Strain identifier
BacDive ID: 169144
Type strain: 
Species: Paracoccus lutimaris
Strain Designation: HDM-25
NCBI tax ID(s): 1490030 (species)
version 8.1 (current version)
General
@ref: 20215
BacDive-ID: 169144
keywords: genome sequence, 16S sequence, Bacteria
description: Paracoccus lutimaris HDM-25 is a bacterium of the family Paracoccaceae.
NCBI tax id
- NCBI tax id: 1490030
- Matching level: species
doi: 10.13145/bacdive169144.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Paracoccaceae
- genus: Paracoccus
- species: Paracoccus lutimaris
- full scientific name: Paracoccus lutimaris Jung et al. 2014
@ref: 20215
domain: Bacteria
phylum: Pseudomonadota
class: Alphaproteobacteria
order: Rhodobacterales
family: Rhodobacteraceae
genus: Paracoccus
species: Paracoccus lutimaris
full scientific name: Paracoccus lutimaris Jung et al. 2014
strain designation: HDM-25
type strain: yes
Safety information
risk assessment
- @ref: 20215
- biosafety level: 1
- biosafety level comment: Risk group
Sequence information
16S sequences
- @ref: 20215
- description: Paracoccus lutimaris strain HDM-25 16S ribosomal RNA gene, partial sequence
- accession: KJ451483
- length: 1418
- database: ena
- NCBI tax ID: 1490030
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paracoccus lutimaris CECT 8525 | GCA_003337565 | scaffold | ncbi | 1490030 |
| 66792 | Paracoccus lutimaris strain CECT 8525 | 1490030.4 | wgs | patric | 1490030 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 81.499 | no |
| flagellated | no | 91.156 | no |
| gram-positive | no | 98.342 | no |
| anaerobic | no | 98.93 | no |
| aerobic | yes | 90.952 | no |
| halophile | no | 75.303 | no |
| spore-forming | no | 97.163 | no |
| glucose-util | yes | 90.295 | no |
| thermophile | no | 96.019 | no |
| glucose-ferment | no | 84.806 | no |
External links
@ref: 20215
culture collection no.: KCTC 42007, CECT 8525
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24860114 | Paracoccus lutimaris sp. nov., isolated from a tidal flat sediment. | Jung YT, Park S, Lee JS, Yoon JH | Int J Syst Evol Microbiol | 10.1099/ijs.0.064865-0 | 2014 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Paracoccus/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Ubiquinone/chemistry | Genetics |
| Phylogeny | 28809137 | Paracoccus mangrovi sp. nov., isolated from a mangrove. | Chen WM, Li YS, Young CC, Sheu SY | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001993 | 2017 | Avicennia/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hydroxybutyrates/metabolism, Nucleic Acid Hybridization, Paracoccus/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, Polyesters/metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan, Ubiquinone/chemistry | Metabolism |
| Phylogeny | 31251720 | Paracoccus tegillarcae sp. nov., isolated from the gastrointestinal tract of a blood cockle (Tegillarca granosa). | Lee JY, Hyun DW, Yun JH, Jung MJ, Shin NR, Bae JW | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003561 | 2019 | Animals, Bacterial Typing Techniques, Base Composition, Cardiidae/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Glycolipids/chemistry, Nucleic Acid Hybridization, Paracoccus/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistry | Transcriptome |
| Phylogeny | 32579093 | Paracoccus xiamenensis sp. nov., isolated from seawater on the Xiamen. | Lyu L, Zhi B, Lai Q, Shao Z, Yu Z | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004284 | 2020 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Paracoccus/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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 |