Strain identifier

BacDive ID: 166088

Type strain: Yes

Species: Arboricoccus pini

Strain Designation: B29T1

Strain history: CIP <- 2014, P. Morais, Coimbra Univ., Coimbra, Portugal, Alysiosphera sp.: strain B29T1

NCBI tax ID(s): 1963835 (species)

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General

@ref: 67772

BacDive-ID: 166088

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, oval-shaped

description: Arboricoccus pini B29T1 is a mesophilic, Gram-negative, motile bacterium that was isolated from Wood of the trunk of Pinus pinaster.

NCBI tax id

  • NCBI tax id: 1963835
  • Matching level: species

strain history

@refhistory
67772Proença D. University of Coimbra
121835CIP <- 2014, P. Morais, Coimbra Univ., Coimbra, Portugal, Alysiosphera sp.: strain B29T1

doi: 10.13145/bacdive166088.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Geminicoccaceae
  • genus: Arboricoccus
  • species: Arboricoccus pini
  • full scientific name: Arboricoccus pini corrig. Proença et al. 2018

  • synonyms

    • @ref: 20215
    • synonym: Arboriscoccus pini

@ref: 67772

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Geminicoccaceae

genus: Arboricoccus

species: Arboricoccus pini

full scientific name: Arboricoccus pini corrig. Proen?a et al. 2018

strain designation: B29T1

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
125439negative95.6
121835negativeoval-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlink
121835CIP Medium 407yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=407
121835CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
67772positiveoptimum26-30
67772positiveminimum15
67772positivemaximum37

culture pH

@refabilitytypepHPH range
67772positiveoptimum6.0-7.0
67772positivemaximum8.5alkaliphile
67772positiveminimum5.5

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: obligate aerobe
  • confidence: 90.6

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 97

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
67772Wood of the trunk of Pinus pinaster2009Coimbra, AvôPortugalPRTEurope40.2833-7.9
121835Plant, Pine treeAvô, Coimbra, PortugalPortugalPRTEurope2009

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
677721
1218351Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67772
  • description: Arboricoccus pini strain B29T1 16S ribosomal RNA gene, partial sequence
  • accession: KY367357
  • length: 1461
  • database: nuccore
  • NCBI tax ID: 1963835

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arboricoccus pini B29T12693429500draftimg1963835
67772Arboricoccus pini B29T1GCA_900187945contigncbi1963835

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidence
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97
125439BacteriaNetmotilityAbility to perform movementyes50.3
125439BacteriaNetgram_stainReaction to gram-stainingnegative95.6
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe90.6

External links

@ref: 67772

culture collection no.: UCCCB43, CIP 110763, LMG 27745

straininfo link

  • @ref: 114753
  • straininfo: 413884

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29325988Arboriscoccus pini gen. nov., sp. nov., an endophyte from a pine tree of the class Alphaproteobacteria, emended description of Geminicoccus roseus, and proposal of Geminicoccaceae fam. nov.Proenca DN, Whitman WB, Varghese N, Shapiro N, Woyke T, Kyrpides NC, Morais PVSyst Appl Microbiol10.1016/j.syapm.2017.11.0062017Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, Pinus/*microbiology, Portugal, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistryEnzymology
Phylogeny36386637Geminicoccus flavidas sp. nov. and Geminicoccus harenae sp. nov., two IAA-producing novel rare bacterial species inhabiting desert biological soil crusts.Jiang ZM, Deng Y, Han XF, Su J, Wang H, Yu LY, Zhang YQFront Microbiol10.3389/fmicb.2022.10348162022

Reference

@idauthorstitledoi/urlcatalogue
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
67772Curators of the UCCCBhttps://ucccb.uc.pt/
114753Reimer, 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-ID413884.1
121835Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110763Collection of Institut Pasteur (CIP 110763)
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG