Strain identifier

BacDive ID: 133318

Type strain: Yes

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)

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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

@refnamegrowth
25140NA (Nutrient Agar)yes
25140Trypticase Soy Agar (TSA)yes
25140Reasoner's 2A agar (R2A)yes

culture temp

@refgrowthtypetemperaturerange
25140positivegrowth15-37
25140positiveoptimum30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
25140positivegrowth7.0-9.0alkaliphile
25140positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 25140
  • oxygen tolerance: aerobe

halophily

@refsalttested relationconcentrationgrowth
25140NaCloptimum0 %
25140NaClgrowth0-2 %(w/v)positive

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2514016899D-mannitol-assimilation
25140286442-oxopentanoate+carbon source
2514030089acetate+carbon source
2514015963ribitol+carbon source
2514040585alpha-cyclodextrin+carbon source
2514017925alpha-D-glucose+carbon source
2514036219alpha-lactose+carbon source
2514017057cellobiose+carbon source
2514015824D-fructose+carbon source
2514012936D-galactose+carbon source
2514018391D-gluconate+carbon source
2514017784D-glucosaminic acid+carbon source
2514017634D-glucose+assimilation
2514014314D-glucose 6-phosphate+carbon source
2514016899D-mannitol+carbon source
2514016024D-mannose+carbon source
2514016024D-mannose+assimilation
2514023652dextrin+carbon source
251404853esculin+hydrolysis
251405291gelatin+hydrolysis
2514028066gentiobiose+carbon source
2514029042glucose 1-phosphate+carbon source
2514032323glucuronamide+carbon source
2514017754glycerol+carbon source
2514014336glycerol 1-phosphate+carbon source
2514024741hydroxyproline+carbon source
2514030849L-arabinose+carbon source
2514030849L-arabinose+assimilation
2514017196L-asparagine+carbon source
2514029991L-aspartate+carbon source
2514029985L-glutamate+carbon source
2514017203L-proline+carbon source
2514017115L-serine+carbon source
2514016857L-threonine+carbon source
2514024996lactate+carbon source
251406359lactulose+carbon source
2514017306maltose+carbon source
2514017306maltose+assimilation
2514028053melibiose+carbon source
25140320055methyl beta-D-glucopyranoside+carbon source
2514075146monomethyl succinate+carbon source
2514028037N-acetylgalactosamine+carbon source
25140506227N-acetylglucosamine+carbon source
25140506227N-acetylglucosamine+assimilation
2514017632nitrate+reduction
2514016634raffinose+carbon source
2514017992sucrose+carbon source
2514027082trehalose+carbon source
2514032528turanose+carbon source

enzymes

@refvalueactivityec
25140acid phosphatase+3.1.3.2
25140alkaline phosphatase+3.1.3.1
25140alpha-chymotrypsin+3.4.21.1
25140alpha-galactosidase+3.2.1.22
25140alpha-glucosidase+3.2.1.20
25140alpha-mannosidase+3.2.1.24
25140beta-galactosidase-3.2.1.23
25140beta-glucosidase+3.2.1.21
25140cystine arylamidase+3.4.11.3
25140esterase (C 4)+
25140esterase Lipase (C 8)+
25140leucine arylamidase+3.4.11.1
25140N-acetyl-beta-glucosaminidase+3.2.1.52
25140naphthol-AS-BI-phosphohydrolase+
25140trypsin+3.4.21.4
25140valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    2514010-Methyl C16:0 / iso-C17:1ω9c2.8
    25140C15:1ω5c3.6
    25140C16:02.7
    25140C16:0 2OH1.9
    25140C16:1ω6c / C16:1ω7c35
    25140C15:0 iso27.7
    25140C15:0 iso 3OH3
    25140C17:0 iso 3OH15.1
  • 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

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
25140a compost sample collected at a greenhouse affiliated to National Chung Hsing UniversityTaichung, TaiwanTaiwanTWNAsia24121
67770Compost collected at a greenhouse

isolation source categories

Cat1Cat2Cat3
#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

@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
25140S. 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 greenhouse10.1099/ijsem.0.001593IJSEM 67: 148-152 201728211312
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/