Strain identifier
BacDive ID: 140800
Type strain:
Species: Cephaloticoccus primus
Strain Designation: CAG34
NCBI tax ID(s): 1548207 (species)
version 8.1 (current version)
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
43581 | positive | growth | 23-37 | |
43581 | positive | optimum | 37 | mesophilic |
culture pH
@ref | ability | type | pH |
---|---|---|---|
43581 | positive | growth | 6.9-7.7 |
43581 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 43581
- oxygen tolerance: obligate aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
43581 | NaCl | positive | growth | 0.5-1.5 %(w/v) |
43581 | NaCl | positive | optimum | 1 %(w/v) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
43581 | 30089 | acetate | - | respiration |
43581 | 16947 | citrate | - | respiration |
43581 | 15570 | D-alanine | - | respiration |
43581 | 12936 | D-galactose | - | respiration |
43581 | 16523 | D-serine | - | respiration |
43581 | 17126 | DL-carnitine | - | respiration |
43581 | 15740 | formate | - | respiration |
43581 | 30849 | L-arabinose | - | respiration |
43581 | 17196 | L-asparagine | - | respiration |
43581 | 29991 | L-aspartate | - | respiration |
43581 | 18287 | L-fucose | - | respiration |
43581 | 29985 | L-glutamate | - | respiration |
43581 | 15971 | L-histidine | - | respiration |
43581 | 15603 | L-leucine | - | respiration |
43581 | 17203 | L-proline | - | respiration |
43581 | 6359 | lactulose | - | respiration |
43581 | 17272 | propionate | - | respiration |
43581 | 17151 | xylitol | - | respiration |
43581 | 36219 | alpha-lactose | + | respiration |
43581 | 17057 | cellobiose | + | respiration |
43581 | 18333 | D-arabitol | + | respiration |
43581 | 15824 | D-fructose | + | respiration |
43581 | 17634 | D-glucose | + | respiration |
43581 | 16899 | D-mannitol | + | respiration |
43581 | 16024 | D-mannose | + | respiration |
43581 | 27605 | D-psicose | + | respiration |
43581 | 17924 | D-sorbitol | + | respiration |
43581 | 24996 | lactate | + | respiration |
43581 | 17306 | maltose | + | respiration |
43581 | 28053 | melibiose | + | respiration |
43581 | 75146 | monomethyl succinate | + | respiration |
43581 | 16634 | raffinose | + | respiration |
43581 | 30031 | succinate | + | respiration |
43581 | 17992 | sucrose | + | respiration |
43581 | 27082 | trehalose | + | respiration |
43581 | 32528 | turanose | + | respiration |
enzymes
@ref | value | activity | ec |
---|---|---|---|
43581 | alkaline phosphatase | + | 3.1.3.1 |
43581 | acid phosphatase | + | 3.1.3.2 |
43581 | naphthol-AS-BI-phosphohydrolase | + | |
43581 | alpha-galactosidase | + | 3.2.1.22 |
43581 | beta-galactosidase | + | 3.2.1.23 |
43581 | alpha-glucosidase | + | 3.2.1.20 |
43581 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
43581 | esterase (C 4) | - | |
43581 | esterase Lipase (C 8) | - | |
43581 | lipase (C 14) | - | |
43581 | leucine arylamidase | - | 3.4.11.1 |
43581 | valine arylamidase | - | |
43581 | cystine arylamidase | - | 3.4.11.3 |
43581 | trypsin | - | 3.4.21.4 |
43581 | alpha-chymotrypsin | - | 3.4.21.1 |
43581 | beta-glucuronidase | - | 3.2.1.31 |
43581 | beta-glucosidase | - | 3.2.1.21 |
43581 | alpha-mannosidase | - | 3.2.1.24 |
43581 | alpha-fucosidase | - | 3.2.1.51 |
43581 | catalase | - | 1.11.1.6 |
43581 | cytochrome oxidase | - | 1.9.3.1 |
43581 | urease | - | 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
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 97.336 | no |
gram-positive | no | 97.956 | yes |
anaerobic | no | 96.537 | yes |
aerobic | yes | 54.124 | no |
halophile | no | 85.747 | yes |
spore-forming | no | 98.044 | no |
thermophile | no | 77.085 | yes |
glucose-util | yes | 88.541 | yes |
motile | no | 92.093 | yes |
glucose-ferment | no | 78.909 | no |
External links
@ref: 43581
culture collection no.: NCIMB 15004, ATCC TSD-38
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 27154284 | Cephaloticoccus gen. nov., a new genus of 'Verrucomicrobia' containing two novel species isolated from Cephalotes ant guts. | Lin JY, Russell JA, Sanders JG, Wertz JT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001141 | 2016 | Animals, 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 & purification | Transcriptome |
Phylogeny | 30575499 | Nibricoccus 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 A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003198 | 2018 | Bacterial 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/chemistry | Transcriptome |
Reference
@id | authors | title | doi/url | journal | pubmed |
---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | ||
43581 | Jonathan Y. Lin, Jacob A. Russell, Jon G. Sanders, John T. Wertz | Cephaloticoccus gen. nov., a new genus of 'Verrucomicrobia' containing two novel species isolated from Cephalotes ant guts | 10.1099/ijsem.0.001141 | IJSEM 66: 3034-3040 2016 | 27154284 |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||
69479 | João 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 beta | https://microbeatlas.org/ |