Strain identifier

BacDive ID: 13510

Type strain: Yes

Species: Sciscionella marina

Strain history: <- XP Tian, Yunnan Inst., China

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

@ref: 15447

BacDive-ID: 13510

DSM-Number: 45152

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

description: Sciscionella marina DSM 45152 is an aerobe, spore-forming, mesophilic bacterium that was isolated from marine sand sediment at a depth about 500 m.

NCBI tax id

NCBI tax idMatching level
508770species
1123244strain

strain history

@refhistory
15447<- S.-K. Tang and W.-J. Li, YIM; SCSIO 00231 <- X.-P. Tian et al.
67770KCTC 19433 <-- X.-P. Tian SCSIO 00231.
67771<- XP Tian, Yunnan Inst., China

doi: 10.13145/bacdive13510.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Sciscionella
  • species: Sciscionella marina
  • full scientific name: Sciscionella marina Tian et al. 2009

@ref: 15447

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Sciscionella

species: Sciscionella marina

full scientific name: Sciscionella marina Tian et al. 2009 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
28934positive
67771positive
69480positive100

pigmentation

  • @ref: 28934
  • production: no

multimedia

@refmultimedia contentcaptionintellectual property rights
15447https://www.dsmz.de/microorganisms/photos/DSM_45152.jpgMedium 65 28°C© Leibniz-Institut DSMZ
66793EM_DSM_45152_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45152_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45152_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45152_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_45152_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 15447
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: 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
15447positivegrowth28mesophilic
28934positivegrowth10-37
28934positiveoptimum28mesophilic
67770positivegrowth28mesophilic
67771positivegrowth28mesophilic

culture pH

@refabilitytypepH
28934positivegrowth6.0-8.0
28934positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
28934aerobe
67771aerobe

spore formation

@refspore formationconfidence
69481yes98
69480yes98.741

halophily

@refsaltgrowthtested relationconcentration
28934NaClpositivegrowth0-13 %
28934NaClpositiveoptimum4 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2893417057cellobiose+carbon source
2893428757fructose+carbon source
2893428260galactose+carbon source
2893417234glucose+carbon source
2893417716lactose+carbon source
2893429864mannitol+carbon source
2893437684mannose+carbon source
2893433942ribose+carbon source
2893427082trehalose+carbon source

enzymes

@refvalueactivityec
28934catalase+1.11.1.6
28934gelatinase+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15447marine sand sediment at a depth about 500 mnorthern South China SeaChinaCHNAsia
67770Marine sand sediment at a depth of about 500 mnorthern South China Sea
67771From marine sedimentNorthern South China SeaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Sandy

taxonmaps

  • @ref: 69479
  • File name: preview.99_3870.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1985;97_2386;98_2947;99_3870&stattab=map
  • Last taxonomy: Sciscionella marina subclade
  • 16S sequence: EU503139
  • Sequence Identity:
  • Total samples: 1082
  • soil counts: 390
  • aquatic counts: 101
  • animal counts: 545
  • plant counts: 46

Safety information

risk assessment

  • @ref: 15447
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15447
  • description: Sciscionella marina strain SCSIO 00231 16S ribosomal RNA gene, partial sequence
  • accession: EU503139
  • length: 1465
  • database: ena
  • NCBI tax ID: 508770

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sciscionella marina DSM 451521123244.5wgspatric1123244
66792Sciscionella marina DSM 451522515154143draftimg1123244
67770Sciscionella marina DSM 45152GCA_000379465scaffoldncbi1123244

GC content

@refGC-contentmethod
2893469
6777067.8genome sequence analysis
6777069high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes98no
motileno94.931no
flagellatedno98.467no
gram-positiveyes84.096yes
anaerobicno98.756yes
aerobicyes87.217yes
halophileno78.876no
spore-formingyes80.726no
glucose-utilyes86.258yes
thermophileno97.635yes
glucose-fermentno92.477no

External links

@ref: 15447

culture collection no.: DSM 45152, CCTCC AA 208009, KCTC 19433, SCSIO 00231, JCM 16222, NBRC 106527

straininfo link

  • @ref: 82702
  • straininfo: 408186

literature

  • topic: Phylogeny
  • Pubmed-ID: 19196758
  • title: Sciscionella marina gen. nov., sp. nov., a marine actinomycete isolated from a sediment in the northern South China Sea.
  • authors: Tian XP, Zhi XY, Qiu YQ, Zhang YQ, Tang SK, Xu LH, Zhang S, Li WJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.001982-0
  • year: 2009
  • mesh: Actinomycetales/chemistry/*classification/genetics/isolation & purification, Cell Wall/chemistry, China, Geologic Sediments/*microbiology, Molecular Sequence Data, Oceans and Seas, Phylogeny, RNA, Ribosomal, 16S/genetics, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15447Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45152)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45152
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
28934Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2537328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life28604660 35: 676-683 2017
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82702Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID408186.1StrainInfo: A central database for resolving microbial strain identifiers