Strain identifier

BacDive ID: 159835

Type strain: Yes

Species: Acuticoccus kandeliae

Strain Designation: J103

NCBI tax ID(s): 2073160 (species)

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General

@ref: 66707

BacDive-ID: 159835

DSM-Number: 104434

keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, ovoid-shaped, colony-forming

description: Acuticoccus kandeliae J103 is a Gram-negative, ovoid-shaped bacterium that forms circular colonies and was isolated from rhizosphere soil of the mangrove plant Kandelia.

NCBI tax id

  • NCBI tax id: 2073160
  • Matching level: species

doi: 10.13145/bacdive159835.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Amorphaceae
  • genus: Acuticoccus
  • species: Acuticoccus kandeliae
  • full scientific name: Acuticoccus kandeliae Yin et al. 2018

@ref: 66707

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Amorphaceae

genus: Acuticoccus

species: Acuticoccus kandeliae

strain designation: J103

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
66707negative1.0-1.5 µmovoid-shapedno
69480negative99.974

colony morphology

  • @ref: 66707
  • colony color: light orange
  • colony shape: circular
  • incubation period: 3-5 days
  • medium used: Marine agar (MA)

Culture and growth conditions

culture medium

@refnamegrowth
66707Marine agar (MA)yes
66707marine brothyes

culture temp

@refgrowthtypetemperaturerange
66707positivegrowth20-30
66707positiveoptimum25-30mesophilic

culture pH

@refabilitytypepHPH range
66707positiveoptimum6
66707positivegrowth6.0-9.0alkaliphile

Physiology and metabolism

spore formation

@refspore formationconfidence
66707no
69480no99.979
69481no100

halophily

@refsaltgrowthtested relationconcentration
66707NaClpositivegrowth0.5-5.0 %(w/v)
66707NaClpositiveoptimum1.0-2.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
667074853esculin-assimilation
667075291gelatin-assimilation
6670716024D-mannose-assimilation
6670716467L-arginine-assimilation
6670716828L-tryptophan-assimilation
6670716899D-mannitol-assimilation
6670717128adipate-assimilation
6670717306maltose-assimilation
6670717634D-glucose-assimilation
6670718401phenylacetate-assimilation
6670725115malate-assimilation
6670727689decanoate-assimilation
6670730849L-arabinose-assimilation
6670732032potassium gluconate-assimilation
6670753258sodium citrate-assimilation
6670759640N-acetylglucosamine-assimilation
6670716199urea+hydrolysis
6670753423tween 40+hydrolysis
6670753425tween 60+hydrolysis
6670763043potassium nitrate+reduction

enzymes

@refvalueactivityec
66707alpha-chymotrypsin-3.4.21.1
66707alpha-fucosidase-3.2.1.51
66707alpha-galactosidase-3.2.1.22
66707alpha-glucosidase-3.2.1.20
66707alpha-mannosidase-3.2.1.24
66707beta-galactosidase-3.2.1.23
66707beta-glucosidase-3.2.1.21
66707beta-glucuronidase-3.2.1.31
66707cystine arylamidase-3.4.11.3
66707lipase (C 14)-
66707N-acetyl-beta-glucosaminidase-3.2.1.52
66707valine arylamidase-
66707acid phosphatase+3.1.3.2
66707alkaline phosphatase+3.1.3.1
66707catalase+1.11.1.6
66707esterase (C 4)+
66707esterase Lipase (C 8)+
66707leucine arylamidase+3.4.11.1
66707naphthol-AS-BI-phosphohydrolase+
66707trypsin+3.4.21.4

Isolation, sampling and environmental information

isolation

  • @ref: 66707
  • sample type: rhizosphere soil of the mangrove plant Kandelia
  • host species: Kandelia candel
  • sampling date: 2015-10-10
  • geographic location: Mai Po Inner Deep Bay Ramsar Site
  • country: Hong Kong
  • origin.country: HKG
  • continent: Asia
  • latitude: 22.8464
  • longitude: 114.036
  • enrichment culture: marine agar 2216
  • isolation procedure: isolated by using a conventional dilution-plating technique on marine agar 2216.

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Host Body-Site#Plant#Rhizosphere
#Host#Plants#Shrub (Scrub)
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

  • @ref: 66707
  • description: Acuticoccus sp. strain J103 16S ribosomal RNA gene, partial sequence
  • accession: KY038377
  • length: 1430
  • database: ena
  • NCBI tax ID: 2073160

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acuticoccus kandeliae J103GCA_003073115contigncbi2073160
66792Acuticoccus sp. J1032073160.3wgspatric2073160
66792Acuticoccus kandeliae J1032832851782draftimg2073160

GC content

  • @ref: 66707
  • GC-content: 68.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes53.494yes
gram-positiveno97.078no
anaerobicno98.228no
aerobicyes94.859no
halophileno79.796no
spore-formingno95.662yes
glucose-utilyes82.012yes
flagellatedno88.201no
thermophileno98.213no
glucose-fermentno90.237no

External links

@ref: 66707

culture collection no.: DSM 104434, MCCC 1K03288

literature

  • topic: Phylogeny
  • Pubmed-ID: 30141770
  • title: Acuticoccus kandeliae sp. nov., isolated from rhizosphere soil of the mangrove plant Kandelia, and emended description of Acuticoccus yangtzensis.
  • authors: Yin Q, Liang J, Zhang L, Ma K, Hu ZL, Zhang Y, Xu Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002990
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hong Kong, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizophoraceae/*microbiology, *Rhizosphere, Rhodobacteraceae/*classification/genetics/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/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
66707Qi Yin, Jinyou Liang, Lv Zhang, Ke Ma, Zhang-Li Hu, Yu Zhang, Ying XuAcuticoccus kandeliae sp. nov., isolated from rhizosphere soil of the mangrove plant Kandelia, and emended description of Acuticoccus yangtzensis10.1099/ijsem.0.002990IJSEM 68: 3316-3321 201830141770
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1