Strain identifier

BacDive ID: 7626

Type strain: Yes

Species: Paeniglutamicibacter cryotolerans

Strain Designation: LI3

Strain history: CIP <- 2013, DSMZ <- L. Ganzert, Alfred Wegener Inst., Postdam, Germany: strain LI3 <- F. Bajerski

NCBI tax ID(s): 670079 (species)

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

@ref: 16538

BacDive-ID: 7626

DSM-Number: 22826

keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, Gram-positive

description: Paeniglutamicibacter cryotolerans LI3 is a psychrophilic, Gram-positive bacterium that was isolated from initial soil covered by a moss layer.

NCBI tax id

  • NCBI tax id: 670079
  • Matching level: species

strain history

@refhistory
16538<- L. Ganzert, Alfred Wegener Inst. Polar and Marine Res. in the Helmholtz Association, Res. Unit Potsdam, Germany; LI3 <- F. Bajerski
67770DSM 22826 <-- L. Ganzert LI3 <-- F. Bajerski.
118802CIP <- 2013, DSMZ <- L. Ganzert, Alfred Wegener Inst., Postdam, Germany: strain LI3 <- F. Bajerski

doi: 10.13145/bacdive7626.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Paeniglutamicibacter
  • species: Paeniglutamicibacter cryotolerans
  • full scientific name: Paeniglutamicibacter cryotolerans (Ganzert et al. 2011) Busse 2016
  • synonyms

    • @ref: 20215
    • synonym: Arthrobacter cryotolerans

@ref: 16538

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Paeniglutamicibacter

species: Paeniglutamicibacter cryotolerans

full scientific name: Paeniglutamicibacter cryotolerans (Ganzert et al. 2011) Busse 2016

strain designation: LI3

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
118802positiverod-shapedno

colony morphology

@refcolony colormedium used
69297Pale yellowISP 2
69297Pale yellowISP 7
69297Pale yellowsuter with tyrosine
69297Pale yellowsuter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69297noAerial myceliumISP 2
69297noAerial myceliumISP 7
69297noAerial myceliumsuter with tyrosine
69297noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69297noMelanin
69297nosoluble pigment

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16538TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
118802CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
16538positivegrowth16psychrophilic
67770positivegrowth15psychrophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.911

halophily

  • @ref: 69297
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

murein

  • @ref: 16538
  • murein short key: A11.54
  • type: A4alpha L-Lys-L-Glu

observation

  • @ref: 67770
  • observation: quinones: MK-9, MK-10, MK-8, MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6929722599arabinose+growth
6929762968cellulose+growth
6929728757fructose+growth
6929717234glucose+growth
6929717268inositol+growth
6929737684mannose+growth
6929716634raffinose+growth
6929726546rhamnose+growth
6929717992sucrose+growth
6929718222xylose+growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase+3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69297-+----+--+---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69297-++-+++/-+/---+---++++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcontinentcountryorigin.country
16538initial soil covered by a moss layerLivingston IslandAustralia and Oceania
67770Moss-covered soil from Livingston IslandSouth Shetland IslandsAntarcticaAntarcticaATA
118802Environment, Initial soil covered by a moss layerLivingston IslandAntarcticaAntarcticaATA

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Moss

taxonmaps

  • @ref: 69479
  • File name: preview.99_144755.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_158;97_169;98_96031;99_144755&stattab=map
  • Last taxonomy: Paeniglutamicibacter cryotolerans subclade
  • 16S sequence: GQ406812
  • Sequence Identity:
  • Total samples: 64
  • soil counts: 23
  • aquatic counts: 21
  • animal counts: 19
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
165381Risk group (German classification)
1188021Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16538
  • description: Arthrobacter cryotolerans strain LI3 16S ribosomal RNA gene, partial sequence
  • accession: GQ406812
  • length: 1364
  • database: ena
  • NCBI tax ID: 670079

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paeniglutamicibacter cryotolerans DSM 22826GCA_014190875contigncbi670079
66792Paeniglutamicibacter cryotolerans strain DSM 22826670079.3wgspatric670079
66792Paeniglutamicibacter cryotolerans DSM 228262821582892draftimg670079

GC content

  • @ref: 16538
  • GC-content: 64.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveyes89.937no
anaerobicno99.517no
halophileno70.715no
spore-formingno90.643no
glucose-utilyes84.069no
flagellatedno93.615no
thermophileno98.475yes
aerobicyes94.441no
glucose-fermentno89.423yes
motileno64.1no

External links

@ref: 16538

culture collection no.: DSM 22826, CIP 110639, JCM 17806, NCCB 100315

straininfo link

  • @ref: 77070
  • straininfo: 397971

literature

  • topic: Phylogeny
  • Pubmed-ID: 20511467
  • title: Arthrobacter livingstonensis sp. nov. and Arthrobacter cryotolerans sp. nov., salt-tolerant and psychrotolerant species from Antarctic soil.
  • authors: Ganzert L, Bajerski F, Mangelsdorf K, Lipski A, Wagner D
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.021022-0
  • year: 2010
  • mesh: Aerobiosis, Anaerobiosis, Antarctic Regions, Arthrobacter/*classification/genetics/*isolation & purification/physiology, Cluster Analysis, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Hydrogen-Ion Concentration, Locomotion, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, *Soil Microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
16538Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22826)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22826
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
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69297Wink, J.https://cdn.dsmz.de/wink/DSM%2022826.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
77070Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID397971.1StrainInfo: A central database for resolving microbial strain identifiers
118802Curators of the CIPCollection of Institut Pasteur (CIP 110639)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110639