Strain identifier

BacDive ID: 140800

Type strain: Yes

Species: Cephaloticoccus primus

Strain Designation: CAG34

NCBI tax ID(s): 1548207 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 43581

BacDive-ID: 140800

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

description: Cephaloticoccus primus CAG34 is an obligate aerobe, Gram-negative, coccus-shaped bacterium that was isolated from the guts of Cephalotes rohweri.

NCBI tax id

  • NCBI tax id: 1548207
  • Matching level: species

doi: 10.13145/bacdive140800.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/verrucomicrobiota
  • domain: Bacteria
  • phylum: Verrucomicrobiota
  • class: Opitutia
  • order: Opitutales
  • family: Opitutaceae
  • genus: Cephaloticoccus
  • species: Cephaloticoccus primus
  • full scientific name: Cephaloticoccus primus Lin et al. 2016

@ref: 43581

domain: Bacteria

phylum: Verrucomicrobia

class: Opitutae

order: Opitutales

family: Opitutaceae

genus: Cephaloticoccus

species: Cephaloticoccus primus

strain designation: CAG34

type strain: yes

Morphology

cell morphology

  • @ref: 43581
  • gram stain: negative
  • cell length: 0.5-0.6 µm
  • cell shape: coccus-shaped
  • motility: no

colony morphology

  • @ref: 43581
  • colony color: Cream
  • medium used: TSA agar

Culture and growth conditions

culture medium

  • @ref: 43581
  • name: Trypticase Soy Agar (TSA)
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43581positivegrowth23-37
43581positiveoptimum37mesophilic

culture pH

@refabilitytypepH
43581positivegrowth6.9-7.7
43581positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43581
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
43581NaClpositivegrowth0.5-1.5 %(w/v)
43581NaClpositiveoptimum1 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4358130089acetate-respiration
4358116947citrate-respiration
4358115570D-alanine-respiration
4358112936D-galactose-respiration
4358116523D-serine-respiration
4358117126DL-carnitine-respiration
4358115740formate-respiration
4358130849L-arabinose-respiration
4358117196L-asparagine-respiration
4358129991L-aspartate-respiration
4358118287L-fucose-respiration
4358129985L-glutamate-respiration
4358115971L-histidine-respiration
4358115603L-leucine-respiration
4358117203L-proline-respiration
435816359lactulose-respiration
4358117272propionate-respiration
4358117151xylitol-respiration
4358136219alpha-lactose+respiration
4358117057cellobiose+respiration
4358118333D-arabitol+respiration
4358115824D-fructose+respiration
4358117634D-glucose+respiration
4358116899D-mannitol+respiration
4358116024D-mannose+respiration
4358127605D-psicose+respiration
4358117924D-sorbitol+respiration
4358124996lactate+respiration
4358117306maltose+respiration
4358128053melibiose+respiration
4358175146monomethyl succinate+respiration
4358116634raffinose+respiration
4358130031succinate+respiration
4358117992sucrose+respiration
4358127082trehalose+respiration
4358132528turanose+respiration

enzymes

@refvalueactivityec
43581alkaline phosphatase+3.1.3.1
43581acid phosphatase+3.1.3.2
43581naphthol-AS-BI-phosphohydrolase+
43581alpha-galactosidase+3.2.1.22
43581beta-galactosidase+3.2.1.23
43581alpha-glucosidase+3.2.1.20
43581N-acetyl-beta-glucosaminidase+3.2.1.52
43581esterase (C 4)-
43581esterase Lipase (C 8)-
43581lipase (C 14)-
43581leucine arylamidase-3.4.11.1
43581valine arylamidase-
43581cystine arylamidase-3.4.11.3
43581trypsin-3.4.21.4
43581alpha-chymotrypsin-3.4.21.1
43581beta-glucuronidase-3.2.1.31
43581beta-glucosidase-3.2.1.21
43581alpha-mannosidase-3.2.1.24
43581alpha-fucosidase-3.2.1.51
43581catalase-1.11.1.6
43581cytochrome oxidase-1.9.3.1
43581urease-3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 43581
  • sample type: the guts of Cephalotes rohweri
  • geographic location: Tuscon, AZ
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract#Stomach

taxonmaps

  • @ref: 69479
  • File name: preview.99_8196.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_382;96_2590;97_4643;98_5963;99_8196&stattab=map
  • Last taxonomy: Cephaloticoccus primus subclade
  • 16S sequence: KM066004
  • Sequence Identity:
  • Total samples: 1232
  • soil counts: 544
  • aquatic counts: 635
  • animal counts: 17
  • plant counts: 36

Sequence information

16S sequences

  • @ref: 43581
  • description: 16S rRNA gene sequence
  • accession: KM066004
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Cephaloticoccus primus CAG34
  • accession: GCA_001580015
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1548207

GC content

  • @ref: 43581
  • GC-content: 60.7

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno97.336no
gram-positiveno97.956yes
anaerobicno96.537yes
aerobicyes54.124no
halophileno85.747yes
spore-formingno98.044no
thermophileno77.085yes
glucose-utilyes88.541yes
motileno92.093yes
glucose-fermentno78.909no

External links

@ref: 43581

culture collection no.: NCIMB 15004, ATCC TSD-38

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27154284Cephaloticoccus gen. nov., a new genus of 'Verrucomicrobia' containing two novel species isolated from Cephalotes ant guts.Lin JY, Russell JA, Sanders JG, Wertz JTInt J Syst Evol Microbiol10.1099/ijsem.0.0011412016Animals, Ants/*microbiology, Arizona, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Florida, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Verrucomicrobia/*classification/genetics/isolation & purificationTranscriptome
Phylogeny30575499Nibricoccus aquaticus gen. nov., sp. nov., a new genus of the family Opitutaceae isolated from hyporheic freshwater.Baek K, Song J, Cho JC, Chung EJ, Choi AInt J Syst Evol Microbiol10.1099/ijsem.0.0031982018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Verrucomicrobia/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43581Jonathan Y. Lin, Jacob A. Russell, Jon G. Sanders, John T. WertzCephaloticoccus gen. nov., a new genus of 'Verrucomicrobia' containing two novel species isolated from Cephalotes ant guts10.1099/ijsem.0.001141IJSEM 66: 3034-3040 201627154284
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/