Genome assembly and population genomic analysis provide insights into the evolution of modern sweet corn

Author:

Hu Ying,Colantonio Vincent,Müller Bárbara S. F.ORCID,Leach Kristen A.,Nanni Adalena,Finegan Christina,Wang Bo,Baseggio MatheusORCID,Newton Carter J.,Juhl Emily M.,Hislop Lillian,Gonzalez Juan M.ORCID,Rios Esteban F.ORCID,Hannah L. Curtis,Swarts Kelly,Gore Michael A.ORCID,Hennen-Bierwagen Tracie A.,Myers Alan M.ORCID,Settles A. MarkORCID,Tracy William F.,Resende Marcio F. R.ORCID

Abstract

AbstractSweet corn is one of the most important vegetables in the United States and Canada. Here, we present a de novo assembly of a sweet corn inbred line Ia453 with the mutated shrunken2-reference allele (Ia453-sh2). This mutation accumulates more sugar and is present in most commercial hybrids developed for the processing and fresh markets. The ten pseudochromosomes cover 92% of the total assembly and 99% of the estimated genome size, with a scaffold N50 of 222.2 Mb. This reference genome completely assembles the large structural variation that created the mutant sh2-R allele. Furthermore, comparative genomics analysis with six field corn genomes highlights differences in single-nucleotide polymorphisms, structural variations, and transposon composition. Phylogenetic analysis of 5,381 diverse maize and teosinte accessions reveals genetic relationships between sweet corn and other types of maize. Our results show evidence for a common origin in northern Mexico for modern sweet corn in the U.S. Finally, population genomic analysis identifies regions of the genome under selection and candidate genes associated with sweet corn traits, such as early flowering, endosperm composition, plant and tassel architecture, and kernel row number. Our study provides a high-quality reference-genome sequence to facilitate comparative genomics, functional studies, and genomic-assisted breeding for sweet corn.

Publisher

Springer Science and Business Media LLC

Subject

General Physics and Astronomy,General Biochemistry, Genetics and Molecular Biology,General Chemistry

Reference115 articles.

1. Lertrat, K. & Pulam, T. Breeding for increased sweetness in sweet corn. Int. J. Plant Breed. 1, 27–30 (2007).

2. USDA-NASS. United States Department of Agriculture–National Agricultural Statistics Service QuickStats. (2019).

3. USDA/HHS. The Report of the Dietary Guidelines Advisory Committee on the Dietary Guidelines for Americans, 2015, to the Secretary of Agriculture and the Secretary of Health and Human Services. (2015).

4. Rahman, A., Wong, K., Jane, J., Myers, A. M. & James, M. G. Characterization of SU1 isoamylase, a determinant of storage starch structure in maize. Plant Physiol. 117, 425–435 (1998).

5. Tsai, C. Y. & Nelson, O. E. Starch-deficient maize mutant lacking adenosine dephosphate glucose pyrophosphorylase activity. Science 151, 341–343 (1966).

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3