TRANSNAP

TRANSNAP provides comprehensive transcriptomic data and reference transcript sequences for the Japanese pear (Pyrus pyrifolia) to support breeding, molecular research, and comparative genomics.

Key Features:

• Reference sequences: Reference transcript sequences were constructed from extensive transcriptomic data of the 'Hosui' Japanese pear across various organs and developmental stages.
• Sequencing integration: Reads from single-molecule real-time (SMRT) sequencing, 454 pyrosequencing, and Sanger sequencing were integrated to produce the reference transcripts.
• Protein prediction and functional annotation: Protein sequences were predicted from reference transcripts and assigned biological functional annotations.
• Gene expression profiles: Gene expression profiles were obtained from microarray experiments across organs and developmental stages.
• Comparative protein analysis: Comparative analyses identify similar protein sequences among Japanese, Chinese, and European pears and detect species-specific proteins in Japanese pear.

Scientific Applications:

• Breeding and molecular genetics: Support breeding strategies and molecular research for Japanese pear (Pyrus pyrifolia) by providing reference transcripts and expression data.
• Comparative genomics: Enable comparative studies among Japanese, Chinese, and European pears and broader comparisons within Rosaceae and related plant families.
• Gene function characterization: Facilitate gene function inference and annotation through predicted proteins and assigned biological annotations.

Methodology:

Integration of SMRT, 454 pyrosequencing, and Sanger sequencing reads to construct reference transcripts from the 'Hosui' variety; prediction of protein sequences from transcripts and assignment of biological functional annotations; generation of gene expression profiles by microarray; comparative protein similarity analyses to identify similar and species-specific proteins among Japanese, Chinese, and European pears.