TRANSNAP: a web database providing comprehensive information on Japanese pear transcriptome.

Shizuka Koshimizu, Yukino Nakamura, Chikako Nishitani, Masaaki Kobayashi, Hajime Ohyanagi, Toshiya Yamamoto, Kentaro Yano

Research output: Contribution to journalArticlepeer-review

7 Scopus citations


Japanese pear (Pyrus pyrifolia) is a major fruit tree in the family Rosaceae and is bred for fruit production. To promote the development of breeding strategies and molecular research for Japanese pear, we sequenced the transcripts of Japanese pear variety 'Hosui'. To exhaustively collect information of total gene expression, RNA samples from various organs and stages of Japanese pear were sequenced by three technologies, single-molecule real-time (SMRT) sequencing, 454 pyrosequencing, and Sanger sequencing. Using all those reads, we determined comprehensive reference sequences of Japanese pear. Then, their protein sequences were predicted, and biological functional annotations were assigned. Finally, we developed a web database, TRANSNAP (, which is the first web resource of Japanese pear omics information. This database provides highly reliable information via a user-friendly web interface: the reference sequences, gene functional annotations, and gene expression profiles from microarray experiments. In addition, based on sequence comparisons among Japanese, Chinese and European pears, similar protein sequences among the pears and species-specific proteins in Japanese pear can be quickly and efficiently identified. TRANSNAP will aid molecular research and breeding in Japanese pear, and its information is available for comparative analysis among other pear species and families.
Original languageEnglish (US)
JournalScientific reports
Issue number1
StatePublished - Dec 12 2019

Bibliographical note

KAUST Repository Item: Exported on 2020-10-01
Acknowledgements: This work was supported by the Ministry of Education, Culture, Sports, Science, and Technology of Japan (MEXT) [Grant-in-Aid for Scientific Research on Innovative Areas (19H04870)], and a grant from the Ministry of Agriculture, Forestry, and Fisheries of Japan. This work was also supported in part by Research Funding for the Computational Software Supporting Program from Meiji University. Computations were partially performed on the NIG supercomputer at the ROIS National Institute of Genetics.


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