Strain identifier
BacDive ID: 164497
Type strain: 
Species: Chitinophaga solisilvae
Strain Designation: Mgbs1
Strain history: <- Monash University Malaysia, School of Science; Mgbs1 <-
NCBI tax ID(s): 1233460 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 164497
DSM-Number: 108835
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Chitinophaga solisilvae Mgbs1 is a mesophilic, Gram-negative bacterium that was isolated from Tropical peat swamp in the Northern regions of the state of Selangor.
NCBI tax id
- NCBI tax id: 1233460
- Matching level: species
strain history
| @ref | history |
|---|---|
| 67770 | M. S. Lee; Sch. of Sci., Monash Univ. Malaysia, Malaysia; Mgbs1. |
| 69124 | <- Monash University Malaysia, School of Science; Mgbs1 <- |
doi: 10.13145/bacdive164497.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Chitinophagia
- order: Chitinophagales
- family: Chitinophagaceae
- genus: Chitinophaga
- species: Chitinophaga solisilvae
- full scientific name: Chitinophaga solisilvae Ping et al. 2020
synonyms
- @ref: 20215
- synonym: Chitinophaga extrema
@ref: 67770
domain: Bacteria
phylum: Bacteroidetes
class: Chitinophagia
order: Chitinophagales
family: Chitinophagaceae
genus: Chitinophaga
species: Chitinophaga extrema
full scientific name: Chitinophaga extrema Goh et al. 2020
strain designation: Mgbs1
type strain: no
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125439 | negative | 98.6 |
| 125438 | negative | 92.814 |
multimedia
- @ref: 69124
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_108835.jpg
- caption: DSM 108835; scale bar represents 5 µm
- intellectual property rights: Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
Culture and growth conditions
culture medium
- @ref: 69124
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium1.pdf
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 67770 | positive | growth | 30 |
| 69124 | positive | growth | 28 |
Physiology and metabolism
spore formation
- @ref: 125439
- spore formation: no
- confidence: 98
observation
- @ref: 67770
- observation: quinones: MK-7
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | geographic location | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 67770 | Tropical peat swamp in the Northern regions of the state of Selangor | Malaysia | MYS | Asia | |||
| 69124 | Sub-surface peat material | Malaysia | MYS | Asia | North Selangor | 3.6539 | 101.296 |
Sequence information
16S sequences
- @ref: 67770
- description: Chitinophaga solisilvae strain Mgbs1 16S ribosomal RNA gene, partial sequence
- accession: MT363191
- length: 1532
- database: nuccore
- NCBI tax ID: 1233460
Genome sequences
- @ref: 67770
- description: Chitinophaga solisilvae Mgbs1
- accession: GCA_003994345
- assembly level: contig
- database: ncbi
- NCBI tax ID: 1233460
GC content
| @ref | GC-content | method |
|---|---|---|
| 67770 | 48.5 | genome sequence analysis |
| 69124 | 48.6 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 92.814 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.382 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 87.248 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 80.456 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.972 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 86.25 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 98 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 62.9 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 98.6 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 84.1 |
External links
@ref: 67770
culture collection no.: JCM 33276, DSM 108835
straininfo link
- @ref: 114168
- straininfo: 400165
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 33146596 | Chitinophaga extrema sp. nov., isolated from subsurface soil and leaf litter in a tropical peat swamp forest. | Goh CBS, Wong LW, Parimannan S, Rajandas H, Loke S, Croft L, Yule CM, Pasbakhsh P, Lee SM, Tan JBL | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004539 | 2020 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Forests, Gammaproteobacteria/*classification/isolation & purification, Malaysia, Nucleic Acid Hybridization, *Phylogeny, Plant Leaves, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry, *Wetlands | Transcriptome |
| Phylogeny | 34241587 | Chitinophaga silvatica sp. nov., isolated from forest soil, and reclassification of Chitinophaga extrema as a later heterotypic synonym of Chitinophaga solisilvae. | Yao Y, Zhong X, Li H, Fan W, Xiang Q, Huang Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004865 | 2021 | Bacterial Typing Techniques, Bacteroidetes/*classification/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 69124 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-108835 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 108835) | |
| 114168 | 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-ID400165.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |