Strain identifier

BacDive ID: 16160

Type strain: Yes

Species: Streptomyces lilacinus

Strain Designation: 2305

Strain history: CIP <- 2003, JCM <- 1983, KCC <- M. Hamada <- Y. Okami (NIHJ 71) <- K. Nakazawa: strain 2305

NCBI tax ID(s): 68228 (species)

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General

@ref: 9408

BacDive-ID: 16160

DSM-Number: 40254

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, filament-shaped, antibiotic compound production

description: Streptomyces lilacinus 2305 is an obligate aerobe, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 68228
  • Matching level: species

strain history

@refhistory
9408<- E.B. Shirling, ISP <- IFO
67770KCC S-0188 <-- M. Hamada <-- Y. Okami (NIHJ 71) <-- K. Nakazawa 2305.
120598CIP <- 2003, JCM <- 1983, KCC <- M. Hamada <- Y. Okami (NIHJ 71) <- K. Nakazawa: strain 2305

doi: 10.13145/bacdive16160.20230509.8.1

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 lilacinus
  • full scientific name: Streptomyces lilacinus (Nakazawa et al. 1956) Witt and Stackebrandt 1991

  • synonyms

    @refsynonym
    20215Streptoverticillium kashmirensis
    20215Streptoverticillium kashmirense
    20215Streptomyces kashmirensis
    20215Streptoverticillium lilacinum
    20215Streptomyces kashimirensis
    20215Streptomyces lilacinus

@ref: 9408

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces lilacinus

full scientific name: Streptomyces lilacinus (Nakazawa et al. 1956) Witt and Stackebrandt 1991

strain designation: 2305

type strain: yes

Morphology

cell morphology

  • @ref: 120598
  • gram stain: positive
  • cell shape: filament-shaped
  • motility: no

colony morphology

  • @ref: 120598
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9408GYM 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
33899MEDIUM 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)
120598CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
9408positivegrowth28mesophilic
33899positivegrowth30mesophilic
67770positivegrowth28mesophilic
120598positivegrowth25-41
120598nogrowth10psychrophilic
120598nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 120598
  • oxygen tolerance: obligate aerobe

compound production

  • @ref: 9408
  • compound: cladomycin

halophily

@refsaltgrowthtested relationconcentration
120598NaClpositivegrowth0-2 %
120598NaClnogrowth4 %
120598NaClnogrowth6 %
120598NaClnogrowth8 %
120598NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12059816947citrate-carbon source
1205984853esculin+hydrolysis
120598606565hippurate-hydrolysis
12059817632nitrate-reduction
12059816301nitrite-reduction
12059817632nitrate-respiration

metabolite production

@refmetaboliteproductionChebi-ID
67770cladomycinyes
120598indoleno35581

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12059815688acetoin-
12059817234glucose-

enzymes

@refvalueactivityec
120598oxidase-
120598beta-galactosidase-3.2.1.23
120598alcohol dehydrogenase-1.1.1.1
120598gelatinase+/-
120598amylase+
120598DNase+
120598caseinase+3.4.21.50
120598catalase+1.11.1.6
120598tween esterase+
120598gamma-glutamyltransferase-2.3.2.2
120598lecithinase+
120598lipase+
120598lysine decarboxylase-4.1.1.18
120598ornithine decarboxylase-4.1.1.17
120598phenylalanine ammonia-lyase-4.3.1.24
120598protease+
120598tryptophan deaminase-
120598urease-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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120598-+++-+++--++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120598+--++----++-------++-----------++---------------+++--+-----+++----------++-----++---+-+-++++-++-++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
9408soil
67770SoilIchinoseki, Fukushima Pref.JapanJPNAsia
120598Environment, SoilIchinosekiJapanJPNAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
94081Risk group (German classification)
1205981Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces lilacinus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4188D44027121ena68228
20218Streptomyces lilacinus 16S rRNA gene, type strain LMG 20059AJ7813461476ena68228
20218Streptomyces lilacinus gene for 16S rRNA, partial sequence, strain: NBRC 12884AB2499061475ena68228
20218Streptomyces lilacinus gene for 16S rRNA, partial sequence, strain: NBRC 3944AB1848191475ena68228

Genome sequences

  • @ref: 67770
  • description: Streptomyces lilacinus NRRL B-1968
  • accession: GCA_000715685
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 68228

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.361no
flagellatedno98.373no
gram-positiveyes90.574no
anaerobicno99.279no
halophileno95.467no
spore-formingyes94.923no
thermophileno95.394yes
glucose-utilyes91.141no
aerobicyes90.567no
glucose-fermentno90.897no

External links

@ref: 9408

culture collection no.: DSM 40254, ATCC 23930, CBS 914.68, ETH 24214, IFO 12884, IFO 3944, IPV 1999, ISP 5254, JCM 4188, JCM 4648, NBRC 12884, NBRC 3944, RIA 1180, BCRC 12421, BCRC 15107, CECT 3264, CIP 108148, KCTC 9875, NRRL B-1968, CCRC 12421, KCC S-0188

straininfo link

  • @ref: 85225
  • straininfo: 38291

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics24242000Strain-specific proteogenomics accelerates the discovery of natural products via their biosynthetic pathways.Albright JC, Goering AW, Doroghazi JR, Metcalf WW, Kelleher NLJ Ind Microbiol Biotechnol10.1007/s10295-013-1373-42013Biological Products/chemistry/*metabolism, Biosynthetic Pathways/genetics, *Genome, Bacterial, Genomics/methods, Mass Spectrometry, Proteomics/*methods, Siderophores/genetics/metabolism, Species Specificity, Streptomyces/*genetics/metabolismMetabolism
Phylogeny27405543Streptomyces palmae sp. nov., isolated from oil palm (Elaeis guineensis) rhizosphere soil.Sujarit K, Kudo T, Ohkuma M, Pathom-Aree W, Lumyong SInt J Syst Evol Microbiol10.1099/ijsem.0.0012982016Arecaceae/*microbiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Thailand, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny31316480Taxonomy and Broad-Spectrum Antifungal Activity of Streptomyces sp. SCA3-4 Isolated From Rhizosphere Soil of Opuntia stricta.Qi D, Zou L, Zhou D, Chen Y, Gao Z, Feng R, Zhang M, Li K, Xie J, Wang WFront Microbiol10.3389/fmicb.2019.013902019

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9408Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40254)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40254
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
33899Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5738
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
85225Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38291.1StrainInfo: A central database for resolving microbial strain identifiers
120598Curators of the CIPCollection of Institut Pasteur (CIP 108148)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108148