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Genome resequencing reveals the evolutionary history of garlic reproduction traits

The propagation of cultivated garlic relies on vegetative cloves, thus flowers become non-essential for reproduction in this species, driving the evolution of reproductive feature-derived traits. To obtain insights into the evolutionary alteration of reproductive traits in the clonally propagated ga...

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Autores principales: Wang, Haiping, Shemesh-Mayer, Einat, Zhang, Jiangjiang, Gao, Song, Zeng, Zheng, Yang, Zemao, Zhang, Xueyu, Jia, Huixia, Wang, Yanzhou, Song, Jiangping, Zhang, Xiaohui, Yang, Wenlong, He, Qiaoyun, Sherman, Amir, Li, Lin, Kamenetsky, Rina, Liu, Touming
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10689055/
https://www.ncbi.nlm.nih.gov/pubmed/38046855
http://dx.doi.org/10.1093/hr/uhad208
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author Wang, Haiping
Shemesh-Mayer, Einat
Zhang, Jiangjiang
Gao, Song
Zeng, Zheng
Yang, Zemao
Zhang, Xueyu
Jia, Huixia
Wang, Yanzhou
Song, Jiangping
Zhang, Xiaohui
Yang, Wenlong
He, Qiaoyun
Sherman, Amir
Li, Lin
Kamenetsky, Rina
Liu, Touming
author_facet Wang, Haiping
Shemesh-Mayer, Einat
Zhang, Jiangjiang
Gao, Song
Zeng, Zheng
Yang, Zemao
Zhang, Xueyu
Jia, Huixia
Wang, Yanzhou
Song, Jiangping
Zhang, Xiaohui
Yang, Wenlong
He, Qiaoyun
Sherman, Amir
Li, Lin
Kamenetsky, Rina
Liu, Touming
author_sort Wang, Haiping
collection PubMed
description The propagation of cultivated garlic relies on vegetative cloves, thus flowers become non-essential for reproduction in this species, driving the evolution of reproductive feature-derived traits. To obtain insights into the evolutionary alteration of reproductive traits in the clonally propagated garlic, the evolutionary histories of two main reproduction-related traits, bolting and flower differentiation, were explored by genome analyses using 134 accessions displaying wide diversity in these two traits. Resequencing identified 272.8 million variations in the garlic genome, 198.0 million of which represent novel variants. Population analysis identified five garlic groups that have evolved into two clades. Gene expression, single-cell transcriptome sequencing, and genome-wide trait association analyses have identified numerous candidates that correlate with reproductive transition and flower development, some of which display distinct selection signatures. Selective forces acting on the B-box zinc finger protein-encoding Asa2G00291.1, the global transcription factor group E protein-encoding Asa5G01527.1, and VERNALIZATION INSENSITIVE 3-like Asa3G03399.1 appear to be representative of the evolution of garlic bolting. Plenty of novel genomic variations and trait-related candidates represent valuable resources for biological studies of garlic. Numerous selective signatures from genes associated with the two chosen reproductive traits provide important insights into the evolutionary history of reproduction in this clonally propagated crop.
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spelling pubmed-106890552023-12-01 Genome resequencing reveals the evolutionary history of garlic reproduction traits Wang, Haiping Shemesh-Mayer, Einat Zhang, Jiangjiang Gao, Song Zeng, Zheng Yang, Zemao Zhang, Xueyu Jia, Huixia Wang, Yanzhou Song, Jiangping Zhang, Xiaohui Yang, Wenlong He, Qiaoyun Sherman, Amir Li, Lin Kamenetsky, Rina Liu, Touming Hortic Res Article The propagation of cultivated garlic relies on vegetative cloves, thus flowers become non-essential for reproduction in this species, driving the evolution of reproductive feature-derived traits. To obtain insights into the evolutionary alteration of reproductive traits in the clonally propagated garlic, the evolutionary histories of two main reproduction-related traits, bolting and flower differentiation, were explored by genome analyses using 134 accessions displaying wide diversity in these two traits. Resequencing identified 272.8 million variations in the garlic genome, 198.0 million of which represent novel variants. Population analysis identified five garlic groups that have evolved into two clades. Gene expression, single-cell transcriptome sequencing, and genome-wide trait association analyses have identified numerous candidates that correlate with reproductive transition and flower development, some of which display distinct selection signatures. Selective forces acting on the B-box zinc finger protein-encoding Asa2G00291.1, the global transcription factor group E protein-encoding Asa5G01527.1, and VERNALIZATION INSENSITIVE 3-like Asa3G03399.1 appear to be representative of the evolution of garlic bolting. Plenty of novel genomic variations and trait-related candidates represent valuable resources for biological studies of garlic. Numerous selective signatures from genes associated with the two chosen reproductive traits provide important insights into the evolutionary history of reproduction in this clonally propagated crop. Oxford University Press 2023-10-17 /pmc/articles/PMC10689055/ /pubmed/38046855 http://dx.doi.org/10.1093/hr/uhad208 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of Nanjing Agricultural University. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Article
Wang, Haiping
Shemesh-Mayer, Einat
Zhang, Jiangjiang
Gao, Song
Zeng, Zheng
Yang, Zemao
Zhang, Xueyu
Jia, Huixia
Wang, Yanzhou
Song, Jiangping
Zhang, Xiaohui
Yang, Wenlong
He, Qiaoyun
Sherman, Amir
Li, Lin
Kamenetsky, Rina
Liu, Touming
Genome resequencing reveals the evolutionary history of garlic reproduction traits
title Genome resequencing reveals the evolutionary history of garlic reproduction traits
title_full Genome resequencing reveals the evolutionary history of garlic reproduction traits
title_fullStr Genome resequencing reveals the evolutionary history of garlic reproduction traits
title_full_unstemmed Genome resequencing reveals the evolutionary history of garlic reproduction traits
title_short Genome resequencing reveals the evolutionary history of garlic reproduction traits
title_sort genome resequencing reveals the evolutionary history of garlic reproduction traits
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10689055/
https://www.ncbi.nlm.nih.gov/pubmed/38046855
http://dx.doi.org/10.1093/hr/uhad208
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