A High-quality Genome Assembly Highlights Rye Genomic Characteristics and Agronomically Important Genes

Overview

Journal Nat Genet

Specialty Genetics

Date 2021 Mar 19

PMID 33737755

Citations 99

Authors

Guangwei Li

Lijian Wang

Jianping Yang

Hang He

Huaibing Jin

Xuming Li

Tianheng Ren

Zhenglong Ren

Feng Li

Xue Han

Xiaoge Zhao

Lingli Dong

Yiwen Li

Zhongping Song

Zehong Yan

Nannan Zheng

Cuilan Shi

Zhaohui Wang

Shuling Yang

Zijun Xiong

Menglan Zhang

Guanghua Sun

Xu Zheng

Mingyue Gou

Changmian Ji

Junkai Du

Hongkun Zheng

Jaroslav Dolezel

Xing Wang Deng

Nils Stein

Qinghua Yang

Kunpu Zhang

Daowen Wang

Affiliations

Soon will be listed here.

Abstract

Rye is a valuable food and forage crop, an important genetic resource for wheat and triticale improvement and an indispensable material for efficient comparative genomic studies in grasses. Here, we sequenced the genome of Weining rye, an elite Chinese rye variety. The assembled contigs (7.74 Gb) accounted for 98.47% of the estimated genome size (7.86 Gb), with 93.67% of the contigs (7.25 Gb) assigned to seven chromosomes. Repetitive elements constituted 90.31% of the assembled genome. Compared to previously sequenced Triticeae genomes, Daniela, Sumaya and Sumana retrotransposons showed strong expansion in rye. Further analyses of the Weining assembly shed new light on genome-wide gene duplications and their impact on starch biosynthesis genes, physical organization of complex prolamin loci, gene expression features underlying early heading trait and putative domestication-associated chromosomal regions and loci in rye. This genome sequence promises to accelerate genomic and breeding studies in rye and related cereal crops.

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