Strain identifier

BacDive ID: 8247

Type strain: Yes

Species: Mycobacterium flavescens

Strain Designation: D-25 (TMC 1541), D-25, 14 023 0001

Strain history: CIP <- 1995, V. Vincent, Inst. Pasteur, Paris, France: strain 14 023 0001 <- ATCC <- L.F. Bojalil: strain D-25

NCBI tax ID(s): 1776 (species)

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General

@ref: 11441

BacDive-ID: 8247

DSM-Number: 43991

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

description: Mycobacterium flavescens D-25 is an obligate aerobe, mesophilic, Gram-positive human pathogen that was isolated from guinea pigs with tuberculosis arrested by chemotherapy.

NCBI tax id

  • NCBI tax id: 1776
  • Matching level: species

strain history

@refhistory
11441<- ATCC; ATCC 14474 <- L. F. Bojalil; D-25 (TMC 1541)
119370CIP <- 1995, V. Vincent, Inst. Pasteur, Paris, France: strain 14 023 0001 <- ATCC <- L.F. Bojalil: strain D-25

doi: 10.13145/bacdive8247.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Mycobacteriaceae
  • genus: Mycobacterium
  • species: Mycobacterium flavescens
  • full scientific name: Mycobacterium flavescens Bojalil et al. 1962 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Mycolicibacterium flavescens

@ref: 11441

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Mycobacteriaceae

genus: Mycobacterium

species: Mycobacterium flavescens

full scientific name: Mycobacterium flavescens Bojalil et al. 1962

strain designation: D-25 (TMC 1541), D-25, 14 023 0001

type strain: yes

Morphology

cell morphology

  • @ref: 119370
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

multimedia

@refmultimedia contentintellectual property rightscaption
11441https://www.dsmz.de/microorganisms/photos/DSM_43991-1.jpg© Leibniz-Institut DSMZ
11441https://www.dsmz.de/microorganisms/photos/DSM_43991.jpg© Leibniz-Institut DSMZMedium 250 37°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11441MIDDLEBROOK MEDIUM (DSMZ Medium 645)yeshttps://mediadive.dsmz.de/medium/645Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water
11441LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354)yeshttps://mediadive.dsmz.de/medium/354Name: LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354) Composition: Potato flour 18.6104 g/l L-Asparagin 2.23325 g/l KH2PO4 1.55087 g/l Mg-citrate 0.372208 g/l Malachite green 0.248139 g/l MgSO4 0.148883 g/l Glycerol Fresh egg mixture Distilled water
42099MEDIUM 55 - for Mycobacteriumyes
119370CIP Medium 55yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55

culture temp

@refgrowthtypetemperaturerange
11441positivegrowth37mesophilic
42099positivegrowth37mesophilic
119370positivegrowth30-37mesophilic
119370nogrowth10psychrophilic
119370nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119370
  • oxygen tolerance: obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11937016947citrate-carbon source
119370606565hippurate-hydrolysis
11937017632nitrate+reduction
11937016301nitrite-reduction
11937017632nitrate-respiration

metabolite production

  • @ref: 119370
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 119370
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
119370oxidase-
119370beta-galactosidase+3.2.1.23
119370alcohol dehydrogenase-1.1.1.1
119370gelatinase-
119370amylase-
119370DNase-
119370catalase+1.11.1.6
119370lecithinase-
119370lipase+
119370lysine decarboxylase-4.1.1.18
119370ornithine decarboxylase-4.1.1.17
119370tryptophan deaminase-
119370urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    50870C14:04.514
    50870C16:033.716
    50870C18:01.618
    50870C16:1 ω7c2.515.819
    50870C16:1 ω7c/C15:0 ISO 2OH11.415.85
    50870C16:1 ω9c0.715.774
    50870C17:1 ω7c6.916.818
    50870C18:1 ω9c1717.769
    50870C18:2 ω6,9c/C18:0 ANTE2.117.724
    50870C20:0 alcohol (C20:0 2OH alc)1018.835
    50870TBSA 10Me18:05.818.392
    50870Unidentified3.918.878
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119370--++-+---++---------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119370---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentisolation date
11441guinea pigs with tuberculosis arrested by chemotherapy
508701993-10-01GöteborgSwedenSWEEurope
119370Animal, Guinea pigs with tuberculosisMexicoMEXNorth America1962

isolation source categories

Cat1Cat2Cat3
#Infection#Disease#Tuberculosis
#Host#Mammals#Rodentia (Other)

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
11441yesyes2Risk group (German classification)
1193701Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequenceAY7349911279ena1776
20218Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequenceJQ348117210ena1776
20218M.flavescens 16S ribosomal RNAM295611357ena1776
20218M.flavescens 16S ribosomal RNA geneM59279146ena1776
20218Mycobacterium flavescens 16S rRNA geneX529321454ena1776

Genome sequences

  • @ref: 66792
  • description: Mycolicibacterium flavescens DSM 43991
  • accession: GCA_025822705
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1776

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.39no
flagellatedno98.382no
gram-positiveyes89.767no
anaerobicno99.459no
aerobicyes89.597no
halophileno84.554no
spore-formingno84.996no
glucose-fermentno89.652no
thermophileno99.539yes
glucose-utilyes85.427no

External links

@ref: 11441

culture collection no.: DSM 43991, ATCC 14474, TMC 1541, CCUG 29041, CCUG 32167, CIP 104533, CCUG 27974, NCTC 10271

straininfo link

  • @ref: 77649
  • straininfo: 36090

literature

  • topic: Enzymology
  • Pubmed-ID: 15722145
  • title: Multicenter evaluation of mycobacteria identification by PCR restriction enzyme analysis in laboratories from Latin America and the Caribbean.
  • authors: Leao SC, Bernardelli A, Cataldi A, Zumarraga M, Robledo J, Realpe T, Mejia GI, da Silva Telles MA, Chimara E, Velazco M, Fernandez J, Rodrigues PA, Guerrero MI, Leon CI, Porras TB, Rastogi N, Goh KS, Suffys P, da Silva Rocha A, dos Santos Netto D, Ritacco V, Lopez B, Barrera L, Palomino JC, Martin A, Portaels F
  • journal: J Microbiol Methods
  • DOI: 10.1016/j.mimet.2004.11.015
  • year: 2004
  • mesh: Bacterial Proteins/chemistry/genetics, Chaperonin 60, Chaperonins/chemistry/genetics, DNA, Bacterial/chemistry/genetics, Guadeloupe, Humans, Mycobacterium/genetics/*isolation & purification, Mycobacterium Infections/*diagnosis, Polymerase Chain Reaction/*methods/standards, Restriction Mapping, South America
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11441Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43991)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43991
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
42099Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16452
50870Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32167)https://www.ccug.se/strain?id=32167
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)
68382Automatically annotated from API zym
77649Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36090.1StrainInfo: A central database for resolving microbial strain identifiers
119370Curators of the CIPCollection of Institut Pasteur (CIP 104533)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104533