Mycobacterium flavescens D-25 is an obligate aerobe, Gram-positive, rod-shaped human pathogen that was isolated from guinea pigs with tuberculosis arrested by chemotherapy.
Gram-positive rod-shaped obligate aerobe human pathogen genome sequence 16S sequence Bacteria| @ref 20215 |
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| 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 (1) |
| BacDive ID | Other strains from Mycobacterium flavescens (1) | Type strain |
|---|---|---|
| 145629 | M. flavescens CCUG 29050, ATCC 4243 |
| @ref: | 11441 |
| multimedia content: | DSM_43991-1.jpg |
| multimedia.multimedia content: | https://www.dsmz.de/microorganisms/photos/DSM_43991-1.jpg |
| intellectual property rights: | © Leibniz-Institut DSMZ |
| manual_annotation: | 1 |
| @ref: | 11441 |
| multimedia content: | DSM_43991.jpg |
| multimedia.multimedia content: | https://www.dsmz.de/microorganisms/photos/DSM_43991.jpg |
| caption: | Medium 250 37°C |
| intellectual property rights: | © Leibniz-Institut DSMZ |
| manual_annotation: | 1 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 11441 | MIDDLEBROOK MEDIUM (DSMZ Medium 645) | Medium recipe at MediaDive | Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water | ||
| 11441 | LÖWENSTEIN-JENSEN MEDIUM (DSMZ Medium 354) | Medium recipe at MediaDive | Name: 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 | ||
| 42099 | MEDIUM 55 - for Mycobacterium | ||||
| 119370 | CIP Medium 55 | Medium recipe at CIP |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 119370 | alcohol dehydrogenase | - | 1.1.1.1 | |
| 68382 | alkaline phosphatase | - | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | + | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 119370 | amylase | - | ||
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 119370 | beta-galactosidase | + | 3.2.1.23 | |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 119370 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 119370 | DNase | - | ||
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 119370 | gelatinase | - | ||
| 119370 | lecithinase | - | ||
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 119370 | lipase | + | ||
| 68382 | lipase (C 14) | - | from API zym | |
| 119370 | lysine decarboxylase | - | 4.1.1.18 | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | - | from API zym | |
| 119370 | ornithine decarboxylase | - | 4.1.1.17 | |
| 119370 | oxidase | - | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 119370 | tryptophan deaminase | - | ||
| 119370 | urease | + | 3.5.1.5 | |
| 68382 | valine arylamidase | - | from API zym |
| Metadata FA analysis | ||||||||||||||||||||||||||||||||||||||||
| type of FA analysis | whole cell analysis | |||||||||||||||||||||||||||||||||||||||
| method/protocol | CCUG | |||||||||||||||||||||||||||||||||||||||
| @ref | 50870 | |||||||||||||||||||||||||||||||||||||||
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| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 124043 | 49243_D02 assembly for Mycolicibacterium flavescens NCTC10271 | complete | 1776 | 73.56 | ||||
| 66792 | ASM2582270v1 assembly for Mycolicibacterium flavescens DSM 43991 | scaffold | 1776 | 66.88 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequence | AY734991 | 1279 | 1776 | ||
| 20218 | Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequence | JQ348117 | 210 | 1776 | ||
| 20218 | Mycolicibacterium flavescens 16S ribosomal RNA, complete sequence | M29561 | 1357 | 1776 | ||
| 20218 | M.flavescens 16S ribosomal RNA gene | M59279 | 146 | 1776 | ||
| 20218 | Mycobacterium flavescens 16S rRNA gene | X52932 | 1454 | 1776 | ||
| 124043 | Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequence. | MH169222 | 1486 | 1776 | ||
| 124043 | Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene, partial sequence. | MH169220 | 1486 | 1776 | ||
| 124043 | Mycobacterium flavescens strain CIP 104533 16S ribosomal RNA gene, partial sequence. | AF547922 | 544 | 1776 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 98.92 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 85.69 | no |
| 125439 | motility | BacteriaNetⓘ | no | 89.04 | no |
| 125439 | spore_formation | BacteriaNetⓘ | no | 72.63 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 90.85 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 97.43 | yes |
| 125438 | aerobic | aerobicⓘ | yes | 88.84 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 63.83 | no |
| 125438 | thermophilic | thermophileⓘ | no | 97.50 | yes |
| 125438 | flagellated | motile2+ⓘ | no | 88.50 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| A novel real-time PCR assay for specific detection and quantification of Mycobacterium avium subsp. paratuberculosis in milk with the inherent possibility of differentiation between viable and dead cells. | Dzieciol M, Volgger P, Khol J, Baumgartner W, Wagner M, Hein I. | BMC Res Notes | 10.1186/1756-0500-3-251 | 2010 | ||
| Metabolism | Peptide aMptD-mediated capture PCR for detection of Mycobacterium avium subsp. paratuberculosis in bulk milk samples. | Stratmann J, Dohmann K, Heinzmann J, Gerlach GF. | Appl Environ Microbiol | 10.1128/aem.00590-06 | 2006 | |
| Phylogeny | Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera. | Gupta RS, Lo B, Son J. | Front Microbiol | 10.3389/fmicb.2018.00067 | 2018 | |
| Enzymology | Quantitative detection and reduction of potentially pathogenic bacterial groups of Aeromonas, Arcobacter, Klebsiella pneumoniae species complex, and Mycobacterium in wastewater treatment facilities. | Aoki M, Takemura Y, Kawakami S, Yoochatchaval W, Tran P T, Tomioka N, Ebie Y, Syutsubo K. | PLoS One | 10.1371/journal.pone.0291742 | 2023 | |
| In Vitro Antimicrobial Activities of Tigecycline, Eravacycline, Omadacycline, and Sarecycline against Rapidly Growing Mycobacteria. | Zhang T, Du J, Dong L, Wang F, Zhao L, Jia J, Wang C, Cheng M, Yu X, Huang H. | Microbiol Spectr | 10.1128/spectrum.03238-22 | 2023 | ||
| In vitro and intracellular inhibitory activities of nosiheptide against Mycobacterium abscessus. | Zhu R, Yu X, Zhang T, Kong Y, Wang F, Jia J, Xue Y, Huang H. | Front Microbiol | 10.3389/fmicb.2022.926361 | 2022 | ||
| Pathogenicity | In Vitro Activities of Bedaquiline and Delamanid against Nontuberculous Mycobacteria Isolated in Beijing, China. | Yu X, Gao X, Li C, Luo J, Wen S, Zhang T, Ma Y, Dong L, Wang F, Huang H. | Antimicrob Agents Chemother | 10.1128/aac.00031-19 | 2019 | |
| Metabolism | Growth of mycobacteria on carbon monoxide and methanol. | Park SW, Hwang EH, Park H, Kim JA, Heo J, Lee KH, Song T, Kim E, Ro YT, Kim SW, Kim YM. | J Bacteriol | 10.1128/jb.185.1.142-147.2003 | 2003 | |
| Phylogeny | Rapid identification of mycobacterial whole cells in solid and liquid culture media by matrix-assisted laser desorption ionization-time of flight mass spectrometry. | Lotz A, Ferroni A, Beretti JL, Dauphin B, Carbonnelle E, Guet-Revillet H, Veziris N, Heym B, Jarlier V, Gaillard JL, Pierre-Audigier C, Frapy E, Berche P, Nassif X, Bille E. | J Clin Microbiol | 10.1128/jcm.01397-10 | 2010 | |
| Enzymology | Detection and identification of mycobacteria in formalin-fixed, paraffin-embedded tissues by nested PCR and restriction enzyme analysis. | Bascunana CR, Belak K. | J Clin Microbiol | 10.1128/jcm.34.10.2351-2355.1996 | 1996 | |
| Pathogenicity | Intrinsic macrolide resistance in Mycobacterium smegmatis is conferred by a novel erm gene, erm(38). | Nash KA. | Antimicrob Agents Chemother | 10.1128/aac.47.10.3053-3060.2003 | 2003 | |
| Genotypic variation and stability of four variable-number tandem repeats and their suitability for discriminating strains of Mycobacterium leprae. | Truman R, Fontes AB, De Miranda AB, Suffys P, Gillis T. | J Clin Microbiol | 10.1128/jcm.42.6.2558-2565.2004 | 2004 | ||
| Compilation of small ribosomal subunit RNA structures. | Neefs JM, Van de Peer Y, De Rijk P, Chapelle S, De Wachter R. | Nucleic Acids Res | 10.1093/nar/21.13.3025 | 1993 | ||
| Compilation of 5S rRNA and 5S rRNA gene sequences. | Specht T, Wolters J, Erdmann VA. | Nucleic Acids Res | 10.1093/nar/18.suppl.2215 | 1990 | ||
| Phylogeny | The division between fast- and slow-growing species corresponds to natural relationships among the mycobacteria. | Stahl DA, Urbance JW. | J Bacteriol | 10.1128/jb.172.1.116-124.1990 | 1990 | |
| A study of some fast-growing scotochromogenic mycobacteria including species descriptions of Mycobacterium gilvum (new species) and Mycobacterium duv alii (new species). | Stanford JL, Gunthorpe WJ. | Br J Exp Pathol | 1971 | |||
| Enzymology | The superoxide dismutase gene, a target for detection and identification of mycobacteria by PCR. | Zolg JW, Philippi-Schulz S. | J Clin Microbiol | 10.1128/jcm.32.11.2801-2812.1994 | 1994 | |
| Genomics Insights into Mycolicibacterium Hassiacum Causing Infection in a Cat with Pyogranulomatous Dermatitis and Panniculitis. | Smedile D, Iurescia M, Carfora V, Cocumelli C, Palmerini T, Diaconu EL, Congiu I, Donati V, Stravino F, Sorbara L, Romano E, Caprioli A, Battisti A. | Pathogens | 10.3390/pathogens13090785 | 2024 | ||
| Enzymology | New PCR systems to confirm real-time PCR detection of Mycobacterium avium subsp. paratuberculosis. | Herthnek D, Bolske G. | BMC Microbiol | 10.1186/1471-2180-6-87 | 2006 | |
| Enzymology | Reverse transcription-PCR detection of Mycobacterium leprae in clinical specimens. | Kurabachew M, Wondimu A, Ryon JJ. | J Clin Microbiol | 10.1128/jcm.36.5.1352-1356.1998 | 1998 | |
| Enzymology | Multicenter evaluation of mycobacteria identification by PCR restriction enzyme analysis in laboratories from Latin America and the Caribbean. | 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 | J Microbiol Methods | 10.1016/j.mimet.2004.11.015 | 2004 |
| #11441 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43991 |
| #20215 | Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 ) |
| #42099 | ; Curators of the CIP; |
| #50870 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32167 |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #68382 | Automatically annotated from API zym . |
| #119370 | Collection of Institut Pasteur ; Curators of the CIP; CIP 104533 |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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