数字农科院2.0

Extraordinary preservation of gene collinearity over three hundred million years revealed in homosporous lycophytes

文献类型： 外文期刊

作者： Cheng Li;David Wickell;Li Yaung Kuo;Xueqing Chen;Bao Nie;Xuezhu Liao;Dan Peng;Jiaojiao Ji;Jerry Jenkins;Mellissa Williams;Shengqiang Shu;Christopher Plott;Kerrie Barry;Shanmugam Rajasekar;Jane Grimwood;Xiaoxu Han;Shichao Sun;Zhuangwei Hou;Weijun He;Guanhua Dai;Cheng Sun;Jeremy Schmutz;James H. Leebens-Mack;Fay Wei Li;Li Wang

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关键词： （1-1-1）gene collinearity;genome evolution;homosporous lycophytes;subgenome dominance;whole genome duplication

期刊名称： Proceedings of the National Academy of Sciences of the United States of America

ISSN： 0027-8424

年卷期： 2024 年 121 卷 4 期

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收录情况： SCIE（2024版）

摘要： Homosporous lycophytes (Lycopodiaceae) are a deeply diverged lineage in the plant tree of life, having split from heterosporous lycophytes (Selaginella and Isoetes) ∼400 Mya. Compared to the heterosporous lineage, Lycopodiaceae has markedly larger genome sizes and remains the last major plant clade for which no chromosome-level assembly has been available. Here, we present chromosomal genome assemblies for two homosporous lycophyte species, the allotetraploid Huperzia asiatica and the diploid Diphasiastrum complanatum. Remarkably, despite that the two species diverged ∼350 Mya, around 30% of the genes are still in syntenic blocks. Furthermore, both genomes had undergone independent whole genome duplications, and the resulting intragenomic syntenies have likewise been preserved relatively well. Such slow genome evolution over deep time is in stark contrast to heterosporous lycophytes and is correlated with a decelerated rate of nucleotide substitution. Together, the genomes of H. asiatica and D. complanatum not only fill a crucial gap in the plant genomic landscape but also highlight a potentially meaningful genomic contrast between homosporous and heterosporous species.

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