syst Evol Microbiol10.1099/ijsem.0.0046852021

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
29821Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172619828776041
61680Curators of the CCUGhttps://www.ccug.se/strain?id=58401Culture Collection University of Gothenburg (CCUG) (CCUG 58401)
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
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/
91529Reimer, 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-ID374141.1