Strain identifier

BacDive ID: 141

Type strain: Yes

Species: Bryocella elongata

Strain history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; SN10

NCBI tax ID(s): 863522 (species)

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General

@ref: 16359

BacDive-ID: 141

DSM-Number: 22489

keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoorganotroph, psychrophilic, Gram-negative, rod-shaped

description: Bryocella elongata DSM 22489 is an aerobe, chemoorganotroph, psychrophilic bacterium that was isolated from methanotrophic community enriched from a Sphagnum peat sample.

NCBI tax id

  • NCBI tax id: 863522
  • Matching level: species

strain history

  • @ref: 16359
  • history: <- S. N. Dedysh, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; SN10

doi: 10.13145/bacdive141.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/acidobacteriota
  • domain: Bacteria
  • phylum: Acidobacteriota
  • class: Terriglobia
  • order: Terriglobales
  • family: Acidobacteriaceae
  • genus: Bryocella
  • species: Bryocella elongata
  • full scientific name: Bryocella elongata Dedysh et al. 2012

@ref: 16359

domain: Bacteria

phylum: Acidobacteria

class: Acidobacteriia

order: Acidobacteriales

family: Acidobacteriaceae

genus: Bryocella

species: Bryocella elongata

full scientific name: Bryocella elongata Dedysh et al. 2012

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23106negative1.7-4.0 µm0.7-1.0 µmrod-shapedno
69480negative99.643

colony morphology

@refincubation periodcolony color
163598-14 days
23106light pink

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16359R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830; with strain-specific modifications) 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
16359BRYOCELLA ELONGATA MEDIUM (DSMZ Medium 1286)yeshttps://mediadive.dsmz.de/medium/1286Name: BRYOCELLA ELONGATA MEDIUM (DSMZ Medium 1286) Composition: Agar 15.0 g/l Glucose 0.5 g/l Fructose 0.5 g/l KH2PO4 0.1 g/l (NH4)2SO4 0.1 g/l MgSO4 x 7 H2O 0.05 g/l Yeast extract 0.05 g/l CaCl2 x 2 H2O 0.02 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16359positivegrowth20psychrophilic
23106positivemaximum32mesophilic
23106positiveminimum6.0psychrophilic
23106positiveoptimum20-24psychrophilic

culture pH

@refabilitytypepHPH range
23106positiveminimum3.2acidophile
23106positivemaximum6.6
23106positiveoptimum4.7-5.2

Physiology and metabolism

oxygen tolerance

  • @ref: 23106
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 23106
  • type: chemoorganotroph

spore formation

@refspore formationconfidence
69481no100
69480no99.995

halophily

  • @ref: 23106
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <3.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2310630089acetate-carbon source
2310616150benzoate-carbon source
2310616947citrate-carbon source
2310615748D-glucuronate-carbon source
2310616813galactitol-carbon source
2310616842formaldehyde-carbon source
2310615740formate-carbon source
2310615978glycerol 3-phosphate-carbon source
2310625115malate-carbon source
2310616183methane-carbon source
2310617790methanol-carbon source
2310617272propionate-carbon source
2310617814salicin-carbon source
2310627922sorbose-carbon source
2310630031succinate-carbon source
2310627082trehalose-carbon source
2310685146carboxymethylcellulose-hydrolysis
2310617029chitin-hydrolysis
2310628017starch-hydrolysis
2310637166xylan-hydrolysis
2310617997dinitrogen-nitrogen source
2310616811methionine-nitrogen source
2310616301nitrite-nitrogen source
2310626271proline-nitrogen source
2310627897tryptophan-nitrogen source
2310616199urea-nitrogen source
2310627266valine-nitrogen source
2310617057cellobiose+carbon source
2310616236ethanol+carbon source
2310628757fructose+carbon source
2310629806fumarate+carbon source
2310628260galactose+carbon source
2310617234glucose+carbon source
2310624996lactate+carbon source
2310617716lactose+carbon source
2310679285leucrose+carbon source
2310617306maltose+carbon source
2310637684mannose+carbon source
231066731melezitose+carbon source
2310628053melibiose+carbon source
23106506227N-acetylglucosamine+carbon source
2310616634raffinose+carbon source
2310626546rhamnose+carbon source
2310617992sucrose+carbon source
2310618222xylose+carbon source
2310637397chondroitin sulfate+hydrolysis
231065181fucoidan+hydrolysis
231066452lichenin+hydrolysis
2310617309pectin+hydrolysis
2310628938ammonium+nitrogen source
2310629987glutamate+nitrogen source
2310617632nitrate+nitrogen source
23106peptone+nitrogen source
2310626986threonine+nitrogen source
2310618186tyrosine+nitrogen source
23106yeast extract+nitrogen source

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitive
2310628971ampicillinyesyes
2310617698chloramphenicolyesyes
2310617833gentamicinyesyes
231067507neomycinyesyes
2310617076streptomycinyesyes
231066104kanamycinyesyes
231066472lincomycinyesyes
2310628368novobiocinyesyes

enzymes

@refvalueactivityec
16359catalase-1.11.1.6
16359cytochrome-c oxidase-1.9.3.1
23106acid phosphatase+3.1.3.2
23106alpha-glucosidase3.2.1.20
23106beta-galactosidase+3.2.1.23
23106beta-glucosidase3.2.1.21
23106beta-glucuronidase+3.2.1.31
23106catalase+1.11.1.6
23106cytochrome oxidase-1.9.3.1
23106esterase (C 4)+
23106esterase lipase (C 8)+
23106leucine arylamidase+3.4.11.1
23106N-acetyl-beta-glucosaminidase+3.2.1.52
23106naphthol-AS-BI-phosphohydrolase+
23106valine arylamidase+

Isolation, sampling and environmental information

isolation

  • @ref: 16359
  • sample type: methanotrophic community enriched from a Sphagnum peat sample
  • host species: Sphagnum
  • geographic location: Arkhangelsk Region (65°01' N 35°44' E)
  • country: Russia
  • origin.country: RUS
  • continent: Europe
  • latitude: 65.0167
  • longitude: 35.7333

isolation source categories

Cat1Cat2Cat3
#Engineered#Laboratory#Lab enrichment
#Host#Plants#Peat moss

taxonmaps

  • @ref: 69479
  • File name: preview.99_105159.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_236;96_42338;97_54144;98_71573;99_105159&stattab=map
  • Last taxonomy: Bryocella elongata subclade
  • 16S sequence: FR666706
  • Sequence Identity:
  • Total samples: 3254
  • soil counts: 1701
  • aquatic counts: 229
  • animal counts: 139
  • plant counts: 1185

Safety information

risk assessment

  • @ref: 16359
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16359
  • description: Bryocella elongata partial 16S rRNA gene, type strain SN10T
  • accession: FR666706
  • length: 1416
  • database: ena
  • NCBI tax ID: 863522

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bryocella elongata DSM 22489GCA_900108185contigncbi863522
66792Bryocella elongata strain DSM 22489863522.6wgspatric863522
66792Bryocella elongata DSM 224892684622995draftimg863522

GC content

@refGC-contentmethod
1635960.7thermal denaturation, midpoint method (Tm)
2310660.7Thermal denaturation, fluorometry

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno63.873no
flagellatedno90.996yes
gram-positiveno97.048no
anaerobicno98.224yes
halophileno95.698no
spore-formingno92.295no
glucose-utilyes86.138yes
aerobicyes82.858yes
glucose-fermentno89.641no
thermophileno96.258yes

External links

@ref: 16359

culture collection no.: DSM 22489, LMG 25276, SN 10

straininfo link

  • @ref: 69824
  • straininfo: 401742

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21551329Bryocella elongata gen. nov., sp. nov., a member of subdivision 1 of the Acidobacteria isolated from a methanotrophic enrichment culture, and emended description of Edaphobacter aggregans Koch et al. 2008.Dedysh SN, Kulichevskaya IS, Serkebaeva YM, Mityaeva MA, Sorokin VV, Suzina NE, Rijpstra WIC, Sinninghe Damste JSInt J Syst Evol Microbiol10.1099/ijs.0.031898-02011Acidobacteria/*classification/genetics/*isolation & purification/physiology, Aerobiosis, Bacterial Typing Techniques, Base Composition, Benzoquinones/analysis, Carbohydrate Metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Microscopy, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphagnopsida/*microbiology, TemperatureMetabolism
Phylogeny26546425Terracidiphilus gabretensis gen. nov., sp. nov., an Abundant and Active Forest Soil Acidobacterium Important in Organic Matter Transformation.Garcia-Fraile P, Benada O, Cajthaml T, Baldrian P, Llado SAppl Environ Microbiol10.1128/AEM.03353-152015Acidobacteria/genetics/*isolation & purification/*metabolism, Biodegradation, Environmental, Biotransformation, Forests, Molecular Sequence Data, Phylogeny, Plants/metabolism/microbiology, *Soil MicrobiologyMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16359Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22489)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22489
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
23106Svetlana N. Dedysh, Irina S. Kulichevskaya, Yulia M. Serkebaeva, Maria A. Mityaeva, Vladimir V. Sorokin, Natalia E. Suzina, W. Irene C. Rijpstra, Jaap S. Sinninghe Damst10.1099/ijs.0.031898-0Bryocella elongata gen. nov., sp. nov., a member of subdivision 1 of the Acidobacteria isolated from a methanotrophic enrichment culture, and emended description of Edaphobacter aggregans Koch et al. 2008IJSEM 62: 654-664 201221551329
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic 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.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
69824Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401742.1StrainInfo: A central database for resolving microbial strain identifiers