Strain identifier

BacDive ID: 16460

Type strain: Yes

Species: Streptomyces avicenniae

Strain Designation: 9-9

Strain history: CGMCC 4.5510 <-- J. Xiao et al. MCCC 1A01535.

NCBI tax ID(s): 500153 (species)

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General

@ref: 15798

BacDive-ID: 16460

DSM-Number: 41943

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive

description: Streptomyces avicenniae 9-9 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil of mangrove plant Avicennia mariana.

NCBI tax id

  • NCBI tax id: 500153
  • Matching level: species

strain history

@refhistory
15798<- J. Xu; 9-9 <- J. Xu
67770CGMCC 4.5510 <-- J. Xiao et al. MCCC 1A01535.

doi: 10.13145/bacdive16460.20230509.8.1

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 avicenniae
  • full scientific name: Streptomyces avicenniae Xiao et al. 2009

@ref: 15798

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces avicenniae

full scientific name: Streptomyces avicenniae Xiao et al. 2009

strain designation: 9-9

type strain: yes

Morphology

cell morphology

  • @ref: 29244
  • gram stain: positive
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
18731Curry10-14 daysISP 2
18731Curry10-14 daysISP 3
18731Ochre yellow (1024)10-14 daysISP 4
1873110-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
18731noISP 2
18731yesISP 3Aerial MyceliumPure white (9010)
18731yesISP 4Aerial MyceliumLight ivory (1015)
18731noISP 5
18731noISP 6
18731noISP 7

pigmentation

  • @ref: 29244
  • production: yes

multimedia

@refmultimedia contentintellectual property rightscaption
15798https://www.dsmz.de/microorganisms/photos/DSM_41943-1.jpg© Leibniz-Institut DSMZ
15798https://www.dsmz.de/microorganisms/photos/DSM_41943.jpg© Leibniz-Institut DSMZMedium 252 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15798GYM 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
18731ISP 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
18731ISP 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:
18731ISP 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
18731ISP 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
15798ROLLED 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
15798STARCH - 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

culture temp

@refgrowthtypetemperaturerange
15798positivegrowth28mesophilic
18731positiveoptimum28mesophilic
29244positivegrowth15-37
29244positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 29244
  • oxygen tolerance: aerobe

spore formation

  • @ref: 29244
  • spore formation: yes

observation

  • @ref: 67770
  • observation: quinones: MK-10(H6), MK-9(H6), MK-9(H8), MK-10(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2924422599arabinose+carbon source
2924428260galactose+carbon source
2924426546rhamnose+carbon source
2924417992sucrose+carbon source
2924418222xylose+carbon source

enzymes

@refvalueactivityec
29244gelatinase+
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
18731----------+--------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
15798soil of mangrove plant Avicennia marianaAvicennia marianaFujian ProvinceChinaCHNAsia
67770Rhizosphere of the mangrove plant Avicennia mariana from Fujian ProvinceAvicennia marianaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil
#Host#Plants#Tree

taxonmaps

  • @ref: 69479
  • File name: preview.99_2737.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_1457;97_1738;98_2123;99_2737&stattab=map
  • Last taxonomy: Streptomyces avicenniae subclade
  • 16S sequence: EU399234
  • Sequence Identity:
  • Total samples: 178
  • soil counts: 132
  • aquatic counts: 17
  • animal counts: 22
  • plant counts: 7

Safety information

risk assessment

  • @ref: 15798
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15798
  • description: Streptomyces avicenniae strain MCCC 1A01535 16S ribosomal RNA gene, partial sequence
  • accession: EU399234
  • length: 1491
  • database: ena
  • NCBI tax ID: 500153

Genome sequences

  • @ref: 67770
  • description: Streptomyces avicenniae NRRL B-24776
  • accession: GCA_000719135
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 500153

GC content

@refGC-contentmethod
1579873.3high performance liquid chromatography (HPLC)
2924473.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno93.235yes
flagellatedno97.81no
gram-positiveyes91.45no
anaerobicno99.453yes
halophileno85.52no
spore-formingyes93.725yes
thermophileno96.992yes
glucose-utilyes87.602no
aerobicyes92.35yes
glucose-fermentno91.155no

External links

@ref: 15798

culture collection no.: DSM 41943, CGMCC 4.5510, MCCC 1A01535, JCM 16801, NRRL B-24776

straininfo link

  • @ref: 85496
  • straininfo: 397939

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19625443Streptomyces avicenniae sp. nov., a novel actinomycete isolated from the rhizosphere of the mangrove plant Avicennia mariana.Xiao J, Wang Y, Luo Y, Xie SJ, Ruan JS, Xu JInt J Syst Evol Microbiol10.1099/ijs.0.009357-02009Avicennia/*microbiology, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Streptomyces/chemistry/classification/genetics/*isolation & purificationGenetics
Phylogeny24243968Streptomyces hoynatensis sp. nov., isolated from deep marine sediment.Veyisoglu A, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.055640-02013Bacterial Typing Techniques, Black Sea, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Streptomyces/*classification/genetics, Turkey, Vitamin K 2/chemistry, *Water MicrobiologyGenetics
Phylogeny25237147Streptomyces burgazadensis sp. nov., isolated from soil.Saricaoglu S, Isik K, Veyisoglu A, Saygin H, Cetin D, Guven K, Sproer C, Klenk HP, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.065870-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Turkey, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15798Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41943)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41943
18731Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41943.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
29244Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2566428776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
85496Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397939.1StrainInfo: A central database for resolving microbial strain identifiers