Strain identifier

BacDive ID: 134339

Type strain: Yes

Species: Rhodobacter maris

Strain Designation: JA276

Strain history: Ch. Sasikala JA276.

NCBI tax ID(s): 446682 (species)

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General

@ref: 32530

BacDive-ID: 134339

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, ovoid-shaped

description: Rhodobacter maris JA276 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 446682
  • Matching level: species

strain history

  • @ref: 67770
  • history: Ch. Sasikala JA276.

doi: 10.13145/bacdive134339.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Rhodobacter
  • species: Rhodobacter maris
  • full scientific name: Rhodobacter maris Venkata Ramana et al. 2008

@ref: 32530

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Rhodobacter

species: Rhodobacter maris

strain designation: JA276

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32530negative1-1.5 µm0.6-1 µmovoid-shapedno
69480negative99.995

pigmentation

  • @ref: 32530
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
32530positivegrowth25-35mesophilic
32530positiveoptimum30mesophilic
60470positivegrowth30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepH
32530positivegrowth06-08
32530positiveoptimum6.5-7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
32530facultative anaerobe
60470aerobe

spore formation

@refspore formationconfidence
32530no
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
32530NaClpositivegrowth0-3 %
32530NaClpositiveoptimum0-3 %

observation

  • @ref: 32530
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3253030089acetate+carbon source
3253017754glycerol+carbon source
3253024996lactate+carbon source
3253025115malate+carbon source
3253015361pyruvate+carbon source
3253031011valerate+carbon source

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
32530marine sediment
60470Mud from fishing area,sea shore2006-12-28Cochin,KeralaIndiaINDAsia
67770Samples of a sediment collected from the seashore of CochinKerala StateIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_40263.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1054;97_1659;98_29398;99_40263&stattab=map
  • Last taxonomy: Rhodobacter maris subclade
  • 16S sequence: AM745438
  • Sequence Identity:
  • Total samples: 379
  • soil counts: 16
  • aquatic counts: 311
  • animal counts: 37
  • plant counts: 15

Sequence information

16S sequences

  • @ref: 32530
  • description: Rhodobacter maris partial 16S rRNA gene, type strain JA276
  • accession: AM745438
  • length: 1377
  • database: nuccore
  • NCBI tax ID: 446682

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rhodobacter maris JA276GCA_900217815scaffoldncbi446682
66792Rhodobacter maris JA2762739368070draftimg446682

GC content

@refGC-contentmethod
3253062.85
6777062.85high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno81.053yes
gram-positiveno98.839yes
anaerobicno82.626yes
aerobicno93.328no
halophileno86.311no
spore-formingno95.439yes
thermophileno94.748no
glucose-utilyes79.748no
motileyes55.734yes
glucose-fermentno87.764no

External links

@ref: 32530

culture collection no.: JCM 14794, ATCC BAA 1549, CCUG 55129

straininfo link

  • @ref: 91903
  • straininfo: 410440

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18599723Rhodobacter maris sp. nov., a phototrophic alphaproteobacterium isolated from a marine habitat of India.Venkata Ramana V, Sasikala Ch, Ramana ChVInt J Syst Evol Microbiol10.1099/ijs.0.65638-02008*Ecosystem, India, Marine Biology, Molecular Sequence Data, Oceans and Seas, *Phototrophic Processes, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/*isolation & purification/physiology, Seawater/*microbiology, Species SpecificityGenetics
Phylogeny22389279Rhodobacter viridis sp. nov., a phototrophic bacterium isolated from mud of a stream.Raj PS, Ramaprasad EVV, Vaseef S, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijs.0.038471-02012Bacterial Typing Techniques, Bacteriochlorophyll A/analysis, Carotenoids/analysis, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/microbiology, India, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/isolation & purification, Rivers/*microbiology, Sequence Analysis, DNA, *Water MicrobiologyGenetics
Phylogeny24135316Paenirhodobacter enshiensis gen. nov., sp. nov., a non-photosynthetic bacterium isolated from soil, and emended descriptions of the genera Rhodobacter and Haematobacter.Wang D, Liu H, Zheng S, Wang GInt J Syst Evol Microbiol10.1099/ijs.0.050351-02013Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/classification, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny28829020Description of Rhodobacter azollae sp. nov. and Rhodobacter lacus sp. nov.Suresh G, Sailaja B, Ashif A, Dave BP, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijsem.0.0021072017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/isolation & purification, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNAEnzymology

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcataloguejournal
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
32530Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172874828776041
60470Curators of the CCUGhttps://www.ccug.se/strain?id=55129Culture Collection University of Gothenburg (CCUG) (CCUG 55129)
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
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
91903Reimer, 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-ID410440.1