Strain identifier

BacDive ID: 131332

Type strain: Yes

Species: Chryseobacterium polytrichastri

Strain Designation: YG4-6

Strain history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; YG4-6 <- X. Chen and R. Zhao

NCBI tax ID(s): 1302687 (species)

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

@ref: 22559

BacDive-ID: 131332

DSM-Number: 26899

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Chryseobacterium polytrichastri YG4-6 is a mesophilic, Gram-negative bacterium that was isolated from surface-disinfected moss .

NCBI tax id

  • NCBI tax id: 1302687
  • Matching level: species

strain history

  • @ref: 22559
  • history: <- Y. Li, College of Life Sci., Capital Normal Univ., Beijing , PR China; YG4-6 <- X. Chen and R. Zhao

doi: 10.13145/bacdive131332.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium polytrichastri
  • full scientific name: Chryseobacterium polytrichastri Chen et al. 2015

@ref: 22559

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium polytrichastri

full scientific name: Chryseobacterium polytrichastri Chen et al. 2015

strain designation: YG4-6

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.99

Culture and growth conditions

culture medium

  • @ref: 22559
  • name: TGY MEDIUM (DSMZ Medium 1496)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1496
  • composition: Name: PGY MEDIUM (DSMZ Medium 1496) Composition: Agar 15.0 g/l Tryptone 5.0 g/l Yeast extract 3.0 g/l D-Glucose 1.0 g/l Distilled water

culture temp

  • @ref: 22559
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

Isolation, sampling and environmental information

isolation

  • @ref: 22559
  • sample type: surface-disinfected moss (Polytrichastrum formosum)
  • host species: Polytrichastrum formosum
  • geographic location: Tibet province, 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_11446.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_206;97_2215;98_8562;99_11446&stattab=map
  • Last taxonomy: Chryseobacterium
  • 16S sequence: KC560018
  • Sequence Identity:
  • Total samples: 1842
  • soil counts: 509
  • aquatic counts: 503
  • animal counts: 526
  • plant counts: 304

Safety information

risk assessment

  • @ref: 22559
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22559
  • description: Chryseobacterium polytrichastri strain YG4-6 16S ribosomal RNA gene, partial sequence
  • accession: KC560018
  • length: 1478
  • database: ena
  • NCBI tax ID: 1302687

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium polytrichastri DSM 26899GCA_900142445scaffoldncbi1302687
66792Chryseobacterium polytrichastri strain DSM 268991302687.4wgspatric1302687
66792Chryseobacterium polytrichastri DSM 268992700988715draftimg1302687

GC content

  • @ref: 22559
  • GC-content: 37.3
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno89.503no
flagellatedno95.522no
gram-positiveno98.04no
anaerobicno99.462no
aerobicyes93.877no
halophileno95.479no
spore-formingno93.3no
thermophileno99.684yes
glucose-utilyes89.091no
glucose-fermentno88.68no

External links

@ref: 22559

culture collection no.: DSM 26899, CGMCC 1.12491

straininfo link

  • @ref: 89773
  • straininfo: 400357

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25450189Chryseobacterium polytrichastri sp. nov., isolated from a moss (Polytrichastrum formosum), and emended description of the genus Chryseobacterium.Chen XY, Zhao R, Chen ZL, Liu L, Li XD, Li YHAntonie Van Leeuwenhoek10.1007/s10482-014-0338-62014Bacterial Typing Techniques, Base Composition, Bryophyta/growth & development/*microbiology, Chryseobacterium/*classification/genetics/*isolation & purification, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Ice Cover, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Vitamin K 2/analysisGenetics
Phylogeny25812970Chryseobacterium limigenitum sp. nov., isolated from dehydrated sludge.Kampfer P, Trcek J, Skok B, Sorgo A, Glaeser SPAntonie Van Leeuwenhoek10.1007/s10482-015-0434-22015Bacterial Typing Techniques, Chryseobacterium/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pigments, Biological/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiologyGenetics
Phylogeny26573006Chryseobacterium panacis sp. nov., isolated from ginseng soil.Singh P, Kim YJ, Farh Mel-A, Dan WD, Kang CH, Yang DCAntonie Van Leeuwenhoek10.1007/s10482-015-0620-22015Base Composition, Chryseobacterium/classification/genetics/*isolation & purification/metabolism, Fatty Acids/chemistry/metabolism, Molecular Sequence Data, Panax/*growth & development, Phylogeny, Republic of Korea, *Soil MicrobiologyMetabolism
Phylogeny29458480Chryseobacterium glaciei sp. nov., isolated from the surface of a glacier in the Indian trans-Himalayas.Pal M, Kumari M, Kiran S, Salwan R, Mayilraj S, Chhibber S, Gulati AInt J Syst Evol Microbiol10.1099/ijsem.0.0026002018Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/*microbiology, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcatalogue
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
22559Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26899Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26899)
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
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
89773Reimer, 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-ID400357.1