Strain identifier

BacDive ID: 135739

Type strain: Yes

Species: Chryseobacterium massiliense

Strain Designation: 90B

Strain history: CIP <- 2002, G. Greub, Lab. Raoult, Marseille, France: strain 90B

NCBI tax ID(s): 204089 (species)

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General

@ref: 34944

BacDive-ID: 135739

keywords: genome sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Chryseobacterium massiliense 90B is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Human nose.

NCBI tax id

  • NCBI tax id: 204089
  • Matching level: species

strain history

@refhistory
349442002, G. Greub, Lab. Raoult, Marseille, France: strain 90B
34944CIP <- 2002, G. Greub, Lab. Raoult, Marseille, France: strain 90B

doi: 10.13145/bacdive135739.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium massiliense
  • full scientific name: Candidatus Chryseobacterium massiliense corrig. Greub et al. 2004

  • synonyms

    • @ref: 20215
    • synonym: Chryseobacterium massiliae

@ref: 34944

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium massiliae

strain designation: 90B

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
125439negative99.9
125438negative99
34944negativerod-shapedno

colony morphology

  • @ref: 34944
  • hemolysis ability: 1

pigmentation

  • @ref: 34944
  • production: no
  • name: Flexirubin

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
34944MEDIUM 23 - for Afipia and LegionellayesDistilled water make up to (1000.000 ml);Legionella agar (37.000 g);Legionella - enrichment mixture (10.000 ml)
34944CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
34944CIP Medium 23yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=23
34944CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperature
34944positivegrowth30
59153positivegrowth22-37
34944positivegrowth15-41
34944nogrowth5
34944nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
59153aerobe
34944obligate aerobe
125439obligate aerobe95.7

spore formation

@refspore formationconfidence
125439no98.3
125438no90.985

halophily

@refsaltgrowthtested relationconcentration
34944NaClpositivegrowth0-2 %
34944NaClnogrowth4 %
34944NaClnogrowth6 %
34944NaClnogrowth8 %
34944NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3494416947citrate-carbon source
349444853esculin+hydrolysis
34944606565hippurate+hydrolysis
3494417632nitrate-builds gas from
3494417632nitrate-reduction
3494416301nitrite-builds gas from
3494416301nitrite-reduction
3494435020tributyrin+hydrolysis
3494415792malonate-assimilation
3494417632nitrate-respiration
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

antibiotic resistance

  • @ref: 34944
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
3494435581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
3494415688acetoin-
3494417234glucose-

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
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
34944oxidase+
34944beta-galactosidase-3.2.1.23
34944alcohol dehydrogenase-1.1.1.1
34944gelatinase+
34944amylase+
34944DNase-
34944caseinase+3.4.21.50
34944catalase+1.11.1.6
34944tween esterase+
34944gamma-glutamyltransferase+2.3.2.2
34944lecithinase+
34944lipase+
34944lysine decarboxylase-4.1.1.18
34944ornithine decarboxylase-4.1.1.17
34944phenylalanine ammonia-lyase-4.3.1.24
34944protease+
34944tryptophan deaminase-
34944urease-3.5.1.5
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
59153-+-+-++---++---+-+--
34944-+++-++++-++---+-+--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
59153-----++-+----+------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
34944---++--+-++-----+-+--------------+-------------------------------------------------------++---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
59153Human noseMarseille ?FranceFRAEurope
34944Human, Nose

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Nose

Safety information

risk assessment

  • @ref: 34944
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Candidatus Chryseobacterium massiliae CCUG 51329GCA_003385535contigncbi204089
66792Candidatus Chryseobacterium massiliae strain CCUG 51329204089.13wgspatric204089
66792Chryseobacterium massiliae CCUG 513292905979941draftimg204089

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno99no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.308no
125438spore-formingspore-formingAbility to form endo- or exosporesno90.985no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes88.863yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.643no
125438motile2+flagellatedAbility to perform flagellated movementno88.5no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno98.3
125439BacteriaNetmotilityAbility to perform movementno79.8
125439BacteriaNetgram_stainReaction to gram-stainingnegative99.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe95.7

External links

@ref: 34944

culture collection no.: CIP 107752, CCUG 51329

Reference

@idauthorstitledoi/urlcatalogue
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
34944Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107752Collection of Institut Pasteur (CIP 107752)
59153Curators of the CCUGhttps://www.ccug.se/strain?id=51329Culture Collection University of Gothenburg (CCUG) (CCUG 51329)
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
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG