Strain identifier
BacDive ID: 140110
Type strain:
Species: Chryseobacterium sediminis
Strain Designation: IMT-174
Strain history: CIP <- 2015, P. Kämpfer, Giessen Univ., Giessen, Germany: strain IMT-174
NCBI tax ID(s): 1679494 (species)
General
@ref: 42717
BacDive-ID: 140110
DSM-Number: 29981
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Chryseobacterium sediminis IMT-174 is a mesophilic bacterium that was isolated from river sediment.
NCBI tax id
- NCBI tax id: 1679494
- Matching level: species
strain history
@ref | history |
---|---|
42717 | <- P. Kämpfer, Univ. Giessen, Germany; IMT-174 <- G. Harmon |
122535 | CIP <- 2015, P. Kämpfer, Giessen Univ., Giessen, Germany: strain IMT-174 |
doi: 10.13145/bacdive140110.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Weeksellaceae
- genus: Chryseobacterium
- species: Chryseobacterium sediminis
- full scientific name: Chryseobacterium sediminis Kämpfer et al. 2015
@ref: 42717
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Weeksellaceae
genus: Chryseobacterium
species: Chryseobacterium sediminis
full scientific name: Chryseobacterium sediminis Kämpfer et al. 2015
strain designation: IMT-174
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 93.268 | ||
69480 | 99.995 | negative | ||
122535 | no | negative | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | composition | link |
---|---|---|---|---|
41951 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
42717 | TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) | yes | Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water | https://mediadive.dsmz.de/medium/545 |
122535 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
41951 | positive | growth | 30 | mesophilic |
42717 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
42717 | river sediment | Amacuro river | Guyana | GUY | Middle and South America | |
122535 | Environment, Sediment, Amacwo river | Guyana | France | FRA | Europe | 2011-02-02 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #River (Creek) |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_1681.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_753;97_878;98_1329;99_1681&stattab=map
- Last taxonomy: Chryseobacterium
- 16S sequence: KR349467
- Sequence Identity:
- Total samples: 347
- soil counts: 79
- aquatic counts: 106
- animal counts: 148
- plant counts: 14
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
42717 | 1 | Risk group (German classification) |
122535 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 42717
- description: Chryseobacterium sediminis strain IMT-174 16S ribosomal RNA gene, partial sequence
- accession: KR349467
- length: 1396
- database: ena
- NCBI tax ID: 1679494
Genome sequences
- @ref: 66792
- description: Chryseobacterium sediminis IMT-174
- accession: GCA_008386505
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 1679494
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 91.807 | no |
flagellated | no | 96.507 | no |
gram-positive | no | 97.971 | no |
anaerobic | no | 99.57 | no |
aerobic | yes | 93.776 | no |
halophile | no | 94.896 | no |
spore-forming | no | 93.971 | no |
glucose-util | yes | 85.721 | no |
thermophile | no | 99.535 | yes |
glucose-ferment | no | 93.913 | no |
External links
@ref: 42717
culture collection no.: DSM 29981, CIP 110895, LMG 28695
straininfo link
- @ref: 96517
- straininfo: 406377
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 26283329 | Chryseobacterium sediminis sp. nov., isolated from a river sediment. | Kampfer P, Busse HJ, McInroy JA, Glaeser SP | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000527 | 2015 | Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Guyana, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Phylogeny | 34748473 | Chryseobacterium panacisoli sp. nov., isolated from ginseng-cultivation soil with ginsenoside-converting activity. | Keum DH, Yeon JM, Yun CS, Lee SY, Im WT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005086 | 2021 | Bacterial Typing Techniques, Base Composition, *Chryseobacterium/classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Ginsenosides/metabolism, Glycolipids/chemistry, Nucleic Acid Hybridization, *Panax/microbiology, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
41951 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/34489 | ||
42717 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29981 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29981) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
96517 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID406377.1 | |
122535 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110895 | Collection of Institut Pasteur (CIP 110895) |