Strain identifier
BacDive ID: 5601
Type strain:
Species: Gillisia mitskevichiae
Strain history: <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok; KMM 6034
NCBI tax ID(s): 270921 (species)
General
@ref: 8272
BacDive-ID: 5601
DSM-Number: 19839
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Gillisia mitskevichiae DSM 19839 is a mesophilic, Gram-negative bacterium that was isolated from sea-water.
NCBI tax id
- NCBI tax id: 270921
- Matching level: species
strain history
- @ref: 8272
- history: <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok; KMM 6034
doi: 10.13145/bacdive5601.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Gillisia
- species: Gillisia mitskevichiae
- full scientific name: Gillisia mitskevichiae Nedashkovskaya et al. 2005
@ref: 8272
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Gillisia
species: Gillisia mitskevichiae
full scientific name: Gillisia mitskevichiae Nedashkovskaya et al. 2005
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.989
Culture and growth conditions
culture medium
- @ref: 8272
- name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
- growth: yes
- link: https://mediadive.dsmz.de/medium/514
- composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
culture temp
- @ref: 8272
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.996 |
Isolation, sampling and environmental information
isolation
- @ref: 8272
- sample type: sea-water
- geographic location: Sea of Japan, Gulf of Peter the Great, Amursky Bay
- country: Russia
- origin.country: RUS
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_6301.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_52;96_1130;97_1326;98_1602;99_6301&stattab=map
- Last taxonomy: Gillisia mitskevichiae
- 16S sequence: AY576655
- Sequence Identity:
- Total samples: 61
- soil counts: 28
- aquatic counts: 32
- animal counts: 1
Safety information
risk assessment
- @ref: 8272
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Gillisia mitskevichiae gene for 16S rRNA, partial sequence, strain: NBRC 100590 | AB681202 | 1445 | ena | 270921 |
8272 | Gillisia mitskevichiae 16S ribosomal RNA gene, partial sequence | AY576655 | 1430 | ena | 270921 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Gillisia mitskevichiae DSM 19839 | GCA_003634585 | scaffold | ncbi | 270921 |
66792 | Gillisia mitskevichiae strain DSM 19839 | 270921.3 | wgs | patric | 270921 |
66792 | Gillisia mitskevichiae DSM 19839 | 2698536713 | draft | img | 270921 |
GC content
- @ref: 8272
- GC-content: 36.4
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 89.689 | no |
flagellated | no | 95.588 | no |
gram-positive | no | 97.911 | no |
anaerobic | no | 99.337 | no |
aerobic | yes | 91.833 | no |
halophile | yes | 51.822 | no |
spore-forming | no | 95.857 | no |
glucose-util | yes | 85.347 | no |
thermophile | no | 99.373 | yes |
glucose-ferment | no | 91.672 | no |
External links
@ref: 8272
culture collection no.: DSM 19839, KACC 15410, KCTC 12261, KMM 6034, LMG 22575, NBRC 100590
straininfo link
- @ref: 75083
- straininfo: 131133
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 15653894 | Gillisia mitskevichiae sp. nov., a novel bacterium of the family Flavobacteriaceae, isolated from sea water. | Nedashkovskaya OI, Kim SB, Lee KH, Mikhailov VV, Bae KS | Int J Syst Evol Microbiol | 10.1099/ijs.0.63256-0 | 2005 | Aerobiosis, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Flavobacteriaceae/chemistry/*classification/genetics/*isolation & purification, Korea, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA | Genetics |
Phylogeny | 29188344 | Citreibacter salsisoli gen. nov., sp. nov., a bacterium isolated from marine soil. | Yoon J, Choi MK, Nam SJ | Arch Microbiol | 10.1007/s00203-017-1451-5 | 2017 | Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis/chemistry, Flavobacteriaceae/chemistry/classification/*genetics/isolation & purification, Geologic Sediments/microbiology, Molecular Typing, Phospholipids/analysis/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/microbiology, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8272 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19839) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19839 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
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 | |||
75083 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID131133.1 | StrainInfo: A central database for resolving microbial strain identifiers |