Strain identifier

BacDive ID: 7149

Type strain: Yes

Species: Methylobacterium mesophilicum

Strain Designation: A 47

Strain history: CIP <- 1984, NCIB <- B. Austin: strain A47, Pseudomonas mesophila

NCBI tax ID(s): 39956 (species)

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General

@ref: 865

BacDive-ID: 7149

DSM-Number: 1708

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped, human pathogen

description: Methylobacterium mesophilicum A 47 is a mesophilic, Gram-negative, motile human pathogen that was isolated from phylloplane of Lolium perenne.

NCBI tax id

  • NCBI tax id: 39956
  • Matching level: species

strain history

@refhistory
865<- B. Austin, A 47
67770T. Urakami TK 0034 <-- ATCC 29983 <-- B. Austin A47.
120912CIP <- 1984, NCIB <- B. Austin: strain A47, Pseudomonas mesophila

doi: 10.13145/bacdive7149.20230509.8.1

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 mesophilicum
  • full scientific name: Methylobacterium mesophilicum (Austin and Goodfellow 1979) Green and Bousfield 1983

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas mesophilica

@ref: 865

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Methylobacteriaceae

genus: Methylobacterium

species: Methylobacterium mesophilicum

full scientific name: Methylobacterium mesophilicum (Austin and Goodfellow 1979) Green and Bousfield 1983

strain designation: A 47

type strain: yes

Morphology

cell morphology

  • @ref: 120912
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
865ANCYLOBACTER - SPIROSOMA MEDIUM (DSMZ Medium 7)yeshttps://mediadive.dsmz.de/medium/7Name: ANCYLOBACTER - SPIROSOMA MEDIUM (DSMZ Medium 7) Composition: Agar 15.0 g/l Yeast extract 1.0 g/l Peptone 1.0 g/l Glucose 1.0 g/l Distilled water
865NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Methanol Distilled water
40315MEDIUM 18 - for Hydrogenophaga, Vogesella and Pseudomonas generayesDistilled water make up to (1000.000 ml);Sodium chloride (3.000 g);Agar(12.000 g);Yeast extract (3.000 g);Peptone (0.600 g)
865R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
120912CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
120912CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566
120912CIP Medium 18yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=18

culture temp

@refgrowthtypetemperaturerange
865positivegrowth25mesophilic
40315positivegrowth25mesophilic
46495positivegrowth25-30mesophilic
67770positivegrowth30mesophilic
120912positivegrowth10-25psychrophilic
120912nogrowth5psychrophilic
120912nogrowth37mesophilic
120912nogrowth41thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
120912NaClpositivegrowth0 %
120912NaClnogrowth2 %
120912NaClnogrowth4 %
120912NaClnogrowth6 %
120912NaClnogrowth8 %
120912NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12091216947citrate-carbon source
1209124853esculin-hydrolysis
12091217632nitrate-reduction
12091216301nitrite-reduction
12091215882phenol-degradation

antibiotic resistance

  • @ref: 120912
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120912
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
120912beta-galactosidase-3.2.1.23
120912alcohol dehydrogenase-1.1.1.1
120912gelatinase-
120912amylase-
120912DNase-
120912caseinase-3.4.21.50
120912catalase+1.11.1.6
120912tween esterase-
120912lecithinase-
120912lipase-
120912lysine decarboxylase-4.1.1.18
120912ornithine decarboxylase-4.1.1.17
120912tryptophan deaminase-
120912urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120912--++-+--+-++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120912+-+-----------------++---------+---------------+-+----------+--------------+---++-+-------+-------+

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
865phylloplane of Lolium perenneLolium perenneUnited KingdomGBREurope
46495Lolium perenne phylloplaneUnited KingdomGBREurope
67770Lolium prenne leafLolium prenne
120912Environment, Perennial rye grassUnited KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Phylloplane

taxonmaps

  • @ref: 69479
  • File name: preview.99_1592.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15368;96_285;97_315;98_1257;99_1592&stattab=map
  • Last taxonomy: Methylobacterium
  • 16S sequence: AB175636
  • Sequence Identity:
  • Total samples: 1162
  • soil counts: 88
  • aquatic counts: 142
  • animal counts: 737
  • plant counts: 195

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
865yes, in single cases1Risk group (German classification)
1209121Risk group (French classification)

Sequence information

16S sequences

  • @ref: 865
  • description: Methylobacterium mesophilicum gene for 16S ribosomal RNA, partial sequence, strain:DSM 1708
  • accession: AB175636
  • length: 1433
  • database: ena
  • NCBI tax ID: 39956

Genome sequences

  • @ref: 66792
  • description: Methylobacterium mesophilicum NBRC 15688
  • accession: GCA_022179445
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 39956

GC content

@refGC-contentmethod
6777066thermal denaturation, midpoint method (Tm)
6777065.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno77.731no
gram-positiveno97.902no
anaerobicno97.916no
aerobicyes90.812no
halophileno87.02no
spore-formingno94.808no
motileyes88.656no
glucose-fermentno87.746no
thermophileno99.11yes
glucose-utilyes92.172no

External links

@ref: 865

culture collection no.: DSM 1708, ATCC 29983, ICPB 4095, CCUG 16482, JCM 2829, CIP 101129, IFO 15688, LMG 5275, NBRC 15688, NCIMB 11561, NRRL B-14246, VTT E-981080

straininfo link

  • @ref: 76603
  • straininfo: 3560

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Enzymology6490848Pseudomonas mesophilica and an unnamed taxon, clinical isolates of pink-pigmented oxidative bacteria.Gilardi GL, Faur YCJ Clin Microbiol10.1128/jcm.20.4.626-629.19841984Bacteria/growth & development/*isolation & purification/metabolism, Humans, Oxidation-Reduction, Pigmentation, Pseudomonas/*isolation & purificationPhylogeny
Phylogeny13130002Bosea minatitlanensis sp. nov., a strictly aerobic bacterium isolated from an anaerobic digester.Ouattara AS, Assih EA, Thierry S, Cayol JL, Labat M, Monroy O, Macarie HInt J Syst Evol Microbiol10.1099/ijs.0.02540-02003Aerobiosis, Bradyrhizobiaceae/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Species SpecificityGenetics
Phylogeny20127465Methylobacterium dankookense sp. nov., isolated from drinking water.Lee SW, Oh HW, Lee KH, Ahn TYJ Microbiol10.1007/s12275-009-0126-62010Aerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Hydrogen-Ion Concentration, Methylobacterium/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, TemperatureGenetics
Phylogeny21222033Methylobacterium soli sp. nov. a methanol-utilizing bacterium isolated from the forest soil.Cao YR, Wang Q, Jin RX, Tang SK, Jiang Y, He WX, Lai HX, Xu LH, Jiang CLAntonie Van Leeuwenhoek10.1007/s10482-010-9535-02011Methanol/*metabolism, Methylobacterium/classification/*genetics/*metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Soil Microbiology, *TreesMetabolism

Reference

@idauthorscataloguedoi/urltitle
865Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1708)https://www.dsmz.de/collection/catalogue/details/culture/DSM-1708
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
40315Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/12671
46495Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 16482)https://www.ccug.se/strain?id=16482
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
76603Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3560.1StrainInfo: A central database for resolving microbial strain identifiers
120912Curators of the CIPCollection of Institut Pasteur (CIP 101129)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20101129