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Abstract
Sweetpotato [Ipomoea batatas (L.) Lam.] is a globally important staple food crop, especially for sub-Saharan Africa. Agronomic improvement of sweetpotato has lagged behind other major food crops due to a lack of genomic and genetic resources and inherent challenges in breeding a heterozygous, clonally propagated polyploid. Here, we report the genome sequences of its two diploid relatives, I. trifida and I. triloba, and show that these high-quality genome assemblies are robust references for hexaploid sweetpotato. Comparative and phylogenetic analyses reveal insights into the ancient whole-genome triplication history of Ipomoea and evolutionary relationships within the Batatas complex. Using resequencing data from 16 genotypes widely used in African breeding programs, genes and alleles associated with carotenoid biosynthesis in storage roots are identified, which may enable efficient breeding of varieties with high provitamin A content. These resources will facilitate genome-enabled breeding in this important food security crop.
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1 Boyce Thompson Institute, Cornell University, Ithaca, NY, USA
2 Department of Plant Biology, Michigan State University, East Lansing, MI, USA
3 Boyce Thompson Institute, Cornell University, Ithaca, NY, USA; Jiangsu Xuzhou Sweetpotato Research Center, Xuzhou, Jiangsu, China
4 Boyce Thompson Institute, Cornell University, Ithaca, NY, USA; National Engineering Research Center for Vegetables, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
5 Institute for Molecular Bioscience, University of Queensland, St Lucia, Brisbane, QLD, Australia
6 Department of Plant Biology, University of Georgia, Athens, GA, USA; Department of Conservation and Research, Atlanta Botanical Garden, Atlanta, GA, USA
7 International Potato Center, Lima 12, Peru
8 Department of Horticultural Science, North Carolina State University, Raleigh, NC, USA; Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, USA
9 Department of Plant Biology, Michigan State University, East Lansing, MI, USA; Department of Horticulture, Michigan State University, East Lansing, MI, USA
10 International Potato Center, Nairobi, Kenya
11 Food Crops Institute, Hubei Academy of Agricultural Sciences, Wuhan, China
12 Genomic Sciences Laboratory, North Carolina State University, Raleigh, NC, USA
13 International Potato Center, Lima 12, Peru; Plant Pathology and Plant-Microbe Biology Section, Cornell University, Geneva, NY, USA
14 Jiangsu Xuzhou Sweetpotato Research Center, Xuzhou, Jiangsu, China
15 International Potato Center, Kampala, Uganda
16 Department of Plant Biology, University of Georgia, Athens, GA, USA
17 Department of Horticultural Science, North Carolina State University, Raleigh, NC, USA
18 Department of Plant Biology, Michigan State University, East Lansing, MI, USA; Plant Resilience Institute, Michigan State University, East Lansing, MI, USA
19 Boyce Thompson Institute, Cornell University, Ithaca, NY, USA; USDA-ARS Robert W. Holley Center for Agriculture and Health, Ithaca, NY, USA