Strain identifier
BacDive ID: 133318
Type strain:
Species: Olivibacter composti
Strain Designation: CC-KYC063
Strain history: C.-C. Young; Natl. Chung Hsing Univ., Taiwan; CC-KYC063.
NCBI tax ID(s): 1854764 (species)
General
@ref: 25140
BacDive-ID: 133318
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped, colony-forming
description: Olivibacter composti CC-KYC063 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from a compost sample collected at a greenhouse affiliated to National Chung Hsing University.
NCBI tax id
- NCBI tax id: 1854764
- Matching level: species
strain history
- @ref: 67770
- history: C.-C. Young; Natl. Chung Hsing Univ., Taiwan; CC-KYC063.
doi: 10.13145/bacdive133318.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Sphingobacteriia
- order: Sphingobacteriales
- family: Sphingobacteriaceae
- genus: Olivibacter
- species: Olivibacter composti
- full scientific name: Olivibacter composti Lin et al. 2017
@ref: 25140
domain: Bacteria
phylum: Bacteroidetes
class: Sphingobacteriia
order: Sphingobacteriales
family: Sphingobacteriaceae
genus: Olivibacter
species: Olivibacter composti
strain designation: CC-KYC063
type strain: yes
Morphology
cell morphology
- @ref: 25140
- gram stain: negative
- cell length: 0.8-1.0 µm
- cell width: 0.5-0.6 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 25140
- colony size: 1-2 mm
- colony color: yellowish
- colony shape: circular
- incubation period: 2 days
- medium used: NA (Nutrient Agar)
Culture and growth conditions
culture medium
@ref | name | growth |
---|---|---|
25140 | NA (Nutrient Agar) | yes |
25140 | Trypticase Soy Agar (TSA) | yes |
25140 | Reasoner's 2A agar (R2A) | yes |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
25140 | positive | growth | 15-37 | |
25140 | positive | optimum | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
25140 | positive | growth | 7.0-9.0 | alkaliphile |
25140 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 25140
- oxygen tolerance: aerobe
halophily
@ref | salt | tested relation | concentration | growth |
---|---|---|---|---|
25140 | NaCl | optimum | 0 % | |
25140 | NaCl | growth | 0-2 %(w/v) | positive |
observation
- @ref: 67770
- observation: quinones: MK-7
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
25140 | 16899 | D-mannitol | - | assimilation |
25140 | 28644 | 2-oxopentanoate | + | carbon source |
25140 | 30089 | acetate | + | carbon source |
25140 | 15963 | ribitol | + | carbon source |
25140 | 40585 | alpha-cyclodextrin | + | carbon source |
25140 | 17925 | alpha-D-glucose | + | carbon source |
25140 | 36219 | alpha-lactose | + | carbon source |
25140 | 17057 | cellobiose | + | carbon source |
25140 | 15824 | D-fructose | + | carbon source |
25140 | 12936 | D-galactose | + | carbon source |
25140 | 18391 | D-gluconate | + | carbon source |
25140 | 17784 | D-glucosaminic acid | + | carbon source |
25140 | 17634 | D-glucose | + | assimilation |
25140 | 14314 | D-glucose 6-phosphate | + | carbon source |
25140 | 16899 | D-mannitol | + | carbon source |
25140 | 16024 | D-mannose | + | carbon source |
25140 | 16024 | D-mannose | + | assimilation |
25140 | 23652 | dextrin | + | carbon source |
25140 | 4853 | esculin | + | hydrolysis |
25140 | 5291 | gelatin | + | hydrolysis |
25140 | 28066 | gentiobiose | + | carbon source |
25140 | 29042 | glucose 1-phosphate | + | carbon source |
25140 | 32323 | glucuronamide | + | carbon source |
25140 | 17754 | glycerol | + | carbon source |
25140 | 14336 | glycerol 1-phosphate | + | carbon source |
25140 | 24741 | hydroxyproline | + | carbon source |
25140 | 30849 | L-arabinose | + | carbon source |
25140 | 30849 | L-arabinose | + | assimilation |
25140 | 17196 | L-asparagine | + | carbon source |
25140 | 29991 | L-aspartate | + | carbon source |
25140 | 29985 | L-glutamate | + | carbon source |
25140 | 17203 | L-proline | + | carbon source |
25140 | 17115 | L-serine | + | carbon source |
25140 | 16857 | L-threonine | + | carbon source |
25140 | 24996 | lactate | + | carbon source |
25140 | 6359 | lactulose | + | carbon source |
25140 | 17306 | maltose | + | carbon source |
25140 | 17306 | maltose | + | assimilation |
25140 | 28053 | melibiose | + | carbon source |
25140 | 320055 | methyl beta-D-glucopyranoside | + | carbon source |
25140 | 75146 | monomethyl succinate | + | carbon source |
25140 | 28037 | N-acetylgalactosamine | + | carbon source |
25140 | 506227 | N-acetylglucosamine | + | carbon source |
25140 | 506227 | N-acetylglucosamine | + | assimilation |
25140 | 17632 | nitrate | + | reduction |
25140 | 16634 | raffinose | + | carbon source |
25140 | 17992 | sucrose | + | carbon source |
25140 | 27082 | trehalose | + | carbon source |
25140 | 32528 | turanose | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
25140 | acid phosphatase | + | 3.1.3.2 |
25140 | alkaline phosphatase | + | 3.1.3.1 |
25140 | alpha-chymotrypsin | + | 3.4.21.1 |
25140 | alpha-galactosidase | + | 3.2.1.22 |
25140 | alpha-glucosidase | + | 3.2.1.20 |
25140 | alpha-mannosidase | + | 3.2.1.24 |
25140 | beta-galactosidase | - | 3.2.1.23 |
25140 | beta-glucosidase | + | 3.2.1.21 |
25140 | cystine arylamidase | + | 3.4.11.3 |
25140 | esterase (C 4) | + | |
25140 | esterase Lipase (C 8) | + | |
25140 | leucine arylamidase | + | 3.4.11.1 |
25140 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
25140 | naphthol-AS-BI-phosphohydrolase | + | |
25140 | trypsin | + | 3.4.21.4 |
25140 | valine arylamidase | + |
fatty acid profile
fatty acids
@ref fatty acid percentage 25140 10-Methyl C16:0 / iso-C17:1ω9c 2.8 25140 C15:1ω5c 3.6 25140 C16:0 2.7 25140 C16:0 2OH 1.9 25140 C16:1ω6c / C16:1ω7c 35 25140 C15:0 iso 27.7 25140 C15:0 iso 3OH 3 25140 C17:0 iso 3OH 15.1 - type of FA analysis: whole cell analysis
- incubation medium: Nutrient agar (NA)
- agar/liquid: agar
- incubation time: 2
- software version: Sherlock 6.0
- library/peak naming table: RTSBA 6
- system: MIS MIDI
- method/protocol: Sasser 1990
- cutoff value:
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
25140 | a compost sample collected at a greenhouse affiliated to National Chung Hsing University | Taichung, Taiwan | Taiwan | TWN | Asia | 24 | 121 |
67770 | Compost collected at a greenhouse |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Agriculture | #Greenhouse |
#Engineered | #Biodegradation | #Composting |
Sequence information
16S sequences
- @ref: 25140
- description: 16S rRNA gene sequence
- accession: KU358715
- length: 1465
- database: ena
- NCBI tax ID: 1854764
GC content
- @ref: 25140
- GC-content: 43
- method: high performance liquid chromatography (HPLC)
External links
@ref: 25140
culture collection no.: BCRC 80939, JCM 31198
literature
- topic: Phylogeny
- Pubmed-ID: 28211312
- title: Olivibacter composti sp. nov., isolated from compost collected at a greenhouse.
- authors: Lin SY, Hameed A, Chiu KY, Liu YC, Hsu YH, Lai WA, Young CC
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001593
- year: 2017
- mesh: Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Taiwan, Vitamin K 2/analogs & derivatives/chemistry
- topic2: 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 | ||
25140 | S. Y. H. Lin, A.,Chiu, K. Y.,Liu, Y. C.,Hsu, Y. H.,Lai, W. A.,Young, C. C. | Olivibacter composti sp. nov., isolated from compost collected at a greenhouse | 10.1099/ijsem.0.001593 | IJSEM 67: 148-152 2017 | 28211312 |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ |