Strain identifier

BacDive ID: 24054

Type strain: Yes

Species: Trujillonella endophytica

Strain history: <- S-K Tang, Yunnan Inst., China

NCBI tax ID(s): 673521 (species)

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General

@ref: 20463

BacDive-ID: 24054

DSM-Number: 45413

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

description: Trujillonella endophytica DSM 45413 is an aerobe, mesophilic, Gram-positive bacterium that has a white to pink to black pigmentation and was isolated from surface sterilized, healthy leaves of the traditional Chinese medicinal plant Camptotheca acuminata.

NCBI tax id

  • NCBI tax id: 673521
  • Matching level: species

strain history

@refhistory
20463<- S.-K. Tang, YIM; YIM 68236 <- W.-Y. Zhu
67770S.-K. Tang YIM 68236.
67771<- S-K Tang, Yunnan Inst., China

doi: 10.13145/bacdive24054.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Geodermatophilales
  • family: Geodermatophilaceae
  • genus: Trujillonella
  • species: Trujillonella endophytica
  • full scientific name: Trujillonella endophytica (Zhu et al. 2013) Montero-Calasanz et al. 2023

  • synonyms

    • @ref: 20215
    • synonym: Blastococcus endophyticus

@ref: 20463

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Geodermatophilaceae

genus: Blastococcus

species: Blastococcus endophyticus

full scientific name: Blastococcus endophyticus Zhu et al. 2013 emend. Hezbri et al. 2016

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
30996positiveno
67771positive
69480positive100

colony morphology

  • @ref: 24981
  • colony color: white to pink to black

pigmentation

  • @ref: 24981
  • production: yes
  • color: white to pink to black

multimedia

  • @ref: 20463
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45413.jpg
  • caption: Medium 535 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20463TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
20463GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf
20463GYM 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

culture temp

@refgrowthtypetemperaturerange
20463positivegrowth28mesophilic
30996positivegrowth10-45
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

culture pH

@refabilitytypepH
30996positivegrowth5.0-8.0
30996positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30996no
69481no97
69480no98.745

halophily

  • @ref: 30996
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

observation

@refobservation
67770quinones: MK-9(H4)
67771quinones: MK-9(H4), MK-9(H6) (4.2%), MK-8 (4.6%)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
24981167632-oxobutanoate-oxidation
2498117968butyrate-oxidation
2498116537galactarate-oxidation
2498116467L-arginine-oxidation
2498129991L-aspartate-oxidation
2498135418n-acetylneuraminate-oxidation
2498117309pectin-oxidation
2498130612D-glucarate+oxidation
249818391D-gluconate+oxidation
2498117924D-sorbitol+oxidation
2498123652dextrin+oxidation
2498128066gentiobiose+oxidation
2498137657methyl D-glucoside+oxidation
2498175229sodium bromate+oxidation
24981370543-hydroxybutyrate+/-oxidation
2498129990D-aspartate+/-oxidation
2498118024D-galacturonic acid+/-oxidation
2498116899D-mannitol+/-oxidation
249815291gelatin+/-oxidation
2498116977L-alanine+/-oxidation
24981506227N-acetylglucosamine+/-oxidation
2498117814salicin+/-oxidation
3099622599arabinose+carbon source
3099633942ribose+carbon source
3099653423tween 40+carbon source
3099653426tween 80+carbon source
309964853esculin+hydrolysis

enzymes

@refvalueactivityec
24981catalase+1.11.1.6
24981cytochrome oxidase-1.9.3.1
30996acid phosphatase+3.1.3.2
30996alkaline phosphatase+3.1.3.1
30996catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
20463surface sterilized, healthy leaves of the traditional Chinese medicinal plant Camptotheca acuminataCamptotheca acuminataYunnan ProvinceChinaCHNAsia
67770Leaves of Camptotheca acuminata in Yunnan ProvinceCamptotheca acuminataChinaCHNAsia
67771From leaves of' Camptotheca acuminata' Decne.Yunnan ProvinceChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Leaf (Phyllosphere)
#Host Body-Site#Plant#Sterilized plant part

Safety information

risk assessment

  • @ref: 20463
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20463
  • description: Blastococcus endophyticus strain YIM 68236 16S ribosomal RNA gene, partial sequence
  • accession: GQ494034
  • length: 1435
  • database: ena
  • NCBI tax ID: 673521

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Blastococcus endophyticus strain DSM 45413673521.3wgspatric673521
66792Blastococcus endophyticus DSM 454132599185194draftimg673521
67770Blastococcus endophyticus DSM 45413GCA_900110555scaffoldncbi673521

GC content

@refGC-contentmethod
2046371.6high performance liquid chromatography (HPLC)
3099671.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno97no
gram-positiveyes89.316yes
anaerobicno99.214no
halophileno94.085no
spore-formingno77.374yes
glucose-utilyes86.147no
thermophileno96.737yes
flagellatedno93.652yes
motileyes65.114no
aerobicyes92.206yes
glucose-fermentno92.004no

External links

@ref: 20463

culture collection no.: DSM 45413, CCTCC AA 209045, KCTC 19998, YIM 68236, JCM 17896, JCM 31483

straininfo link

  • @ref: 88025
  • straininfo: 404190

literature

  • topic: Phylogeny
  • Pubmed-ID: 23475341
  • title: Blastococcus endophyticus sp. nov., an actinobacterium isolated from Camptotheca acuminata.
  • authors: Zhu WY, Zhang JL, Qin YL, Xiong ZJ, Zhang DF, Klenk HP, Zhao LX, Xu LH, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.049239-0
  • year: 2013
  • mesh: Actinomycetales/*classification/genetics/isolation & purification, Base Composition, Camptotheca/*microbiology, DNA, Bacterial/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves/microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcataloguejournalpubmedID_cross_reference
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
20463Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45413Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45413)
24981K. L. Hezbri, Moussa,Nouioui, Imen,Gtari, Maher,Rohde, Manfred,Spröer, Cathrin,Schumann, Peter,Klenk, Hans-Peter,Ghodhbane-Gtari, Faten,Montero-Calasanz, Maria del CarmenBlastococcus capsensis sp. nov., isolated from an archaeological Roman pool and emended description of the genus Blastococcus, B. aggregatus, B. saxobsidens, B. jejuensis and B. endophyticus10.1099/ijsem.0.001443IJSEM 66: 4864-4872 201627553620
30996Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172877604127326
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
88025Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID404190.1