Strain identifier

BacDive ID: 13656

Type strain: Yes

Species: Cereibacter changlensis

Strain Designation: JA139

Strain history: Ch. Sasikala JA139.

NCBI tax ID(s): 402884 (species)

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General

@ref: 7691

BacDive-ID: 13656

DSM-Number: 18774

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

description: Cereibacter changlensis JA139 is an anaerobe, Gram-negative, rod-shaped bacterium that was isolated from photoheterotrophic enrichments of a snow sample .

NCBI tax id

  • NCBI tax id: 402884
  • Matching level: species

strain history

@refhistory
7691<- C. Sasikala, Bacterial Discovery Lab., Centre Environment, Inst. Sci. and Technol., J. N. T. Univ., Hyderabad, India; JA139 <- P. A. Kumar
67770Ch. Sasikala JA139.

doi: 10.13145/bacdive13656.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Paracoccaceae
  • genus: Cereibacter
  • species: Cereibacter changlensis
  • full scientific name: Cereibacter changlensis (Anil Kumar et al. 2007) Suresh et al. 2015

  • synonyms

    @refsynonym
    20215Rhodobacter changlensis
    20215Gemmobacter changlensis
    20215Catellibacterium changlense

@ref: 7691

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Cereibacter

species: Cereibacter changlensis

full scientific name: Gemmobacter changlensis (Anil Kumar et al. 2007) Chen et al. 2013

strain designation: JA139

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilitycell lengthcell widthconfidence
30689negativerod-shapedno
32200negativeovoid-shapedno3 µm0.9 µm
69480negative99.997

pigmentation

@refproduction
32200yes
30689yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
32200positivegrowth05-32
30689positivegrowth10-37
32200positiveoptimum29mesophilic
30689positiveoptimum30mesophilic
59989positivegrowth30mesophilic
59989positivegrowth25-30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30689positivegrowth06-09alkaliphile
32200positivegrowth6.5-9.0
32200positiveoptimum7
30689positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7691anaerobe
32200facultative anaerobe
30689facultative anaerobe
59989aerobe
59989anaerobe

spore formation

@refspore formationconfidence
30689no
69480no99.993

halophily

@refsaltgrowthtested relationconcentration
30689NaClpositivegrowth0-6 %
32200NaClpositiveoptimum0.1 %
30689NaClpositiveoptimum0.5 %

observation

  • @ref: 32200
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3068922599arabinose+carbon source
3068924265gluconate+carbon source
3068917234glucose+carbon source
3068925115malate+carbon source
3068917306maltose+carbon source
3068929864mannitol+carbon source
3068937684mannose+carbon source
30689506227N-acetylglucosamine+carbon source
3068953425tween 60+carbon source
3220017234glucose+carbon source
3220029987glutamate+carbon source
3220029864mannitol+carbon source
3220015361pyruvate+carbon source
3220030911sorbitol+carbon source
3220030031succinate+carbon source
306894853esculin+hydrolysis

enzymes

@refvalueactivityec
30689alkaline phosphatase+3.1.3.1
30689alpha-galactosidase+3.2.1.22

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
7691photoheterotrophic enrichments of a snow sample (purple mat on ice)Himalayas, Changla PassIndiaINDAsia
59989Snow,enrichment cultureLadakh,Changla pass of HimalayasIndiaINDAsia2006-08-08
67770Snow sample from Changla Pass in the Indian Himalayas

isolation source categories

Cat1Cat2Cat3
#Engineered#Laboratory#Lab enrichment
#Environmental#Aquatic#Ice
#Environmental#Microbial community#Microbial mat

taxonmaps

  • @ref: 69479
  • File name: preview.99_39314.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_926;97_4440;98_28775;99_39314&stattab=map
  • Last taxonomy: Gemmobacter
  • 16S sequence: AM399030
  • Sequence Identity:
  • Total samples: 404
  • soil counts: 83
  • aquatic counts: 194
  • animal counts: 74
  • plant counts: 53

Safety information

risk assessment

  • @ref: 7691
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7691
  • description: Rhodobacter changlensis 16S rRNA gene, type strain JA139T
  • accession: AM399030
  • length: 1380
  • database: ena
  • NCBI tax ID: 1188249

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cereibacter changlensis JA1391188249.3wgspatric1188249
66792Cereibacter changlensis strain DSM 18774402884.4wgspatric402884
66792Cereibacter changlensis DSM 187742593339283draftimg402884
67770Cereibacter changlensis JA139GCA_003034985contigncbi1188249
67770Cereibacter changlensis DSM 18774GCA_003254335scaffoldncbi402884

GC content

@refGC-contentmethod
769169.4high performance liquid chromatography (HPLC)
3220069.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno82no
motileyes60.899no
gram-positiveno98.816yes
anaerobicno82.828no
aerobicyes63.01no
halophileno91.331yes
spore-formingno95.024no
flagellatedno83.373yes
glucose-utilyes89.392yes
thermophileno99.226yes
glucose-fermentno88.919no

External links

@ref: 7691

culture collection no.: DSM 18774, CCUG 53722, JCM 14338, BCRC 80280, KCTC 5728

straininfo link

  • @ref: 82839
  • straininfo: 319392

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17978219Rhodobacter changlensis sp. nov., a psychrotolerant, phototrophic alphaproteobacterium from the Himalayas of India.Anil Kumar P, Srinivas TNR, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijs.0.65110-02007Alphaproteobacteria/classification/genetics/growth & development/physiology, Bacterial Typing Techniques, *Cold Temperature, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, India, Molecular Sequence Data, Phenotype, *Phototrophic Processes, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/growth & development/physiology, Sequence Analysis, DNA, Snow/*microbiology, Species SpecificityGenetics
Phylogeny20833880Description of Catellibacterium caeni sp. nov., reclassification of Rhodobacter changlensis Anil Kumar et al. 2007 as Catellibacterium changlense comb. nov. and emended description of the genus Catellibacterium.Zheng JW, Chen YG, Zhang J, Ni YY, Li WJ, He J, Li SPInt J Syst Evol Microbiol10.1099/ijs.0.025494-02010DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacter/*classification/genetics/*isolation & purification/metabolism, Rhodobacteraceae/*classification/genetics/*isolation & purification/metabolismMetabolism
Phylogeny22493172Description of Gemmobacter fontiphilus sp. nov., isolated from a freshwater spring, reclassification of Catellibacterium nectariphilum as Gemmobacter nectariphilus comb. nov., Catellibacterium changlense as Gemmobacter changlensis comb. nov., Catellibacterium aquatile as Gemmobacter aquaticus nom. nov., Catellibacterium caeni as Gemmobacter caeni comb. nov., Catellibacterium nanjingense as Gemmobacter nanjingensis comb. nov., and emended description of the genus Gemmobacter and of Gemmobacter aquatilis.Chen WM, Cho NT, Huang WC, Young CC, Sheu SYInt J Syst Evol Microbiol10.1099/ijs.0.042051-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Hydrogen-Ion Concentration, Molecular Sequence Data, Natural Springs/*microbiology, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, TaiwanGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7691Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18774)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18774
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30689Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2702028776041
32200Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2844228776041
59989Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53722)https://www.ccug.se/strain?id=53722
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
82839Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID319392.1StrainInfo: A central database for resolving microbial strain identifiers