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2019 Fiscal Year Final Research Report

Elucidation of plant genome evolution in rice breeding by long-read next genome sequencing data

Research Project

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Project/Area Number 17H06246
Research Category

Grant-in-Aid for Challenging Research (Pioneering)

Allocation TypeSingle-year Grants
Research Field Agricultural and Environmental Biology and related fields
Research InstitutionThe University of Tokyo

Principal Investigator

Izawa Takeshi  東京大学, 大学院農学生命科学研究科(農学部), 教授 (10263443)

Project Period (FY) 2017-06-30 – 2020-03-31
Keywordsイネ / ゲノム / MinION
Outline of Final Research Achievements

Using more than ten times depth data obtained by MinION sequencer, we have tried to determine rice genome, but we realizied that it may be difficult due to low accuracy of each read. Thus, we were not able to understand the basic principle of plant genome evolution during rice breeding using low-cost MinION data.
Instead, we have found dozen of SV in an elite rice cultivar, "Koshihikari" in Japan compared with the reference rice genome of Nipponbare. This information may be very useful for future breeding process of rice in Japan.

Free Research Field

植物分子遺伝学

Academic Significance and Societal Importance of the Research Achievements

MinIONデータが内包する技術的な問題で、MiIONのデータで、安価にイネゲノムの変遷を明らかにすることはできなかったので、当初の目的に到達することができなかったが、MinIONデータとイルミナデータを組み合わせることで、イネ品種コシヒカリのゲノム情報において、日本晴とのSV(Structural Variants) のゲノム上の位置を数十か所見つけることができた。ただし、コシヒカリに存在し、日本晴にない配列情報に関しては、精度に問題が残る状態である。それでも、現在は、コシヒカリをベースにした育種が主流であるので、これからの育種に役立つ情報を提供できた。

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Published: 2021-02-19  

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