Strain identifier

BacDive ID: 140719

Type strain: Yes

Species: Tundrisphaera lichenicola

Strain Designation: P12

NCBI tax ID(s): 2029860 (species)

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General

@ref: 43497

BacDive-ID: 140719

keywords: 16S sequence, Bacteria, obligate aerobe, chemoheterotroph, sphere-shaped, colony-forming

description: Tundrisphaera lichenicola P12 is an obligate aerobe, chemoheterotroph, sphere-shaped bacterium that forms circular colonies and was isolated from upper oxic layer of lichen-dominated peatland tundra soils.

NCBI tax id

  • NCBI tax id: 2029860
  • Matching level: species

doi: 10.13145/bacdive140719.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/planctomycetota
  • domain: Bacteria
  • phylum: Planctomycetota
  • class: Planctomycetia
  • order: Isosphaerales
  • family: Isosphaeraceae
  • genus: Tundrisphaera
  • species: Tundrisphaera lichenicola
  • full scientific name: Tundrisphaera lichenicola Kulichevskaya et al. 2017

@ref: 43497

domain: Bacteria

phylum: Planctomycetes

class: Planctomycea

order: Isosphaerales

family: Isosphaeraceae

genus: Tundrisphaera

species: Tundrisphaera lichenicola

strain designation: P12

type strain: yes

Morphology

cell morphology

  • @ref: 43497
  • cell length: 2.2-3 µm
  • cell shape: sphere-shaped
  • motility: no

colony morphology

  • @ref: 43497
  • colony size: 1-2 mm
  • colony color: pink
  • colony shape: circular
  • medium used: phytagel-solidified medium M31

Culture and growth conditions

culture medium

  • @ref: 43497
  • name: phytagel-solidified medium M31
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43497positivegrowth4-28
43497positiveoptimum15-22psychrophilic

culture pH

@refabilitytypepH
43497positivegrowth4.5-6.8
43497positiveoptimum5.5-6

Physiology and metabolism

oxygen tolerance

  • @ref: 43497
  • oxygen tolerance: obligate aerobe

nutrition type

  • @ref: 43497
  • type: chemoheterotroph

observation

  • @ref: 43497
  • observation: NaCl inhibits growth at concentrations above 0.1% (w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4349730089acetate-assimilation
4349715963ribitol-assimilation
4349716449alanine-assimilation
4349729016arginine-assimilation
4349722653asparagine-assimilation
4349735391aspartate-assimilation
4349716150benzoate-assimilation
4349727689decanoate-assimilation
4349716947citrate-assimilation
4349715356cysteine-assimilation
4349717376cystine-assimilation
4349724996lactate-assimilation
4349725115malate-assimilation
4349716813galactitol-assimilation
4349716236ethanol-assimilation
4349716842formaldehyde-assimilation
4349715740formate-assimilation
4349733984fucose-assimilation
4349729806fumarate-assimilation
4349724175galacturonate-assimilation
4349724265gluconate-assimilation
4349728300glutamine-assimilation
4349717859glutaric acid-assimilation
4349717754glycerol-assimilation
4349715428glycine-assimilation
4349727570histidine-assimilation
4349724898isoleucine-assimilation
4349725017leucine-assimilation
4349725094lysine-assimilation
4349729864mannitol-assimilation
434976731melezitose-assimilation
4349717790methanol-assimilation
4349716811methionine-assimilation
4349736405norleucine-assimilation
4349718257ornithine-assimilation
4349728044phenylalanine-assimilation
4349726271proline-assimilation
4349717272propionate-assimilation
4349715361pyruvate-assimilation
4349716634raffinose-assimilation
4349717822serine-assimilation
4349730911sorbitol-assimilation
4349727922sorbose-assimilation
4349730031succinate-assimilation
4349726986threonine-assimilation
4349727897tryptophan-assimilation
4349718186tyrosine-assimilation
4349727266valine-assimilation
4349727897tryptophan-energy source
43497casein hydrolysate-hydrolysis
4349762968cellulose-hydrolysis
4349717029chitin-hydrolysis
4349716261chitosan-hydrolysis
4349737397chondroitin sulfate-hydrolysis
434976364laminarin-hydrolysis
4349717309pectin-hydrolysis
4349722599arabinose+carbon source
4349717057cellobiose+carbon source
4349728757fructose+carbon source
4349728260galactose+carbon source
4349717234glucose+carbon source
4349717716lactose+carbon source
4349779285leucrose+carbon source
4349717306maltose+carbon source
4349737684mannose+carbon source
4349728053melibiose+carbon source
43497506227N-acetylglucosamine+carbon source
4349726546rhamnose+carbon source
4349733942ribose+carbon source
4349717814salicin+carbon source
4349717992sucrose+carbon source
4349727082trehalose+carbon source
4349718222xylose+carbon source
4349727569arabinogalactan+hydrolysis
4349723652dextrin+hydrolysis
434974853esculin+hydrolysis
434975291gelatin+hydrolysis
434976452lichenin+hydrolysis
4349728017starch+hydrolysis
4349710057xanthan+hydrolysis
4349737166xylan+hydrolysis
4349716134ammonia+nitrogen source
4349722653asparagine+nitrogen source
4349728300glutamine+nitrogen source
4349725094lysine+nitrogen source
4349717632nitrate+nitrogen source
4349717822serine+nitrogen source
4349727266valine+nitrogen source
43497yeast extract+nitrogen source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
434976104kanamycinyesyes30 µg (disc)
434977507neomycinyesyes10 µg (disc)
4349717833gentamicinyesyes10 µg (disc)
4349728971ampicillinyesyes10 µg (disc)
4349728368novobiocinyesyes30 µg (disc)
4349717076streptomycinyesyes10 µg (disc)
4349717698chloramphenicolyesyes30 µg (disc)
434976472lincomycinyesyes10 µg (disc)

metabolite production

  • @ref: 43497
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 43497
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
43497tryptophan deaminase-4.1.99.1
43497alkaline phosphatase+3.1.3.1
43497acid phosphatase+3.1.3.2
43497esterase+
43497esterase Lipase (C 8)+
43497leucine arylamidase+3.4.11.1
43497valine arylamidase+
43497phosphohydrolase+
43497N-acetyl-beta-glucosaminidase+3.2.1.52
43497alpha-glucosidase+3.2.1.20
43497beta-galactosidase+3.2.1.23
43497lipase-
43497trypsin-3.4.21.4
43497chymotrypsin-3.4.4.5
43497cystine arylamidase-3.4.11.3
43497alpha-galactosidase-3.2.1.22
43497beta-glucosidase-3.2.1.21
43497beta-glucuronidase-3.2.1.31
43497alpha-fucosidase-3.2.1.51
43497alpha-mannosidase-3.2.1.24
43497catalase+1.11.1.6
43497cytochrome oxidase-1.9.3.1
43497urease-3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 43497
  • sample type: upper oxic layer of lichen-dominated peatland tundra soils
  • geographic location: Naydim Region, Yamalo-Nenets Autonomous Okrug
  • country: Russia
  • origin.country: RUS
  • continent: Asia
  • latitude: 62.963
  • longitude: 76.304

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Tundra
#Host#Other#Lichen
#Host#Plants#Peat moss

taxonmaps

  • @ref: 69479
  • File name: preview.99_127568.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_490;96_11392;97_64148;98_85542;99_127568&stattab=map
  • Last taxonomy: Tundrisphaera lichenicola subclade
  • 16S sequence: KX943553
  • Sequence Identity:
  • Total samples: 225
  • soil counts: 173
  • aquatic counts: 29
  • animal counts: 21
  • plant counts: 2

Sequence information

16S sequences

  • @ref: 43497
  • description: 16S rRNA gene sequence
  • accession: KX943553
  • database: nuccore

GC content

  • @ref: 43497
  • GC-content: 61.2-62.2
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 43497

culture collection no.: LMG 29571, VKM B-3044

literature

  • topic: Phylogeny
  • Pubmed-ID: 28829024
  • title: Tundrisphaera lichenicola gen. nov., sp. nov., a psychrotolerant representative of the family Isosphaeraceae from lichen-dominated tundra soils.
  • authors: Kulichevskaya IS, Ivanova AA, Detkova EN, Rijpstra WIC, Sinninghe Damste JS, Dedysh SN
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002172
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Lichens, *Phylogeny, Planctomycetales/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Siberia, *Soil Microbiology, *Tundra, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43497Irina S. Kulichevskaya, Anastasia A. Ivanova, Ekaterina N. Detkova, W. Irene C. Rijpstra, Jaap S. Sinninghe Damst, Svetlana N. DedyshTundrisphaera lichenicola gen. nov., sp. nov., a psychrotolerant representative of the family Isosphaeraceae from lichen-dominated tundra soils10.1099/ijsem.0.002172IJSEM 67: 3583-3589 201728829024
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/