Strain identifier
BacDive ID: 24202
Type strain: 
Species: Kocuria indica
Strain Designation: NIO-1021, NIO-201102, NIO-21
Strain history: DSM 25126 <-- S. G. Dastager; Natl. Inst. of Oceanogr., India; NIO-1021.
NCBI tax ID(s): 1049583 (species)
version 8.1 (current version)
General
@ref: 20622
BacDive-ID: 24202
DSM-Number: 25126
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Kocuria indica NIO-1021 is a mesophilic bacterium that was isolated from marine sediment from an intertidal region of mangroves.
NCBI tax id
- NCBI tax id: 1049583
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20622 | <- S. G. Dastager, National Institute of Oceanography, Mumbai, India; NI0-1021 |
| 67770 | DSM 25126 <-- S. G. Dastager; Natl. Inst. of Oceanogr., India; NIO-1021. |
doi: 10.13145/bacdive24202.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Kocuria
- species: Kocuria indica
- full scientific name: Kocuria indica Dastager et al. 2014
@ref: 20622
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micrococcaceae
genus: Kocuria
species: Kocuria indica
full scientific name: Kocuria indica Dastager et al. 2014
strain designation: NIO-1021, NIO-201102, NIO-21
type strain: yes
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
observation
- @ref: 67770
- observation: quinones: MK-7(H2)
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 20622 | marine sediment from an intertidal region of mangroves | Goa Province, Chorao Island | India | IND | Asia |
| 67770 | Sediment from an intertidal region of mangroves at Chorao Island | Goa Province | India | IND | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Mangrove |
| #Environmental | #Aquatic | #Marine |
| #Environmental | #Aquatic | #Sediment |
| #Environmental | #Terrestrial | #Tidal flat |
Safety information
risk assessment
- @ref: 20622
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20622
- description: Kocuria indica strain NIO-1021 16S ribosomal RNA gene, partial sequence
- accession: HQ858010
- length: 1447
- database: ena
- NCBI tax ID: 1049583
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Kocuria indica NIO-1021 | GCA_003667205 | contig | ncbi | 1049583 |
| 66792 | Kocuria indica strain DSM 25126 | 1049583.7 | wgs | patric | 1049583 |
| 66792 | Kocuria indica strain DSM 25126 | 1049583.6 | wgs | patric | 1049583 |
| 66792 | Kocuria indica NIO-1021 | 2708742531 | draft | img | 1049583 |
| 66792 | Kocuria indica NIO-1021 | 2847157150 | draft | img | 1049583 |
| 67770 | Kocuria indica NIO-1021 | GCA_900177335 | contig | ncbi | 1049583 |
| 67770 | Kocuria indica DSM 25126 | GCA_002237805 | contig | ncbi | 1049583 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 20622 | 60.5 | high performance liquid chromatography (HPLC) |
| 67770 | 68.9 | genome sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 94.489 | no |
| flagellated | no | 98.025 | no |
| gram-positive | yes | 94.477 | no |
| anaerobic | no | 99.549 | no |
| aerobic | yes | 92.161 | no |
| halophile | yes | 75.62 | no |
| spore-forming | no | 93.199 | no |
| thermophile | no | 95.691 | yes |
| glucose-util | yes | 87.659 | no |
| glucose-ferment | no | 75.08 | no |
External links
@ref: 20622
culture collection no.: DSM 25126, CCTCC AB 2011129, JCM 30546, NCIM 5455
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24254742 | Kocuria indica sp. nov., isolated from a sediment sample. | Dastager SG, Tang SK, Srinivasan K, Lee JC, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.052548-0 | 2013 | Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, India, Islands, Micrococcaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 35929359 | Identification of a novel quinoline-based UV-protective pigment from a psychrotrophic Arctic bacterium. | Mandal S, Kundu S, Uddin MR, Das P, Paul P, Roy P, Tribedi P, Sahoo P | J Appl Microbiol | 10.1111/jam.15760 | 2022 | RNA, Ribosomal, 16S/genetics, Sodium Chloride, Methanol, Acetone, Bacteria/genetics, *Anti-Infective Agents, *Quinolines/pharmacology, Soil, Phylogeny, Sequence Analysis, DNA, DNA, Bacterial/genetics, Fatty Acids/analysis, Arctic Regions, Bacterial Typing Techniques | 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 | |
| 20622 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25126 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25126) | |
| 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/ |