数字农科院2.0

A reference genome of Commelinales provides insights into the commelinids evolution and global spread of water hyacinth (Pontederia crassipes)

文献类型： 外文期刊

作者： Yujie Huang;Longbiao Guo;Lingjuan Xie;Nianmin Shang;Dongya Wu;Chuyu Ye;Eduardo Carlos Rudell;Kazunori Okada;Qian Hao Zhu;Beng Kah Song;Daguang Cai;Aldo Merotto Junior;Lianyang Bai;Longjiang Fan

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关键词： Commelinales;genetic diversity;karyotypes;phylogeny of the commelinids;Pontederia crassipes or Eichhornia crassipes;reference genome

期刊名称： GigaScience

ISSN： 2047-217X

年卷期： 2024 年 13 卷

页码：

收录情况： SCIE（2024版）

摘要： Commelinales belongs to the commelinids clade, which also comprises Poales that includes the most important monocot species, such as rice, wheat, and maize. No reference genome of Commelinales is currently available. Water hyacinth (Pontederia crassipes or Eichhornia crassipes), a member of Commelinales, is one of the devastating aquatic weeds, although it is also grown as an ornamental and medical plant. Here, we present a chromosome-scale reference genome of the tetraploid water hyacinth with a total length of 1.22 Gb (over 95% of the estimated size) across 8 pseudochromosome pairs. With the representative genomes, we reconstructed a phylogeny of the commelinids, which supported Zingiberales and Commelinales being sister lineages of Arecales and shed lights on the controversial relationship of the orders. We also reconstructed ancestral karyotypes of the commelinids clade and confirmed the ancient commelinids genome having 8 chromosomes but not 5 as previously reported. Gene family analysis revealed contraction of disease-resistance genes during polyploidization of water hyacinth, likely a result of fitness requirement for its role as a weed. Genetic diversity analysis using 9 water hyacinth lines from 3 continents (South America, Asia, and Europe) revealed very closely related nuclear genomes and almost identical chloroplast genomes of the materials, as well as provided clues about the global dispersal of water hyacinth. The genomic resources of P. crassipes reported here contribute a crucial missing link of the commelinids species and offer novel insights into their phylogeny.

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