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Strain identifier

BacDive ID: 158790

Type strain: Yes

Species: Amycolatopsis silviterrae

Strain Designation: C12CA1

NCBI tax ID(s): 1656914 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 65547

BacDive-ID: 158790

keywords: 16S sequence, Bacteria, aerobe, spore-forming, Gram-positive, rod-shaped, pigmented

description: Amycolatopsis silviterrae C12CA1 is an aerobe, spore-forming, Gram-positive bacterium that builds a substrate mycelium and has a greenish-yellow pigmentation.

NCBI tax id

  • NCBI tax id: 1656914
  • Matching level: species

doi: 10.13145/bacdive158790.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Amycolatopsis
  • species: Amycolatopsis silviterrae
  • full scientific name: Amycolatopsis silviterrae Jamjan et al. 2018

@ref: 65547

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Pseudonocardiales

family: Pseudonocardiaceae

genus: Amycolatopsis

species: Amycolatopsis silviterrae

strain designation: C12CA1

type strain: yes

Morphology

cell morphology

  • @ref: 65547
  • gram stain: positive
  • cell shape: rod-shaped

multicellular morphology

@refforms multicellular complexcomplex namecomplex color
65547yessubstrate myceliumyellowish-brown
65547yesaerial mycelium

pigmentation

  • @ref: 65547
  • production: yes
  • color: greenish-yellow

Culture and growth conditions

culture medium

@refnamegrowth
65547ISP 2yes
65547ISP 3yes
65547ISP 4yes
65547ISPno
65547ISP 6yes
65547ISP 7yes
65547Nutrient agar (NA)yes

culture temp

@refgrowthtypetemperaturerange
65547positivegrowth15-40
65547positiveoptimum25-30mesophilic

culture pH

@refabilitytypepHPH range
65547positivegrowth5-12alkaliphile
65547positiveoptimum7-10

Physiology and metabolism

oxygen tolerance

  • @ref: 65547
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65547
  • spore description: greenish-yellow aerial spore
  • spore formation: yes

halophily

  • @ref: 65547
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6554716708adenine-hydrolysis
65547casein+hydrolysis
6554717057cellobiose+carbon source
6554762968cellulose-hydrolysis
6554717029chitin-hydrolysis
6554715824D-fructose+carbon source
6554712936D-galactose+carbon source
6554716899D-mannitol+carbon source
6554716988D-ribose+carbon source
6554765327D-xylose+carbon source
6554717754glycerol-carbon source
6554717368hypoxanthine+hydrolysis
6554730849L-arabinose+carbon source
6554762345L-rhamnose-carbon source
6554717716lactose+carbon source
6554737684mannose+carbon source
6554728053melibiose-carbon source
6554717268myo-inositol+carbon source
6554717632nitrate-reduction
6554716634raffinose+carbon source
6554717814salicin+carbon source
6554730911sorbitol-carbon source
6554727922sorbose-carbon source
6554728017starch-hydrolysis
6554717992sucrose-carbon source
6554727082trehalose-carbon source
6554753426tween 80+hydrolysis
6554715318xanthine+hydrolysis
6554717151xylitol-carbon source

enzymes

@refvalueactivityec
65547alkaline phosphatase+3.1.3.1
65547esterase (C 4)+
65547esterase Lipase (C 8)+
65547leucine arylamidase+3.4.11.1
65547valine arylamidase+
65547cystine arylamidase+3.4.11.3
65547trypsin+3.4.21.4
65547alpha-chymotrypsin+3.4.21.1
65547acid phosphatase+3.1.3.2
65547naphthol-AS-BI-phosphohydrolase+
65547beta-galactosidase+3.2.1.23
65547N-acetyl-beta-glucosaminidase+3.2.1.52
65547alpha-mannosidase+3.2.1.24
65547lipase (C 14)-
65547alpha-galactosidase-3.2.1.22
65547beta-glucuronidase-3.2.1.31
65547alpha-glucosidase-3.2.1.20
65547beta-glucosidase-3.2.1.21
65547alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65547C14:01.5
    65547C16:027.9
    65547C17:02.5
    65547C18:01.7
    65547C15:1ω6c0.8
    65547C14:0 iso2.3
    65547C15:0 iso24.2
    65547C16:0 iso17.5
    65547C17:0 iso6.3
    65547C15:0 anteiso1.6
    65547C16:0 anteiso0.9
    65547C17:0 anteiso2.3
    65547C16:1ω7c / C16:1ω6c7.7
    65547C16:0 10-methyl / iso-C17:1ω9c0.1
  • type of FA analysis: whole cell analysis
  • incubation medium: ISP2
  • incubation temperature: 28
  • incubation time: 5
  • library/peak naming table: RTSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 2001

Isolation, sampling and environmental information

isolation

  • @ref: 65547
  • sample type: forest soil
  • geographic location: Chulabhorn dam, Chaiyaphum Province
  • country: Thailand
  • origin.country: THA
  • continent: Asia
  • enrichment culture: actinomycetes isolation agar
  • enrichment culture composition: 4 g sodium propionate, 2 g sodium caseinate, 0.5 g K2HPO4, 0.1 g asparagine, 0.1 g MgSO4 . 7H2O, 1 g FeSO4 . 7H2O, 5 ml glycerol, 15 g agar and 1 l distilled water supplemented with cycloheimide (50 mg/l) and nalidixic acid (50 mg/l).
  • enrichment culture duration: 3-4 weeks
  • enrichment culture temperature: 28

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

  • @ref: 65547
  • description: 16S rRNA gene sequence
  • accession: KR818707
  • database: nuccore

GC content

  • @ref: 65547
  • GC-content: 69.8
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 65547

culture collection no.: TBRC 1456, NBRC 111116

literature

  • topic: Phylogeny
  • Pubmed-ID: 29533177
  • title: Amycolatopsis silviterrae sp. nov., isolated from forest soil.
  • authors: Jamjan W, Suriyachadkun C, Tanasupawat S, Sakai K, Tashiro Y, Okugawa Y, Tongpim S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002687
  • year: 2018
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

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
65547Winai Jamjan, Chanwit Suriyachadkun, Somboon Tanasupawat, Kenji Sakai, Yukihiro Tashiro, Yuki Okugawa and Saowanit TongpimAmycolatopsis silviterrae sp. nov., isolated from forest soil10.1099/ijsem.0.002687IJSEM 68: 1455-1460 201829533177