Strain identifier
BacDive ID: 8510
Type strain:
Species: Mycobacterium branderi
Strain Designation: 52157
Strain history: CIP <- 1995, M.L. Katila, Kuopio Univ. Hosp., Kuopio, Finland: strain 52157 <- E. Brander
NCBI tax ID(s): 43348 (species)
General
@ref: 11936
BacDive-ID: 8510
DSM-Number: 44624
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic
description: Mycobacterium branderi 52157 is a microaerophile, mesophilic bacterium that was isolated from human sputum.
NCBI tax id
- NCBI tax id: 43348
- Matching level: species
strain history
@ref | history |
---|---|
11936 | <- CIP; CIP 104592 <- M.-L. Katila, Kuopio Univ. Hosp.; 52157 <- E. Brander; |
67770 | CIP 104592 <-- M. L. Katila 52157 <-- E. Brander. |
116989 | CIP <- 1995, M.L. Katila, Kuopio Univ. Hosp., Kuopio, Finland: strain 52157 <- E. Brander |
doi: 10.13145/bacdive8510.20230509.8.1
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 branderi
- full scientific name: Mycobacterium branderi Koukila-Kähkölä et al. 1995
@ref: 11936
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium branderi
full scientific name: Mycobacterium branderi Koukila-Kähkölä et al. 1995 emend. Nouioui et al. 2018
strain designation: 52157
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 91.851 | ||
69480 | 100 | positive | ||
116989 | rod-shaped |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
20081 | Beige (1001) | 10-14 days | 5006 |
20081 | 10-14 days | BHI | |
20081 | 10-14 days | BUG | |
20081 | Ivory (1014) | 10-14 days | MB7H9 |
60065 | 4-5 days |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
11936 | MIDDLEBROOK MEDIUM (DSMZ Medium 645) | yes | https://mediadive.dsmz.de/medium/645 | Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water |
20081 | BUG | yes | ||
20081 | BHI | yes | ||
20081 | 5006 | yes | Medium: 5006 Name: Composition (g/l) Sucrose 3,0 Dextrin 15,0 Meat extract 1,0 Yeast extract 2,0 Tryptone soy broth (Oxoid) 5,0 NaCl 0,5 K2HPO4 0,5 MgSO4 x 7 H2O 0,5 FeSO4 x 7 H2O 0,01 Agar 20,0 Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7,3 Usage: Maintenance Organisms: All Actinomycetes | |
20081 | MB7H9 | yes | Name: Middlebrook 7H9 (MB7H9) Broth Base Composition: Middelbrook 7H9 Broth Base 4.7 g/l Glycerol 2.0 g/l Casaminoacids 11.0 g/l Yeast extract 5.5 g/l Tween80 (20%) 2.5 g/l OADC-Enrichment 100 ml Agar 15.0 g/l Preparation: Dissolve in Milli-Q-H2O. Before Use add 10% OADC stock solution Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Maintenance and revitalization Organisms: Mycobacteria OADC stock solution old broth-name: OADC-Stock Composition: Bovine Serum Albumin, fraction V 5 % 1% Oleic Acid in 0.2N NaOH 5ml Glucose 2 % NaCl 0.85 % Comments: Melt 1% Oleic Acid in 65°C water bath. Dissolve all ingredients in 700ml of ddH2O. Adjust volume to 1L. Filter sterilize and store at 4°C. -To make 1% Oleic Acid in 0.2N NaOH: Dissolve 5g oleic acid (ampule) in 500ml 0.2N NaOH (300ml ddH2O + 20ml NaOH + adjust volume to 500ml). Heat solution to 55°C for oleic acid to melt. Store at -20°C in 50ml aliquots. There is no need to sterilize this. Sterilisation: 20 minutes Temperature:121°C PH before: PH after: Biological details Culture type: suitable for: Mycobacteria | |
36329 | MEDIUM 55 - for Mycobacterium | yes | ||
116989 | CIP Medium 55 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=55 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
20081 | positive | optimum | 37 | mesophilic |
11936 | positive | growth | 37 | mesophilic |
36329 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
116989 | positive | growth | 30-45 | |
116989 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 60065
- oxygen tolerance: microaerophile
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.543
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
116989 | 4853 | esculin | - | hydrolysis |
116989 | 606565 | hippurate | - | hydrolysis |
116989 | 17632 | nitrate | - | reduction |
116989 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 116989
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
116989 | 15688 | acetoin | - | |
116989 | 17234 | glucose | + |
enzymes
@ref | value | activity | ec |
---|---|---|---|
116989 | oxidase | - | |
116989 | alcohol dehydrogenase | - | 1.1.1.1 |
116989 | catalase | + | 1.11.1.6 |
116989 | lysine decarboxylase | - | 4.1.1.18 |
116989 | ornithine decarboxylase | - | 4.1.1.17 |
116989 | tryptophan deaminase | - | |
116989 | urease | - | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116989 | - | + | + | + | + | + | - | + | - | - | + | + | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude | sampling date | isolation date |
---|---|---|---|---|---|---|---|---|---|
11936 | human sputum | Heinola | Finland | FIN | Europe | 61.2056 | 26.0381 | ||
60065 | Human sputum | Finland | FIN | Europe | 1982 | ||||
67770 | Human sputum, Heinola | Finland | FIN | Europe | |||||
116989 | Human, Sputum | Finland | FIN | Europe | 1982 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Fluids | #Sputum |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
11936 | 2 | Risk group (German classification) |
20081 | 2 | German classification |
116989 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Mycobacterium branderi 16S ribosomal RNA gene, partial sequence | AF480574 | 1469 | ena | 43348 |
20218 | Mycobacterium branderi strain CIP 104592 16S ribosomal RNA gene, partial sequence | AF547906 | 557 | ena | 43348 |
67770 | Mycobacterium sp.16S rRNA gene | X82234 | 1417 | ena | 1785 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Mycobacterium branderi JCM 12687 | GCA_010728725 | complete | ncbi | 43348 |
66792 | Mycobacterium branderi strain DSM 44624 | 43348.3 | wgs | patric | 43348 |
66792 | Mycobacterium branderi strain JCM 12687 | 43348.9 | wgs | patric | 43348 |
66792 | Mycobacterium branderi DSM 44624 | 2865532394 | draft | img | 43348 |
67770 | Mycobacterium branderi DSM 44624 | GCA_002086575 | contig | ncbi | 43348 |
66792 | Mycobacterium branderi DSM 44624 | GCA_025822465 | contig | ncbi | 43348 |
GC content
- @ref: 67770
- GC-content: 66.5
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 67 | no |
motile | no | 94.684 | no |
flagellated | no | 98.907 | no |
gram-positive | yes | 84.655 | no |
anaerobic | no | 98.661 | yes |
aerobic | yes | 79.514 | yes |
halophile | no | 93.89 | no |
spore-forming | no | 86.728 | no |
thermophile | no | 96.201 | yes |
glucose-util | yes | 62.615 | no |
glucose-ferment | no | 90.865 | no |
External links
@ref: 11936
culture collection no.: DSM 44624, ATCC 51789, CIP 104592, CCUG 53896, JCM 12687, KCTC 19634
straininfo link
- @ref: 77900
- straininfo: 43178
literature
- topic: Phylogeny
- Pubmed-ID: 8590682
- title: Mycobacterium branderi sp. nov., a new potential human pathogen.
- authors: Koukila-Kahkola P, Springer B, Bottger EC, Paulin L, Jantzen E, Katila ML
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-45-3-549
- year: 1995
- mesh: Antibiotics, Antitubercular/pharmacology, Arylsulfatases/metabolism, Bacterial Proteins/metabolism, Base Sequence, Drug Resistance, Microbial, Humans, Hydrolases/metabolism, Molecular Sequence Data, Mycobacterium/chemistry/*classification/genetics/metabolism, Mycolic Acids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Temperature, Tuberculosis, Pulmonary/*microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
11936 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44624) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-44624 | |||
20081 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM44624.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
36329 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16517 | ||||
60065 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 53896) | https://www.ccug.se/strain?id=53896 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68382 | Automatically annotated from API zym | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
77900 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43178.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116989 | Curators of the CIP | Collection of Institut Pasteur (CIP 104592) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104592 |