Strain identifier

BacDive ID: 159788

Type strain: Yes

Species: Streptomyces dengpaensis

Strain Designation: XZHG99

NCBI tax ID(s): 2049881 (species)

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General

@ref: 66711

BacDive-ID: 159788

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, Gram-positive, filament-shaped

description: Streptomyces dengpaensis XZHG99 is a spore-forming, Gram-positive, filament-shaped bacterium that builds substrate mycel and was isolated from soil collected from colour desert in Dengpa District.

NCBI tax id

  • NCBI tax id: 2049881
  • Matching level: species

doi: 10.13145/bacdive159788.20230509.8.1

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 dengpaensis
  • full scientific name: Streptomyces dengpaensis Li et al. 2018

@ref: 66711

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Streptomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces dengpaensis

strain designation: XZHG99

type strain: yes

Morphology

cell morphology

@refgram staincell shapeconfidence
66711positivefilament-shaped
69480positive100

multicellular morphology

  • @ref: 66711
  • forms multicellular complex: yes
  • complex name: substrate mycel
  • complex color: yellow
  • medium name: ISP 2

pigmentation

  • @ref: 66711
  • production: no
  • name: Melanin

Culture and growth conditions

culture temp

  • @ref: 66711
  • growth: positive
  • type: growth
  • temperature: 20-40

culture pH

  • @ref: 66711
  • ability: positive
  • type: growth
  • pH: 4-9
  • PH range: alkaliphile

Physiology and metabolism

spore formation

@refspore descriptiontype of sporespore formationconfidence
66711Straight spore chains and cylindrical spores. Spore surface is smooth.sporeyes
69480yes100
69481yes100

halophily

  • @ref: 66711
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %(w/v)

observation

@refobservation
66711Shows strong antimicrobial activity against S. aureus ATCC 6538 and M. smegmatis ATCC 19420
66711whole-cell hydrolysate contains LL-diaminopimelic acid, glucose, rhamnose and ribose
66711major menaquinone is MK-9(H 8 ) followed by MK-9(H 2 ), MK-9(H 6 ) and MK-9 (H 10 )
66711The polar lipid pattern is composed of diphosphati-dylglycerol, phospatidylethanolamine, phosphatidylinositol, phosphotidylinositol mannoside and phosphatidylglycerol.

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6671117814salicin-assimilation
6671115824D-fructose+assimilation
6671116634raffinose+assimilation
6671116899D-mannitol+assimilation
6671117108D-arabinose+assimilation
6671117268myo-inositol+assimilation
6671117634D-glucose+assimilation
6671117716lactose+assimilation
6671117924D-sorbitol+assimilation
6671117992sucrose+assimilation
6671127082trehalose+assimilation
6671128847D-fucose+assimilation
6671137166xylan+assimilation
6671163150D-rhamnose+assimilation
6671165327D-xylose+assimilation
6671162968cellulose-hydrolysis
6671117029chitin+hydrolysis
6671128017starch+hydrolysis
6671116199urea+nitrogen source
6671116467L-arginine+nitrogen source
6671117196L-asparagine+nitrogen source
6671117895L-tyrosine+nitrogen source
6671126271proline+nitrogen source
6671162946ammonium sulfate+nitrogen source
6671163005sodium nitrate+nitrogen source
6671163043potassium nitrate+nitrogen source
66711casein+nitrogen source
66711peptone+nitrogen source
66711yeast extract (0.01 %, w/v)+nitrogen source
6671117632nitrate+reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
667116104kanamycinyesyes50 µg/mL
6671117698chloramphenicolyesyes50 µg/mL
667112790apramycinyesyes50 µg/mL
6671117076streptomycinyesyes50 µg/mL
667117507neomycinyesyes50 µg/mL
667119215spectinomycinyesyes50 µg/mL
667116472lincomycinyesyes50 µg/mL
667113745clindamycinyesyes50 µg/mL
6671117833gentamicinyesyes50 µg/mL
6671148923erythromycinyesyes50 µg/mL
667117935paromomycin sulfateyesyes50 µg/mL
6671117658tylosinyesyes50 µg/mL
6671128971ampicillinyesno50 µg/mL
66711100147nalidixic acidyesno50 µg/mL

enzymes

@refvalueactivityec
66711cystine arylamidase-3.4.11.3
66711urease-3.5.1.5
66711valine arylamidase-
66711alpha-galactosidase+3.2.1.22
66711alpha-glucosidase+3.2.1.20
66711alpha-mannosidase+3.2.1.24
66711beta-glucosidase+3.2.1.21
66711catalase+1.11.1.6
66711cytochrome oxidase+1.9.3.1
66711gelatinase+
66711trypsin+3.4.21.4

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66711C15:0 iso17
    66711C16:016.3
    66711C16:0 iso29.1
  • type of FA analysis: whole cell analysis
  • incubation medium: ISP 2
  • incubation temperature: 30
  • incubation time: 4
  • library/peak naming table: RSBA6
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

  • @ref: 66711
  • sample type: soil collected from colour desert in Dengpa District
  • geographic location: Dengpa District,Tibet Autonomous Region
  • country: China
  • origin.country: CHN
  • continent: Asia
  • enrichment culture: ISP 7
  • enrichment culture composition: medium supplemented with inhibitor solution containing K 2 Cr 2 O 7 (25 mg/ml), calcium propionate (30 mg/ml) and cycloheximide (50 mg/ml)
  • enrichment culture duration: 7 days
  • enrichment culture temperature: 30
  • isolation procedure: 1 g of soil was diluted in 50 ml of (per litre) 1 g 3-morpholinopropanesulfoinc acid solution with 0.2 g CaCO 3. The resulting soil suspension was shaken at 180 r.p.m. at 30 C for 1 h. Then, 1 ml of the soil suspension was added to 9 ml of sterilized distilled water, and 100 µl diluted liquid was spread on ISP 7 medium

isolation source categories

Cat1Cat2Cat3
#Climate#Hot#Arid
#Environmental#Terrestrial#Desert
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

  • @ref: 66711
  • description: Streptomyces sp. XZHG99 16S ribosomal RNA gene, partial sequence
  • accession: MG272441
  • length: 1450
  • database: ena
  • NCBI tax ID: 2049881

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces dengpaensis XZHG99GCA_002946835completencbi2049881
66792Streptomyces dengpaensis XZHG992873258297completeimg2049881

GC content

  • @ref: 66711
  • GC-content: 69.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedno98.13no
gram-positiveyes86.623yes
anaerobicno98.646no
aerobicyes89.085no
halophileno94.623no
spore-formingyes93.413no
glucose-utilyes88.068no
thermophileno97.421no
motileno95.449no
glucose-fermentno87.306no

External links

@ref: 66711

culture collection no.: CGMCC 4.7472, KCTC 49090

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny30168793Streptomyces dengpaensis sp. nov., an actinomycete isolated from desert soil.Li Y, Li Y, Wang LW, Bao JInt J Syst Evol Microbiol10.1099/ijsem.0.0029942018Actinobacteria/genetics, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, *Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Tibet, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Biotechnology32815762Enhancement of angucycline production by combined UV mutagenesis and ribosome engineering and fermentation optimization in Streptomyces dengpaensis XZHG99(T).Li Y, Li J, Ye Z, Lu LPrep Biochem Biotechnol10.1080/10826068.2020.18057542020Anthraquinones/*chemistry, Anti-Bacterial Agents/chemistry, Chromatography, High Pressure Liquid, Drug Resistance, Bacterial, *Fermentation, Hydrogen-Ion Concentration, *Mutagenesis, Mutation, Phenotype, Ribosomes/*metabolism, Streptomyces/*genetics/*metabolism, Ultraviolet RaysPhenotype

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
66711Yamei Li, Yumei Li, Long wie Wang, Jie BaoStreptomyces dengpaensis sp. nov., an actinomycete isolated from desert soil10.1099/ijsem.0.002994IJSEM 68: 3322-3326 201830168793
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1