AI Article Synopsis
- Chili pepper (Capsicum annuum) lacks a public genome sequence, prompting the creation of a genomic resource to support research on this important crop.
- A total of 1,324,516 raw reads were assembled from various plant organs, resulting in 32,314 high-quality contigs, with 75.5% showing similarity to existing pepper sequences.
- The newly developed Capsicum Transcriptome DB provides a user-friendly web interface for accessing ESTs, including functional annotations and metabolic pathways, and is freely available online.
Article Abstract
Chili pepper (Capsicum annuum) is an economically important crop with no available public genome sequence. We describe a genomic resource to facilitate Capsicum annuum research. A collection of Expressed Sequence Tags (ESTs) derived from five C. annuum organs (root, stem, leaf, flower and fruit) were sequenced using the Sanger method and multiple leaf transcriptomes were deeply sampled using with GS-pyrosequencing. A hybrid assembly of 1,324,516 raw reads yielded 32,314 high quality contigs as validated by coverage and identity analysis with existing pepper sequences. Overall, 75.5% of the contigs had significant sequence similarity to entries in nucleic acid and protein databases; 23% of the sequences have not been previously reported for C. annuum and expand sequence resources for this species. A MySQL database and a user-friendly Web interface were constructed with search-tools that permit queries of the ESTs including sequence, functional annotation, Gene Ontology classification, metabolic pathways, and assembly information. The Capsicum Transcriptome DB is free available from http://www.bioingenios.ira.cinvestav.mx:81/Joomla/
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|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3282275 | PMC |
| http://dx.doi.org/10.6026/97320630008043 | DOI Listing |
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