Strain identifier

BacDive ID: 7602

Type strain: Yes

Species: Glutamicibacter arilaitensis

Strain Designation: Re117

Strain history: CIP <- 2003, F. Irlinger, INRA, Thiverval Grignon, France: strain Re117 <- UMR GMPA, INRA <- Soredab

NCBI tax ID(s): 256701 (species)

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General

@ref: 6406

BacDive-ID: 7602

DSM-Number: 16368

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, rod-shaped

description: Glutamicibacter arilaitensis Re117 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from Reblochon cheese.

NCBI tax id

  • NCBI tax id: 256701
  • Matching level: species

strain history

@refhistory
6406<- C. Bizet, CIP <- F. Irlinger, INRA
67770CIP 108037 <-- F. Irlinger Re117.
116496CIP <- 2003, F. Irlinger, INRA, Thiverval Grignon, France: strain Re117 <- UMR GMPA, INRA <- Soredab

doi: 10.13145/bacdive7602.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Glutamicibacter
  • species: Glutamicibacter arilaitensis
  • full scientific name: Glutamicibacter arilaitensis (Irlinger et al. 2005) Busse 2016

  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter arilaitensis

@ref: 6406

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Glutamicibacter

species: Glutamicibacter arilaitensis

full scientific name: Glutamicibacter arilaitensis (Irlinger et al. 2005) Busse 2016 emend. Nouioui et al. 2018

strain designation: Re117

type strain: yes

Morphology

cell morphology

  • @ref: 116496
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6406TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
41909MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
116496CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116496CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
6406positivegrowth28mesophilic
41909positivegrowth30mesophilic
67770positivegrowth28mesophilic
116496positivegrowth10-30
116496nogrowth37mesophilic
116496nogrowth41thermophilic
116496nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116496
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
116496NaClpositivegrowth2-4 %
116496NaClnogrowth0 %
116496NaClnogrowth6 %
116496NaClnogrowth8 %
116496NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11649616947citrate-carbon source
1164964853esculin-hydrolysis
116496606565hippurate+hydrolysis
11649617632nitrate-reduction
11649616301nitrite-reduction
11649617632nitrate-respiration

antibiotic resistance

  • @ref: 116496
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 116496
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11649615688acetoin-
11649617234glucose-

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
116496oxidase-
116496beta-galactosidase+3.2.1.23
116496alcohol dehydrogenase-1.1.1.1
116496gelatinase+/-
116496amylase+
116496DNase-
116496caseinase+3.4.21.50
116496catalase+1.11.1.6
116496tween esterase-
116496gamma-glutamyltransferase+2.3.2.2
116496lecithinase-
116496lipase-
116496lysine decarboxylase-4.1.1.18
116496ornithine decarboxylase-4.1.1.17
116496phenylalanine ammonia-lyase-4.3.1.24
116496protease+
116496tryptophan deaminase-
116496urease-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
116496--+--++-+--+---+--+-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116496+--+---+-+++-+-++-++++----+----+---+-----------------+---+--++++--------++-+-------------++++++-+++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6406Reblochon cheeseFranceFRAEurope
67770Surface of Reblochon cheese
116496Food, Cheese, ReblochonFranceFRAEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

taxonmaps

  • @ref: 69479
  • File name: preview.99_7437.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1446;97_1726;98_2111;99_7437&stattab=map
  • Last taxonomy: Glutamicibacter
  • 16S sequence: AJ609628
  • Sequence Identity:
  • Total samples: 817
  • soil counts: 92
  • aquatic counts: 149
  • animal counts: 507
  • plant counts: 69

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
64061Risk group (German classification)
1164961Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6406
  • description: Arthrobacter arilaiti partial 16S rRNA gene, strain CIP 108037
  • accession: AJ609628
  • length: 1459
  • database: ena
  • NCBI tax ID: 861360

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Glutamicibacter arilaitensis Re117GCA_000197735completencbi861360
66792Glutamicibacter arilaitensis Re117861360.22plasmidpatric861360
66792Glutamicibacter arilaitensis Re117861360.23plasmidpatric861360
66792Glutamicibacter arilaitensis re117649633006completeimg861360

GC content

@refGC-contentmethod
6777059.2genome sequence analysis
6777059.3genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno95.356no
flagellatedno96.431no
gram-positiveyes93.499no
anaerobicno99.373no
aerobicyes95.962no
halophileno52.789no
spore-formingno87.643no
thermophileno98.627no
glucose-utilyes86.581no
glucose-fermentno87.738no

External links

@ref: 6406

culture collection no.: DSM 16368, CIP 108037, JCM 13566, IAM 15318, NCIMB 14258, VTT E-072719

straininfo link

  • @ref: 77046
  • straininfo: 128534

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653918Arthrobacter bergerei sp. nov. and Arthrobacter arilaitensis sp. nov., novel coryneform species isolated from the surfaces of cheeses.Irlinger F, Bimet F, Delettre J, Lefevre M, Grimont PADInt J Syst Evol Microbiol10.1099/ijs.0.63125-02005Arthrobacter/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Cheese/*microbiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Genetics21124797The arthrobacter arilaitensis Re117 genome sequence reveals its genetic adaptation to the surface of cheese.Monnet C, Loux V, Gibrat JF, Spinnler E, Barbe V, Vacherie B, Gavory F, Gourbeyre E, Siguier P, Chandler M, Elleuch R, Irlinger F, Vallaeys TPLoS One10.1371/journal.pone.00154892010Adaptation, Physiological/drug effects/*genetics, Amino Acids/metabolism, Arthrobacter/classification/*genetics/metabolism, Carbon/metabolism, *Cheese, Chromosome Mapping, Chromosomes, Bacterial/genetics, DNA, Bacterial/chemistry/*genetics, Fatty Acids/metabolism, Genome, Bacterial/*genetics, Genomics/methods, Iron/metabolism/pharmacology, Molecular Sequence Data, Salt Tolerance/genetics, Sequence Analysis, DNA, Species Specificity, SyntenyMetabolism
Metabolism22367081Growth of aerobic ripening bacteria at the cheese surface is limited by the availability of iron.Monnet C, Back A, Irlinger FAppl Environ Microbiol10.1128/AEM.00085-122012Arthrobacter/*growth & development/metabolism, Bacteria, Aerobic/*growth & development/metabolism, Biosynthetic Pathways/genetics, Brevibacterium/*growth & development/metabolism, Cheese/*microbiology, Corynebacterium/*growth & development/metabolism, Deferoxamine/metabolism, Gene Expression Profiling, Gene Expression Regulation, Bacterial, Iron/*metabolism, Membrane Transport Proteins/biosynthesis, Real-Time Polymerase Chain Reaction, Reverse Transcriptase Polymerase Chain Reaction, Transcription, Genetic

Reference

@idauthorscataloguedoi/urltitle
6406Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16368)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16368
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
41909Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5615
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
77046Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128534.1StrainInfo: A central database for resolving microbial strain identifiers
116496Curators of the CIPCollection of Institut Pasteur (CIP 108037)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108037