Strain identifier

BacDive ID: 140857

Type strain: Yes

Species: Celeribacter persicus

Strain Designation: SBU1

NCBI tax ID(s): 1651082 (species)

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General

@ref: 64810

BacDive-ID: 140857

DSM-Number: 100434

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

description: Celeribacter persicus SBU1 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from aerobic surface sediment samples of the mangrove forests at Nayband Bay.

NCBI tax id

  • NCBI tax id: 1651082
  • Matching level: species

doi: 10.13145/bacdive140857.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Celeribacter
  • species: Celeribacter persicus
  • full scientific name: Celeribacter persicus Jami et al. 2016

@ref: 64810

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Celeribacter

species: Celeribacter persicus

full scientific name: Celeribacter persicus Jami et al. 2016

strain designation: SBU1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43671negative0.8-0.9 µm0.4-0.5 µmrod-shapedno
69480negative99.999

colony morphology

  • @ref: 43671
  • colony size: 1 mm
  • colony color: Non-pigmented, creamy
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine Agar 2216

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43671Marine agar (MA)yes
64810BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43671positivegrowth10-45
43671positiveoptimum28mesophilic
64810positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43671positivegrowth5-9alkaliphile
43671positiveoptimum6

Physiology and metabolism

oxygen tolerance

  • @ref: 43671
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
43671no
69481no100
69480no99.996

halophily

@refsaltgrowthtested relationconcentrationhalophily level
43671NaClpositivegrowth0-18 %(w/v)
43671NaClpositiveoptimum3 %(w/v)moderately halophilic

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4367116947citrate-assimilation
4367130849L-arabinose-assimilation
4367126546rhamnose-assimilation
4367130911sorbitol-assimilation
4367128017starch-degradation
4367117634D-glucose+assimilation
4367116899D-mannitol+assimilation
4367116024D-mannose+assimilation
4367125115malate+assimilation
4367117306maltose+assimilation
4367118401phenylacetate+assimilation
4367117632nitrate+reduction
43671309162-oxoglutarate+respiration
43671645522-hydroxybutyrate+respiration
436718295beta-hydroxybutyrate+respiration
4367116899D-mannitol+respiration
4367124996lactate+respiration
4367117754glycerol+respiration
4367175146monomethyl succinate+respiration
43671143136succinamate+respiration
4367130031succinate+respiration
4367117992sucrose+respiration
4367117748thymidine+respiration
4367132528turanose+respiration
4367130089acetate+/-respiration
4367173706bromosuccinate+/-respiration
4367115824D-fructose+/-respiration
4367116024D-mannose+/-respiration
4367129985L-glutamate+/-respiration
4367151850methyl pyruvate+/-respiration
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate+assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol+assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

@refChebi-IDmetaboliteproduction
4367115688acetoinno
6836935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
4367115688acetoin-
6836935581indole-

enzymes

@refvalueactivityec
43671cytochrome oxidase+1.9.3.1
43671catalase+1.11.1.6
43671urease+3.5.1.5
43671alkaline phosphatase+3.1.3.1
43671alpha-glucosidase+3.2.1.20
43671beta-glucosidase+3.2.1.21
43671leucine aminopeptidase+3.4.1.1
43671naphthol-AS-BI-phosphohydrolase+/-
43671beta-galactosidase+/-3.2.1.23
43671esterase (C 4)+/-
43671lipase (C 14)+/-
43671valine aminopeptidase+/-
43671esterase Lipase (C 8)+/-
43671acid phosphatase+/-3.1.3.2
43671cystine aminopeptidase-3.4.11.3
43671alpha-galactosidase-3.2.1.22
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
64810+---++-++-+/-+-+-+-+-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
43671aerobic surface sediment samples of the mangrove forests at Nayband BayNayband Bay, Persian GulfIranIRNAsia27.46452.681
64810aerobic surface sediment of a mangrove forestPersian Gulf, Nayband Bay (27° 27.519' N 52° 40.545' E)IranIRNAsia27.458652.6758

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Forest

taxonmaps

  • @ref: 69479
  • File name: preview.99_72051.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_1423;97_2529;98_3128;99_72051&stattab=map
  • Last taxonomy: Celeribacter persicus
  • 16S sequence: KR349442
  • Sequence Identity:
  • Total samples: 171
  • aquatic counts: 170
  • animal counts: 1

Safety information

risk assessment

  • @ref: 64810
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64810
  • description: Celeribacter persicus strain SBU1 16S ribosomal RNA gene, partial sequence
  • accession: KR349442
  • length: 1453
  • database: ena
  • NCBI tax ID: 1651082

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Celeribacter persicus DSM 100434GCA_003050785scaffoldncbi1651082
66792Celeribacter persicus strain DSM 1004341651082.3wgspatric1651082
66792Celeribacter persicus DSM 1004342734482187draftimg1651082

GC content

@refGC-contentmethod
4367160.4genome sequence analysis
6481060.4sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno79.95yes
gram-positiveno98.236no
anaerobicno95.273yes
halophileyes74.417yes
spore-formingno96.137no
thermophileno97.621yes
glucose-utilyes88.58yes
aerobicyes79.903yes
motileno63.343yes
glucose-fermentno89.506no

External links

@ref: 64810

culture collection no.: MCCC 1A00672, DSM 100434

straininfo link

  • @ref: 96801
  • straininfo: 397038

literature

  • topic: Phylogeny
  • Pubmed-ID: 26867899
  • title: Celeribacter persicus sp. nov., a polycyclic-aromatic-hydrocarbon-degrading bacterium isolated from mangrove soil.
  • authors: Jami M, Lai Q, Ghanbari M, Moghadam MS, Kneifel W, Domig KJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.000961
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Indian Ocean, Iran, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Polycyclic Aromatic Hydrocarbons/*metabolism, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
43671Mansooreh Jami, Qiliang Lai, Mahdi Ghanbari, Mohse,. Shahriari Moghadam, Wolfgang Kneifel, Konrad J. DomigCeleribacter persicus sp. nov., a polycyclic-aromatic-hydrocarbon-degrading bacterium isolated from mangrove soil10.1099/ijsem.0.000961IJSEM 66: 1875-1880 201626867899
64810Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100434Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100434)
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
68369Automatically annotated from API 20NE
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
96801Reimer, 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-ID397038.1