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Strain identifier

BacDive ID: 140789

Type strain: Yes

Species: Paludicola psychrotolerans

Strain Designation: NC1253

Strain history: <- Yumei Dai, Chengdu Institute of Biology, Chinese Academy of Sciences

NCBI tax ID(s): 2038680 (species)

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

@ref: 64911

BacDive-ID: 140789

DSM-Number: 104738

keywords: 16S sequence, Bacteria, anaerobe, spore-forming, Gram-positive, rod-shaped

description: Paludicola psychrotolerans NC1253 is an anaerobe, spore-forming, Gram-positive bacterium that was isolated from Zoige wetland soil.

NCBI tax id

  • NCBI tax id: 2038680
  • Matching level: species

strain history

doi: 10.13145/bacdive140789.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Oscillospiraceae
  • genus: Paludicola
  • species: Paludicola psychrotolerans
  • full scientific name: Paludicola psychrotolerans Li et al. 2017

@ref: 64911

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Eubacteriales

family: Oscillospiraceae

genus: Paludicola

species: Paludicola psychrotolerans

full scientific name: Paludicola psychrotolerans Li et al. 2017

strain designation: NC1253

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shape
43567positive1-3 µm0.3 µmrod-shaped
67771rod-shaped
67771positive

colony morphology

  • @ref: 43567
  • colony color: White
  • medium used: MS agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43567MS agaryes
64911MINERAL SALT MEDIUM WITH COLLOIDAL CHITIN (DSMZ Medium 1681)yeshttps://mediadive.dsmz.de/medium/1681Name: Mineral salt medium with colloidal chitin (DSMZ Medium 1681) Composition: Polypeptone 10.0 g/l Colloidal chitin 5.0 g/l NaHCO3 3.52 g/l Yeast extract 1.0 g/l KH2PO4 0.4 g/l K2HPO4 0.4 g/l NH4Cl 0.25 g/l MgCl2 x 6 H2O 0.2 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l FeSO4 x 7 H2O 0.001 g/l CaCl2 x 2 H2O 0.001 g/l Sodium resazurin 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l CuSO4 x 5 H2O 0.0001 g/l Pyridoxine hydrochloride 0.0001 g/l H3BO3 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l Riboflavin 5e-05 g/l (DL)-alpha-Lipoic acid 5e-05 g/l p-Aminobenzoic acid 5e-05 g/l Calcium D-(+)-pantothenate 5e-05 g/l Nicotinic acid 5e-05 g/l Thiamine HCl 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Vitamin B12 1e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43567positivegrowth4-35
43567positiveoptimum25-30mesophilic
64911positivegrowth28mesophilic
67771positivegrowth25-30mesophilic

culture pH

@refabilitytypepHPH range
43567positivegrowth6-8.5alkaliphile
43567positiveoptimum7.5-8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43567anaerobe
67771anaerobe

spore formation

@reftype of sporespore formation
43567endosporeyes
67771sporeyes

halophily

@refsaltgrowthtested relationconcentration
43567NaClpositivegrowth0-2 %(w/v)
43567NaClpositiveoptimum0-0.5 %(w/v)

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
435676-O-alpha-D-glucopyranosyl-D-gluconic acid-growth
43567casein hydrolysate-growth
43567cellobiose-growth17057
43567D-fucose-growth28847
43567D-galacturonic acid-growth18024
43567D-mannose-growth16024
43567glucose-growth17234
43567L-fucose-growth18287
43567L-rhamnose-growth62345
43567maltodextrin-growth25140
43567N-acetylglucosamine-growth506227
43567pyruvate-growth15361
43567chitin+carbon source17029

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
43567Zoige wetland soilQinghai-Tibetan PlateauChinaCHNAsia33.933102.866
64911wetland soileastern edge of Qinghai-Tibetan Plateau, Zoige Wetland (33° 56' N, 102° 52' E)ChinaCHNAsia33.9333102.867
67771From soilZoige wetland, Chengdu Institute of Biology, Chinese Academy of Sciences(CAS)ChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Environmental#Terrestrial#Wetland (Swamp)

taxonmaps

  • @ref: 69479
  • File name: preview.99_139937.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_154;96_53824;97_69417;98_93043;99_139937&stattab=map
  • Last taxonomy: Paludicola psychrotolerans subclade
  • 16S sequence: KY777734
  • Sequence Identity:
  • Total samples: 2715
  • soil counts: 139
  • aquatic counts: 422
  • animal counts: 2078
  • plant counts: 76

Safety information

risk assessment

  • @ref: 64911
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64911
  • description: Paludicola psychrotolerans strain NC1253 16S ribosomal RNA gene, partial sequence
  • accession: KY777734
  • length: 1490
  • database: ena
  • NCBI tax ID: 2038680

GC content

@refGC-contentmethod
6491135.4high performance liquid chromatography (HPLC)
6777135.4

External links

@ref: 64911

culture collection no.: KCTC 15582, DSM 104738

literature

  • topic: Phylogeny
  • Pubmed-ID: 28901896
  • title: Paludicola psychrotolerans gen. nov., sp. nov., a novel psychrotolerant chitinolytic anaerobe of the family Ruminococcaceae.
  • authors: Li Y, Zhang LL, Liu L, Tian YQ, Liu XF, Li WJ, Dai YM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002260
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, China, Chitin/metabolism, Clostridiales/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Wetlands
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
43567Yan Li, Ling-Li Zhang, Lan Liu, Yong-Qiang Tian, Xiao-Feng Liu, Wen-Jun Li, Yu-Mei DaiPaludicola psychrotolerans gen. nov., sp. nov., a novel psychrotolerant chitinolytic anaerobe of the family Ruminococcaceae10.1099/ijsem.0.002260IJSEM 67: 4100-4103 201728901896
64911Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104738Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104738)
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/