Strain identifier
BacDive ID: 131334
Type strain:
Species: Hymenobacter latericoloratus
Strain history: W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 77920.
NCBI tax ID(s): 1411121 (species)
General
@ref: 22561
BacDive-ID: 131334
DSM-Number: 26701
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Hymenobacter latericoloratus DSM 26701 is a mesophilic, Gram-negative bacterium that was isolated from freshwater sediment.
NCBI tax id
- NCBI tax id: 1411121
- Matching level: species
strain history
@ref | history |
---|---|
22561 | <- S.-K. Tang, YIM; YIM 77920 <- E.-M. Zhou |
67770 | W.-J. Li; Yunnan Inst. of Microbiol., Yunnan Univ., China; YIM 77920. |
doi: 10.13145/bacdive131334.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Hymenobacteraceae
- genus: Hymenobacter
- species: Hymenobacter latericoloratus
- full scientific name: Hymenobacter latericoloratus Liu et al. 2015
@ref: 22561
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Hymenobacteraceae
genus: Hymenobacter
species: Hymenobacter latericoloratus
full scientific name: Hymenobacter latericoloratus Liu et al. 2015
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.993
Culture and growth conditions
culture medium
- @ref: 22561
- name: ISP2 MEDIUM (DSMZ Medium 987)
- growth: yes
- link: https://mediadive.dsmz.de/medium/987
- composition: Name: ISP 2 MEDIUM (DSMZ Medium 987) Composition: Agar 20.0 g/l Malt extract 10.0 g/l Dextrose 4.0 g/l Yeast extract 4.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
22561 | positive | growth | 28 | mesophilic |
67770 | 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 | latitude | longitude |
---|---|---|---|---|---|---|---|
22561 | freshwater sediment | Yunnan province, Yiliang county, Jiuxiang tourist cave (E 103° 22.791', N 25° 04.270') | China | CHN | Asia | 25.0712 | 103.38 |
67770 | Freshwater sediment of Jiuxiang tourist cave in Yiliang country | Yunnan Province | China | CHN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Sediment |
#Environmental | #Aquatic | #Freshwater |
taxonmaps
- @ref: 69479
- File name: preview.99_84110.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_263;96_21517;97_26865;98_34197;99_84110&stattab=map
- Last taxonomy: Hymenobacter
- 16S sequence: AB859260
- Sequence Identity:
- Total samples: 1217
- soil counts: 123
- aquatic counts: 150
- animal counts: 891
- plant counts: 53
Safety information
risk assessment
- @ref: 22561
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22561
- description: Hymenobacter latericoloratus gene for 16S ribosomal RNA, partial sequence
- accession: AB859260
- length: 1540
- database: ena
- NCBI tax ID: 1411121
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Hymenobacter latericoloratus DSM 26701 | GCA_014199535 | scaffold | ncbi | 1411121 |
66792 | Hymenobacter latericoloratus strain DSM 26701 | 1411121.3 | wgs | patric | 1411121 |
66792 | Hymenobacter latericoloratus DSM 26701 | 2828589702 | draft | img | 1411121 |
GC content
- @ref: 22561
- GC-content: 57.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 96.956 | no |
gram-positive | no | 97.208 | no |
anaerobic | no | 99.402 | no |
aerobic | yes | 90.641 | no |
halophile | no | 93.635 | no |
spore-forming | no | 93.893 | no |
glucose-util | yes | 80.003 | no |
thermophile | no | 95.886 | yes |
glucose-ferment | no | 91.003 | no |
motile | no | 90.812 | no |
External links
@ref: 22561
culture collection no.: DSM 26701, CCTCC AB 2012949, JCM 30327, YIM 77920
straininfo link
- @ref: 89775
- straininfo: 400413
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 25348876 | Hymenobacter latericoloratus sp. nov. and Hymenobacter luteus sp. nov., isolated from freshwater sediment. | Liu L, Zhou EM, Jiao JY, Manikprabhu D, Ming H, Liu WH, Hozzein WN, Shu WS, Li WJ | Antonie Van Leeuwenhoek | 10.1007/s10482-014-0314-1 | 2014 | Aerobiosis, Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytophagaceae/*classification/genetics/*isolation & purification, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Genetics |
Phylogeny | 31961285 | Hymenobacter sediminis sp. nov., isolated from lake sediment. | Wang C, Liu BT, Zhang R, Liu CL, Du ZJ | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003990 | 2020 | Bacterial Typing Techniques, Base Composition, China, Cytophagaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Lakes/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, 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 | |
22561 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26701 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26701) | |
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 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
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 | |
89775 | 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-ID400413.1 |