Strain identifier

BacDive ID: 24552

Type strain: Yes

Species: Mucilaginibacter polytrichastri

Strain Designation: RG4-7

Strain history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; RG4-7 <- R. Zhao and X. Chen

NCBI tax ID(s): 1302689 (species)

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

@ref: 21149

BacDive-ID: 24552

DSM-Number: 26907

keywords: genome sequence, 16S sequence, Bacteria

description: Mucilaginibacter polytrichastri RG4-7 is a bacterium that was isolated from surface-disinfected moss Polytrichastrum formosum.

NCBI tax id

  • NCBI tax id: 1302689
  • Matching level: species

strain history

  • @ref: 21149
  • history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; RG4-7 <- R. Zhao and X. Chen

doi: 10.13145/bacdive24552.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Sphingobacteriia
  • order: Sphingobacteriales
  • family: Sphingobacteriaceae
  • genus: Mucilaginibacter
  • species: Mucilaginibacter polytrichastri
  • full scientific name: Mucilaginibacter polytrichastri Chen et al. 2014

@ref: 21149

domain: Bacteria

phylum: Bacteroidetes

class: Sphingobacteriia

order: Sphingobacteriales

family: Sphingobacteriaceae

genus: Mucilaginibacter

species: Mucilaginibacter polytrichastri

full scientific name: Mucilaginibacter polytrichastri Chen et al. 2014

strain designation: RG4-7

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no91.653
6948099.913negative

Culture and growth conditions

culture medium

  • @ref: 21149
  • name: R2A MEDIUM (DSMZ Medium 830)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/830
  • composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.997

Isolation, sampling and environmental information

isolation

  • @ref: 21149
  • sample type: surface-disinfected moss Polytrichastrum formosum
  • host species: Polytrichastrum formosum
  • geographic location: Tibet plateau, Gawalong glacier zone (29° 38' 58.66'' N 91° 06' 56.34'' E)
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 29.6496
  • longitude: 91.1156

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Moss
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_3966.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_115;96_2015;97_2427;98_3003;99_3966&stattab=map
  • Last taxonomy: Mucilaginibacter polytrichastri subclade
  • 16S sequence: KC560020
  • Sequence Identity:
  • Total samples: 1309
  • soil counts: 628
  • aquatic counts: 251
  • animal counts: 228
  • plant counts: 202

Safety information

risk assessment

  • @ref: 21149
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21149
  • description: Mucilaginibacter polytrichastri strain RG4-7 from China 16S ribosomal RNA gene, partial sequence
  • accession: KC560020
  • length: 1483
  • database: ena
  • NCBI tax ID: 1302689

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Mucilaginibacter polytrichastri DSM 26907GCA_900116355scaffoldncbi1302689
66792Mucilaginibacter polytrichastri RG4-7GCA_001911425scaffoldncbi1302689
66792Mucilaginibacter polytrichastri strain DSM 269071302689.3wgspatric1302689
66792Mucilaginibacter polytrichastri RG4-72843472405draftimg1302689
66792Mucilaginibacter polytrichastri DSM 269072622736518draftimg1302689

GC content

  • @ref: 21149
  • GC-content: 39.1
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno90.169no
flagellatedno98.187no
gram-positiveno96.562no
anaerobicno99.448no
aerobicyes87.887no
halophileno95.787no
spore-formingno94.051no
glucose-fermentno89.325no
thermophileno99.055no
glucose-utilyes90.563no

External links

@ref: 21149

culture collection no.: DSM 26907, CGMCC 1.12493

straininfo link

  • @ref: 88407
  • straininfo: 398261

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24436070Mucilaginibacter polytrichastri sp. nov., isolated from a moss (Polytrichastrum formosum), and emended description of the genus Mucilaginibacter.Chen XY, Zhao R, Tian Y, Kong BH, Li XD, Chen ZL, Li YHInt J Syst Evol Microbiol10.1099/ijs.0.055335-02014Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, Bryophyta/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Vitamin K 2/analogs & derivatives/chemistryGenetics
Genetics31757614An assessment of the genomics, comparative genomics and cellulose degradation potential of Mucilaginibacter polytrichastri strain RG4-7.Wang ZY, Wang RX, Zhou JS, Cheng JF, Li YHBioresour Technol10.1016/j.biortech.2019.1223892019Bacteroidetes, Carbohydrate Metabolism, *Cellulase, *Cellulose, Genomics, Whole Genome SequencingMetabolism

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
21149Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26907Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26907)
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
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
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
88407Reimer, 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-ID398261.1