Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern

Amphicarpaea edgeworthii, an annual twining herb, is a widely distributed species and an attractive model for studying complex flowering types and evolutionary mechanisms of species. Herein, we have generated a high-quality assembly of A. edgeworthii by using a combination of PacBio, 10× Genomics li...

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Autores principales:	Tingting Song, Mengyan Zhou, Yuying Yuan, Jinqiu Yu, Hua Cai, Jiawei Li, Yajun Chen, Yan Bai, Gang Zhou, Guowen Cui
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	Amphicarpaea edgeworthii amphicarpic plant comparative genomics genome evolution flower and seed development Plant culture SB1-1110
Acceso en línea:	https://doaj.org/article/6de34d13d67c483ca4d4e621a9b7ae58
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spelling	oai:doaj.org-article:6de34d13d67c483ca4d4e621a9b7ae582021-11-18T09:51:37ZChromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern1664-462X10.3389/fpls.2021.770660https://doaj.org/article/6de34d13d67c483ca4d4e621a9b7ae582021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fpls.2021.770660/fullhttps://doaj.org/toc/1664-462XAmphicarpaea edgeworthii, an annual twining herb, is a widely distributed species and an attractive model for studying complex flowering types and evolutionary mechanisms of species. Herein, we have generated a high-quality assembly of A. edgeworthii by using a combination of PacBio, 10× Genomics libraries, and Hi-C mapping technologies. The final 11 chromosome-level scaffolds covered 90.61% of the estimated genome (343.78Mb), which is a chromosome-scale assembled genome of an amphicarpic plant. Subsequently, we characterized the genetic diversity and population structure of A. edgeworthii species by resequencing individuals collected from their natural area of distribution. Using transcriptome profiling, we observed that specific phenotypes are regulated by a complex network of light, hormones, and MADS-box gene families. These data are beneficial for the discovery of genes that control major agronomic traits and spur genetic improvement of and functional genetic studies in legumes, as well as supply comparative genetic resources for other amphicarpic plants.Tingting SongMengyan ZhouYuying YuanJinqiu YuHua CaiJiawei LiYajun ChenYan BaiGang ZhouGuowen CuiFrontiers Media S.A.articleAmphicarpaea edgeworthiiamphicarpic plantcomparative genomicsgenome evolutionflower and seed developmentPlant cultureSB1-1110ENFrontiers in Plant Science, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Amphicarpaea edgeworthii amphicarpic plant comparative genomics genome evolution flower and seed development Plant culture SB1-1110
spellingShingle	Amphicarpaea edgeworthii amphicarpic plant comparative genomics genome evolution flower and seed development Plant culture SB1-1110 Tingting Song Mengyan Zhou Yuying Yuan Jinqiu Yu Hua Cai Jiawei Li Yajun Chen Yan Bai Gang Zhou Guowen Cui Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
description	Amphicarpaea edgeworthii, an annual twining herb, is a widely distributed species and an attractive model for studying complex flowering types and evolutionary mechanisms of species. Herein, we have generated a high-quality assembly of A. edgeworthii by using a combination of PacBio, 10× Genomics libraries, and Hi-C mapping technologies. The final 11 chromosome-level scaffolds covered 90.61% of the estimated genome (343.78Mb), which is a chromosome-scale assembled genome of an amphicarpic plant. Subsequently, we characterized the genetic diversity and population structure of A. edgeworthii species by resequencing individuals collected from their natural area of distribution. Using transcriptome profiling, we observed that specific phenotypes are regulated by a complex network of light, hormones, and MADS-box gene families. These data are beneficial for the discovery of genes that control major agronomic traits and spur genetic improvement of and functional genetic studies in legumes, as well as supply comparative genetic resources for other amphicarpic plants.
format	article
author	Tingting Song Mengyan Zhou Yuying Yuan Jinqiu Yu Hua Cai Jiawei Li Yajun Chen Yan Bai Gang Zhou Guowen Cui
author_facet	Tingting Song Mengyan Zhou Yuying Yuan Jinqiu Yu Hua Cai Jiawei Li Yajun Chen Yan Bai Gang Zhou Guowen Cui
author_sort	Tingting Song
title	Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
title_short	Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
title_full	Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
title_fullStr	Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
title_full_unstemmed	Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern
title_sort	chromosome-scale reference genome of amphicarpaea edgeworthii: a new resource for amphicarpic plants research and complex flowering pattern
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/6de34d13d67c483ca4d4e621a9b7ae58
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_version_	1718420851323305984

Chromosome-Scale Reference Genome of Amphicarpaea edgeworthii: A New Resource for Amphicarpic Plants Research and Complex Flowering Pattern

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