Strain identifier
BacDive ID: 7626
Type strain:
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)
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
@ref | history |
---|---|
16538 | <- L. Ganzert, Alfred Wegener Inst. Polar and Marine Res. in the Helmholtz Association, Res. Unit Potsdam, Germany; LI3 <- F. Bajerski |
67770 | DSM 22826 <-- L. Ganzert LI3 <-- F. Bajerski. |
118802 | CIP <- 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
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | positive | 100 | ||
118802 | positive | rod-shaped | no |
colony morphology
@ref | colony color | medium used |
---|---|---|
69297 | Pale yellow | ISP 2 |
69297 | Pale yellow | ISP 7 |
69297 | Pale yellow | suter with tyrosine |
69297 | Pale yellow | suter without tyrosine |
multicellular morphology
@ref | forms multicellular complex | complex name | medium name |
---|---|---|---|
69297 | no | Aerial mycelium | ISP 2 |
69297 | no | Aerial mycelium | ISP 7 |
69297 | no | Aerial mycelium | suter with tyrosine |
69297 | no | Aerial mycelium | suter without tyrosine |
pigmentation
@ref | production | name |
---|---|---|
69297 | no | Melanin |
69297 | no | soluble pigment |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16538 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: 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 |
118802 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16538 | positive | growth | 16 | psychrophilic |
67770 | positive | growth | 15 | psychrophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.911 |
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
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
69297 | 22599 | arabinose | + | growth |
69297 | 62968 | cellulose | + | growth |
69297 | 28757 | fructose | + | growth |
69297 | 17234 | glucose | + | growth |
69297 | 17268 | inositol | + | growth |
69297 | 37684 | mannose | + | growth |
69297 | 16634 | raffinose | + | growth |
69297 | 26546 | rhamnose | + | growth |
69297 | 17992 | sucrose | + | growth |
69297 | 18222 | xylose | + | growth |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | + | hydrolysis |
68379 | 5291 | gelatin | - | hydrolysis |
68379 | 17634 | D-glucose | - | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | - | fermentation |
68379 | 28087 | glycogen | - | fermentation |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | + | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | - | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68379 | gelatinase | - | |
68379 | urease | + | 3.5.1.5 |
68379 | beta-glucosidase | - | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | - | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | - | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | + | 3.5.1.B15 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
69297 | - | + | - | - | - | - | + | - | - | + | - | - | - | - | - | - | - | - | - |
API zym
@ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
69297 | - | + | + | - | + | + | +/- | +/- | - | - | + | - | - | - | + | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | continent | country | origin.country |
---|---|---|---|---|---|
16538 | initial soil covered by a moss layer | Livingston Island | Australia and Oceania | ||
67770 | Moss-covered soil from Livingston Island | South Shetland Islands | Antarctica | Antarctica | ATA |
118802 | Environment, Initial soil covered by a moss layer | Livingston Island | Antarctica | Antarctica | ATA |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | biosafety level | biosafety level comment |
---|---|---|
16538 | 1 | Risk group (German classification) |
118802 | 1 | Risk 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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Paeniglutamicibacter cryotolerans DSM 22826 | GCA_014190875 | contig | ncbi | 670079 |
66792 | Paeniglutamicibacter cryotolerans strain DSM 22826 | 670079.3 | wgs | patric | 670079 |
66792 | Paeniglutamicibacter cryotolerans DSM 22826 | 2821582892 | draft | img | 670079 |
GC content
- @ref: 16538
- GC-content: 64.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
gram-positive | yes | 89.937 | no |
anaerobic | no | 99.517 | no |
halophile | no | 70.715 | no |
spore-forming | no | 90.643 | no |
glucose-util | yes | 84.069 | no |
flagellated | no | 93.615 | no |
thermophile | no | 98.475 | yes |
aerobic | yes | 94.441 | no |
glucose-ferment | no | 89.423 | yes |
motile | no | 64.1 | no |
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
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
16538 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22826) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22826 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
68379 | Automatically annotated from API Coryne | |||
68382 | Automatically annotated from API zym | |||
69297 | Wink, J. | https://cdn.dsmz.de/wink/DSM%2022826.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |
69479 | João 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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
77070 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397971.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
118802 | Curators of the CIP | Collection of Institut Pasteur (CIP 110639) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110639 |