Strain identifier

BacDive ID: 140538

Type strain: Yes

Species: Bombella apis

Strain history: <- Jin-Woo Bae, Kyung Hee Univ.

NCBI tax ID(s): 1785988 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 8.1 (current version)

General

@ref: 43324

BacDive-ID: 140538

keywords: 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Bombella apis JCM 31623 is an obligate aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from midgut of the honey bee in South Korea.

NCBI tax id

  • NCBI tax id: 1785988
  • Matching level: species

strain history

@refhistory
67770J.-W. Bae; Dept. of Biol., Kyung Hee Univ., South Korea; MRM1.
67771<- Jin-Woo Bae, Kyung Hee Univ.

doi: 10.13145/bacdive140538.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Bombella
  • species: Bombella apis
  • full scientific name: Bombella apis Yun et al. 2017

@ref: 43324

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Acetobacteraceae

genus: Bombella

species: Bombella apis

type strain: yes

Morphology

cell morphology

  • @ref: 43324
  • gram stain: negative
  • cell length: 1.0-2.5 µm
  • cell width: 0.5-0.6 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43324
  • colony color: creamy beige
  • colony shape: circular
  • medium used: MRS agar

Culture and growth conditions

culture medium

@refnamegrowth
43324LB (Luria-Bertani) MEDIUMno
43324Tryptic soy agarno
43324MRS agaryes
43324Mannitol agaryes
433240,35% acetic acid agaryes

culture temp

@refgrowthtypetemperaturerange
43324positiveoptimum30-37mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30-37mesophilic

culture pH

  • @ref: 43324
  • ability: positive
  • type: optimum
  • pH: 7-8.5
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43324obligate aerobe
67771aerobe

spore formation

  • @ref: 43324
  • spore formation: no

halophily

  • @ref: 43324
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %(w/v)

observation

@refobservation
43324growth in the presence of 30% (w/v) glucose
43324ubiquinone Q-10
67770quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4332428938ammonium-growth
43324ammonium-nitrogen source
4332416236ethanol-oxidation
4332417790methanol-carbon source
4332430089acetate+/-oxidation
4332424996lactate-oxidation
4332415824D-fructose+builds acid from
4332428053melibiose+builds acid from
4332417992sucrose+builds acid from
4332417754glycerol+builds acid from
4332417108D-arabinose-builds acid from
4332416634raffinose-builds acid from
4332416899D-mannitol-builds acid from
4332417924D-sorbitol-builds acid from
4332416236ethanol-builds acid from
4332430849L-arabinose+builds acid from
4332465327D-xylose+builds acid from
4332412936D-galactose+builds acid from
4332417634D-glucose+builds acid from
4332416024D-mannose+builds acid from
4332428066gentiobiose+builds acid from
4332428847D-fucose+builds acid from
43324581435-dehydro-D-gluconate+builds acid from
4332415824D-fructose+carbon source
4332417925alpha-D-glucose+carbon source
4332417203L-proline+carbon source
4332415824D-fructose+energy source
4332417925alpha-D-glucose+energy source
4332417203L-proline+energy source

metabolite production

@refChebi-IDmetaboliteproduction
43324168082-dehydro-D-gluconateyes
43324581435-dehydro-D-gluconateyes
4332462968celluloseno

enzymes

@refvalueactivityec
43324catalase+1.11.1.6
43324cytochrome oxidase-1.9.3.1
43324alkaline phosphatase+3.1.3.1
43324esterase (C 4)+
43324esterase Lipase (C 8)+
43324leucine arylamidase+3.4.11.1
43324trypsin+3.4.21.4
43324acid phosphatase+3.1.3.2
43324naphthol-AS-BI-phosphohydrolase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43324C14:012.5
    43324C14:0 2OH6.6
    43324C16:022.2
    43324C16:0 2OH3.8
    43324C16:0 3OH2.1
    43324C18:1ω7c15.9
    43324C18:01.2
    43324C19:0 cyclo ω8c33.6
  • type of FA analysis: whole cell analysis
  • incubation medium: MRS
  • agar/liquid: agar
  • incubation temperature: 34
  • incubation time: 2
  • software version: Sherlock 6.2
  • system: MIS MIDI
  • instrument: Agilent gas chromatograph
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment culturehost species
43324midgut of the honey bee (Apis mellifera) in South KoreaSouth KoreaRepublic of KoreaKORAsiaLactobacilli MRS agar
67770Midgut of a honey bee Apis melliferaApis mellifera
67771From Apis mellifera midgutKyung Hee UniversityRepublic of KoreaKORAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 43324
  • description: 16S rRNA gene sequence
  • accession: KU534110
  • database: nuccore

GC content

@refGC-contentmethod
4332459.5Thermal denaturation, fluorometry
6777059.5thermal denaturation, midpoint method (Tm)

External links

@ref: 43324

culture collection no.: JCM 31623, KCTC 52452, MRM 1

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny28671528Bombella apis sp. nov., an acetic acid bacterium isolated from the midgut of a honey bee.Yun JH, Lee JY, Hyun DW, Jung MJ, Bae JWInt J Syst Evol Microbiol10.1099/ijsem.0.0019212017Acetic Acid, Acetobacteraceae/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, Bees/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phosphatidylethanolamines, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Genetics35630502Comparative Genomics of Acetic Acid Bacteria within the Genus Bombella in Light of Beehive Habitat Adaptation.Harer L, Hilgarth M, Ehrmann MAMicroorganisms10.3390/microorganisms100510582022

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
43324Ji-Hyun Yun, June-Young Lee, Dong-Wook Hyun, Mi-Ja Jung, Jin-Woo BaeBombella apis sp. nov., an acetic acid bacterium isolated from the midgut of a honey bee10.1099/ijsem.0.001921IJSEM 67: 2184-2188 201728671528
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc