Strain identifier

BacDive ID: 158776

Type strain: Yes

Species: Methylobacterium frigidaeris

Strain Designation: IER25-16

Strain history: C. O. Jeon; Chung-Ang Univ., South Korea; IER25-16.

NCBI tax ID(s): 2038277 (species)

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General

@ref: 65530

BacDive-ID: 158776

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, methylotroph, Gram-negative, motile, rod-shaped, colony-forming, pigmented

description: Methylobacterium frigidaeris IER25-16 is an obligate aerobe, methylotroph, Gram-negative bacterium that forms circular colonies and has a pink pigmentation.

NCBI tax id

  • NCBI tax id: 2038277
  • Matching level: species

strain history

  • @ref: 67770
  • history: C. O. Jeon; Chung-Ang Univ., South Korea; IER25-16.

doi: 10.13145/bacdive158776.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Methylobacteriaceae
  • genus: Methylobacterium
  • species: Methylobacterium frigidaeris
  • full scientific name: Methylobacterium frigidaeris Lee and Jeon 2018

@ref: 65530

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Hyphomicrobiales

family: Methylobacteriaceae

genus: Methylobacterium

species: Methylobacterium frigidaeris

strain designation: IER25-16

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
65530negative2.1-3.4 µm1.7-1.8 µmrod-shapedyes
69480yes92.822
69480negative99.999

colony morphology

  • @ref: 65530
  • colony size: 0.5 mm
  • colony color: reddish-pink
  • colony shape: circular
  • incubation period: 3 days
  • medium used: R2A

pigmentation

  • @ref: 65530
  • production: yes
  • color: pink

Culture and growth conditions

culture medium

@refnamegrowth
65530Reasoner's 2A agar (R2A)yes
65530Trypticase Soy Agar (TSA)yes
65530Nutrient agar (NA)yes
65530LB (Luria-Bertani) MEDIUMno

culture temp

@refgrowthtypetemperaturerange
65530positivegrowth10-40
65530positiveoptimum30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
65530positivegrowth4.0-7.0acidophile
65530positiveoptimum5.0-6.0

Physiology and metabolism

oxygen tolerance

  • @ref: 65530
  • oxygen tolerance: obligate aerobe

nutrition type

  • @ref: 65530
  • type: methylotroph

spore formation

@refspore formationconfidence
69480no99.997
69481no100

halophily

@refsaltgrowthtested relationconcentrationhalophily level
65530NaClpositivegrowth0-1 %(w/v)
65530NaClpositiveoptimum0 %(w/v)non-halophilic

observation

  • @ref: 67770
  • observation: quinones: Q-10, Q-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6553017128adipate-assimilation
6553027689decanoate-assimilation
65530casein-hydrolysis
6553017634D-glucose-assimilation
6553016899D-mannitol-assimilation
6553016024D-mannose-assimilation
655304853esculin-hydrolysis
655305291gelatin+hydrolysis
6553017234glucose-fermentation
6553030849L-arabinose+assimilation
6553025115malate+assimilation
6553017306maltose-assimilation
6553017790methanol+carbon source
6553017790methanol+energy source
65530506227N-acetylglucosamine-assimilation
6553017632nitrate+/-reduction
6553018401phenylacetate-assimilation
6553032032potassium gluconate+assimilation
6553053258sodium citrate+assimilation
6553028017starch-hydrolysis
6553053424tween 20+hydrolysis
6553053426tween 80-hydrolysis
6553018186tyrosine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6553017997dinitrogenno
6553035581indoleno

enzymes

@refvalueactivityec
65530cytochrome oxidase+1.9.3.1
65530catalase+1.11.1.6
65530alkaline phosphatase+3.1.3.1
65530esterase (C 4)+
65530esterase Lipase (C 8)+
65530acid phosphatase+3.1.3.2
65530naphthol-AS-BI-phosphohydrolase+
65530urease+3.5.1.5
65530arginine dihydrolase-3.5.3.6
65530lipase (C 14)-
65530leucine arylamidase-3.4.11.1
65530valine arylamidase-
65530cystine arylamidase-3.4.11.3
65530trypsin-3.4.21.4
65530alpha-chymotrypsin-3.4.21.1
65530alpha-galactosidase-3.2.1.22
65530beta-galactosidase-3.2.1.23
65530beta-glucuronidase-3.2.1.31
65530alpha-glucosidase-3.2.1.20
65530beta-glucosidase-3.2.1.21
65530N-acetyl-beta-glucosaminidase-3.2.1.52
65530alpha-mannosidase-3.2.1.24
65530alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65530C12:07
    65530C16:04.2
    65530C18:02.8
    65530cyclo-C19:0ω8c1.5
    65530C20:2ω6,9c1.5
    65530C15:0 iso 3OH1.6
    65530C18:0 3OH4.9
    65530C14:0 3OH / C16:1 iso I1.9
    65530C16:1ω6c / C16:1ω7c0.9
    65530C18:1ω6c / C18:1ω7c73.8
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • incubation temperature: 30
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture temperatureisolation dateisolation procedure
65530air conditioning system in a laboratoryChung-Ang University, SeoulRepublic of KoreaKORAsia37.5041126.957R2A agar25A piece of f3 days
67770Laboratory air conditioning systemRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Engineered product
#Environmental#Air#Indoor Air
#Engineered#Laboratory

Sequence information

16S sequences

  • @ref: 65530
  • description: 16S rRNA gene sequence
  • accession: KY864396
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Methylobacterium frigidaeris IER25-162839310330draftimg2038277
67770Methylobacterium frigidaeris IER25-16GCA_002759055scaffoldncbi2038277
66792Methylobacterium frigidaeris JCM 32048GCA_022179185scaffoldncbi2038277

GC content

  • @ref: 65530
  • GC-content: 70
  • method: genome sequence analysis

Genome-based predictions

predictions

  • trait: spore-forming
  • prediction: no
  • confidence: 100
  • training_data: no

External links

@ref: 65530

culture collection no.: KACC 19280, JCM 32048

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29160200Methylobacterium frigidaeris sp. nov., isolated from an air conditioning system.Lee Y, Jeon COInt J Syst Evol Microbiol10.1099/ijsem.0.0025002017*Air Conditioning, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Methylobacterium/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome
Phylogeny31463788Methylobacterium terrae sp. nov., a radiation-resistant bacterium isolated from gamma ray-irradiated soil.Kim J, Chhetri G, Kim I, Kim H, Kim MK, Seo TJ Microbiol10.1007/s12275-019-9007-92019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gamma Rays, Genotype, Lipids/chemistry, Methylobacterium/*classification/genetics/*isolation & purification/radiation effects, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Radiation Tolerance, Republic of Korea, Sequence Analysis, DNA, Soil, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistry, Whole Genome SequencingGenetics
Phylogeny32100693Methylobacterium terricola sp. nov., a gamma radiation-resistant bacterium isolated from gamma ray-irradiated soil.Kim J, Chhetri G, Kim I, Lee B, Jang W, Kim MK, Seo TInt J Syst Evol Microbiol10.1099/ijsem.0.0040542020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gamma Rays, Methylobacterium/*classification/isolation & purification/radiation effects, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryTranscriptome

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
65530Yunho Lee and Che Ok JeonMethylobacterium frigidaeris sp. nov., isolated from an air conditioning system10.1099/ijsem.0.002500IJSEM 68: 299-304 201829160200
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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