Data · dataset · 2026
Genome assembly, quality-control, annotation, and phylogenomic data for Pediococcus acidilactici strain AP1 isolated from common carp
Listed in Teesside University Research Data Repository
Description This dataset contains quality-control reports, genome assembly files, structural and functional genome annotations, CRISPR-Cas analysis results, and genome-based phylogenetic data for Pediococcus acidilactici strain AP1.
Description
Strain AP1 was isolated from the intestinal tract of a healthy common carp (Cyprinus carpio) collected from a fish farm in the Tashkent region, Uzbekistan. Whole-genome sequencing was performed using the Illumina MiSeq i100 Plus platform with paired-end sequencing.
Reads were quality assessed using FastQC and filtered using fastp. De novo assembly was performed using SPAdes. Assembly quality was evaluated using QUAST, BUSCO, and CheckM2.
Read the rest (1 more)
Structural and functional annotation was performed using PGAP, Prokka, RAST, eggNOG-mapper, and InterProScan. CRISPR-Cas loci were evaluated using CRISPRCasFinder, and genome-based phylogenetic analysis was performed using TYGS.
Links
Where it is published
- DOI doi.org/10.17632/wjdntc39sp.1 ↗
DOI / persistent id · from researchdata tees ac uk
Catalogue records · 1
- OAI-PMH record data.mendeley.com/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Adata… ↗
metadata API · from researchdata tees ac uk
Topics
- From keywords
- Earth & Environmental Science · Life Sciences
- Inferred from text
- Genome sequencing 65% · Sequencing 75%
Related
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| Teesside University Research Data Repository | oai:data.mendeley.com/wjdntc39sp.1 | 16 h ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | |
| concepts[modality].local:modality:genome-sequencing | enrichment · researchdata tees ac uk | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · researchdata tees ac uk | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | /metadata/dc/description |
| license | source · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | /metadata/dc/rights |
| publication_date | source · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | |
| title | source · researchdata tees ac uk | connector:researchdata_tees_ac_uk@1.0.0 | /metadata/dc/title |