Haplotype-based phylogenetic analysis and population genomics uncover the origin and domestication of sweetpotato
文献类型： 外文期刊
作者： Yan, Mengxiao 1 ; Li, Ming 2 ; Wang, Yunze 1 ; Wang, Xinyi 1 ; Moeinzadeh, M. -Hossein 5 ; Quispe-Huamanquispe, Dora G. 6 ; Fan, Weijuan 1 ; Fang, Yijie 1 ; Wang, Yuqin 1 ; Nie, Haozhen 1 ; Wang, Zhangying 7 ; Tanaka, Aiko 8 ; Heider, Bettina 9 ; Kreuze, Jan F. 9 ; Gheysen, Godelieve 6 ; Wang, Hongxia 1 ; Vingron, Martin 5 ; Bock, Ralph 11 ; Yang, Jun 1 ;
作者机构： 1.Shanghai Chenshan Bot Garden, Shanghai Key Lab Plant Funct Genom & Resources, Shanghai 201602, Peoples R China
2.Chongqing Normal Univ, Coll Life Sci, Chongqing 401331, Peoples R China
3.Sichuan Acad Agr Sci, Biotechnol & Nucl Technol Res Inst, Chengdu 610061, Peoples R China
4.Shanghai Normal Univ, Coll Life Sci, Shanghai 200234, Peoples R China
5.Max Planck Inst Mol Genet, Dept Computat Mol Biol, Ihnestr 63-73, D-14195 Berlin, Germany
6.Univ Ghent, Dept Biotechnol, B-9000 Ghent, Belgium
7.Guangdong Acad Agr Sci, Crop Res Inst, Guangdong Prov Key Lab Crops Genet & Improvement, Guangzhou 510640, Peoples R China
8.Nagoya Univ, Grad Sch Bioagr Sci, Nagoya 4648601, Japan
9.Int Potato Ctr CIP, Lima, Peru
10.Chinese Acad Sci, Inst Plant Physiol & Ecol, CAS Ctr Excellence Mol Plant Sci, Shanghai 200233, Peoples R China
11.Inst Mol Pflanzenphysiol, Muhlenberg 1, D-14476 Potsdam Golm, Germany
关键词： sweetpotato; origin; gene conversion; domestication; IbT-DNA; HPA
期刊名称：MOLECULAR PLANT （ 影响因子：27.5； 五年影响因子：22.6 ）
ISSN： 1674-2052
年卷期： 2024 年 17 卷 2 期
页码：
收录情况： SCI
摘要： The hexaploid sweetpotato (Ipomoea batatas) is one of the most important root crops worldwide. However, its genetic origin remains controversial, and its domestication history remains unknown. In this study, we used a range of genetic evidence and a newly developed haplotype-based phylogenetic analysis to identify two probable progenitors of sweetpotato. The diploid progenitor was likely closely related to Ipomoea aequatoriensis and contributed the B1 subgenome, IbT-DNA2, and the lineage 1 type of chloroplast genome to sweetpotato. The tetraploid progenitor of sweetpotato was most likely I. batatas 4x, which donated the B2 subgenome, IbT-DNA1, and the lineage 2 type of chloroplast genome. Sweetpotato most likely originated from reciprocal crosses between the diploid and tetraploid progenitors, followed by a subsequent wholegenome duplication. In addition, we detected biased gene exchanges between the subgenomes; the rate of B1 to B2 subgenome conversions was nearly three times higher than that of B2 to B1 subgenome conversions. Our analyses revealed that genes involved in storage root formation, maintenance of genome stability, biotic resistance, sugar transport, and potassium uptake were selected during the speciation and domestication of sweetpotato. This study sheds light on the evolution of sweetpotato and paves the way for improvement of this crop.
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