Strain identifier

BacDive ID: 16364

Type strain: Yes

Species: Streptomyces mexicanus

Strain Designation: BM-B-384, CH-M-1035, NNRL B-24196

Strain history: CIP <- 2003, M.E. Flores, UNAM, Mexico: strain CH-M-1035

NCBI tax ID(s): 1305627 (strain), 178566 (species)

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General

@ref: 10580

BacDive-ID: 16364

DSM-Number: 41796

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

description: Streptomyces mexicanus BM-B-384 is an obligate aerobe, Gram-positive, rod-shaped bacterium that builds an aerial mycelium and was isolated from soil at a sugar-cane fields.

NCBI tax id

NCBI tax idMatching level
178566species
1305627strain

strain history

@refhistory
10580<- C. Huitrón, UNAM; CH-M-1035
67770DSM 41796 <-- C. Huitrón CH-M-1035.
120931CIP <- 2003, M.E. Flores, UNAM, Mexico: strain CH-M-1035

doi: 10.13145/bacdive16364.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces mexicanus
  • full scientific name: Streptomyces mexicanus Petrosyan et al. 2003

@ref: 10580

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces mexicanus

full scientific name: Streptomyces mexicanus Petrosyan et al. 2003

strain designation: BM-B-384, CH-M-1035, NNRL B-24196

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
120931positiverod-shapedno
69480no91

colony morphology

@refcolony colorincubation periodmedium used
18721Sand yellow (1002)10-14 daysISP 2
18721Beige (1001)10-14 daysISP 3
18721Brown beige (1011)10-14 daysISP 4
18721Ivory (1014)10-14 daysISP 5
18721Beige (1001)10-14 daysISP 6
18721Beige (1001)10-14 daysISP 7
120931

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
18721yesAerial MyceliumPlatinum grey (7036)ISP 2
18721yesAerial MyceliumPlatinum grey (7036)ISP 3
18721yesAerial MyceliumPlatinum grey (7036)ISP 4
18721yesAerial MyceliumIvory (1014)ISP 5
18721noISP 6
18721yesAerial MyceliumIvory (1014)ISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10580GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
18721ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18721ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18721ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18721ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18721ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18721ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
33203MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
10580ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84)yeshttps://mediadive.dsmz.de/medium/84Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water
10580STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://mediadive.dsmz.de/medium/252Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water
120931CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperature
10580positivegrowth37
18721positiveoptimum28
33203positivegrowth37
67770positivegrowth37
120931positivegrowth25-45
120931nogrowth10

Physiology and metabolism

oxygen tolerance

  • @ref: 120931
  • oxygen tolerance: obligate aerobe

compound production

@refcompound
10580xylanase
10580B xylosidase
67770beta-xylosidase

halophily

@refsaltgrowthtested relationconcentration
120931NaClpositivegrowth0-8 %
120931NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
12093116947citrate-carbon source
1209314853esculin-hydrolysis
120931606565hippurate+hydrolysis
12093117632nitrate-reduction
12093116301nitrite-reduction
12093117632nitrate-respiration

antibiotic resistance

  • @ref: 120931
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideyes
12093135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
12093115688acetoin+
12093117234glucose-

enzymes

@refvalueecactivity
67770Xylanase3.2.1.8
68368gelatinase+
68368tryptophan deaminase4.1.99.1-
68368urease3.5.1.5-
68368ornithine decarboxylase4.1.1.17+
68368lysine decarboxylase4.1.1.18+
68368arginine dihydrolase3.5.3.6+
68368beta-galactosidase3.2.1.23+
120931oxidase-
120931beta-galactosidase3.2.1.23+
120931alcohol dehydrogenase1.1.1.1-
120931gelatinase+
120931amylase+
120931DNase-
120931caseinase3.4.21.50-
120931catalase1.11.1.6+
120931tween esterase-
120931gamma-glutamyltransferase2.3.2.2+
120931lecithinase-
120931lipase-
120931lysine decarboxylase4.1.1.18-
120931ornithine decarboxylase4.1.1.17-
120931phenylalanine ammonia-lyase4.3.1.24-
120931tryptophan deaminase-
120931urease3.5.1.5-
68382alkaline phosphatase3.1.3.1+
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382leucine arylamidase3.4.11.1+
68382valine arylamidase+
68382trypsin3.4.21.4-
68382alpha-chymotrypsin3.4.21.1-
68382acid phosphatase3.1.3.2+
68382naphthol-AS-BI-phosphohydrolase+
68382beta-galactosidase3.2.1.23+
68382beta-glucuronidase3.2.1.31-
68382alpha-glucosidase3.2.1.20+
68382N-acetyl-beta-glucosaminidase3.2.1.52+
68382alpha-mannosidase3.2.1.24+
68382alpha-fucosidase3.2.1.51-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18721++++++---++++-++++-
120931+++-+++--++-+-+-++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18721++++++----+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120931+++++-+-++++++-++-++++----+----+-+---------++----++--+++++-++-+-+------+++++---++---+---++++-++-++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
10580soil at a sugar-cane fieldsMorelos, ZacatepecMexicoMEXNorth America
67770Soil at a sugar-cane fieldMorelosMexicoMEXNorth America
120931Environment, Soil samplesMexicoMEXNorth America1982

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Field
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
105801Risk group (German classification)
187211German classification
1209311Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
10580Streptomyces sp. CH-M-1035 16S ribosomal RNA gene, partial sequenceAF4411681450nuccore178566
67770Streptomyces mexicanus gene for 16S rRNA, partial sequence, strain: NBRC 100915AB2499661483nuccore178566

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces mexicanus JCM 12681GCA_001313875contigncbi1305627
66792Streptomyces mexicanus JCM 126811305627.3wgspatric1305627
66792Streptomyces mexicanus JCM 126812675903513draftimg1305627

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes86no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes77.965no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no85.807yes
69480spore-formingspore-formingAbility to form endo- or exosporesno51.323no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes71.191no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno88.08no
69480flagellatedmotile2+Ability to perform flagellated movementno91no

External links

@ref: 10580

culture collection no.: DSM 41796, JCM 12681, NRRL B-24196, CIP 108132, NBRC 100915, NCIMB 14336

straininfo link

  • @ref: 85419
  • straininfo: 100976

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12656184Streptomyces mexicanus sp. nov., a xylanolytic micro-organism isolated from soil.Petrosyan P, Garcia-Varela M, Luz-Madrigal A, Huitron C, Flores MEInt J Syst Evol Microbiol10.1099/ijs.0.02251-02003Base Sequence, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Microscopy, Electron, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/metabolism, Xylans/metabolismGenetics
Phylogeny24994773Streptomyces pluripotens sp. nov., a bacteriocin-producing streptomycete that inhibits meticillin-resistant Staphylococcus aureus.Lee LH, Zainal N, Azman AS, Eng SK, Ab Mutalib NS, Yin WF, Chan KGInt J Syst Evol Microbiol10.1099/ijs.0.065045-02014*Antibiosis, Avicennia, Bacterial Typing Techniques, Bacteriocins/*biosynthesis, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Malaysia, Methicillin-Resistant Staphylococcus aureus, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification/*metabolism, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
10580Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41796)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41796
18721Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41796.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
33203Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5721
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/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
85419Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100976.1StrainInfo: A central database for resolving microbial strain identifiers
120931Curators of the CIPCollection of Institut Pasteur (CIP 108132)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108132