Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement

  title={Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement},
  author={Shan Wu and Kin H. Lau and Qinghe Cao and John P. Hamilton and Honghe Sun and Chenxi Zhou and Lauren A. Eserman and Dorcus C. Gemenet and Bode A. Olukolu and Haiyan Wang and Emily Crisovan and Grant T. Godden and Chen Jiao and Xin Wang and Mercy Kitavi and Norma C. Manrique-Carpintero and Brieanne Vaillancourt and Krystle Wiegert-Rininger and Xinsun Yang and Kan Bao and Jennifer E. Schaff and Jan F. Kreuze and Wolfgang J. Gruneberg and Awais Khan and Marc Ghislain and Daifu Ma and Jiming Jiang and Robert O. M. Mwanga and James H. Leebens-Mack and Lachlan James M. Coin and G. Craig Yencho and C. Robin Buell and Zhangjun Fei},
  journal={Nature Communications},
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… 

The wild sweetpotato (Ipomoea trifida) genome provides insights into storage root development

The high-quality genome reference of the highly heterozygous I. trifida var.

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Haplotype-based phylogenetic analysis uncovers the tetraploid progenitor of sweet potato

It is revealed that the genes involved in storage root formation, sugar transport, stress resistance, and maintenance of genome stability have been selected during the speciation and domestication of sweet potato.

Genetic Linkage Map Construction and QTL Analysis of Important Pest and Agronomic Traits in Two Bi-parental Sweetpotato SNP Mapping Populations.

Novel genetic linkage mapping and QTL analysis algorithms, developed specifically for complex polyploids like sweetpotato were used to facilitate the analysis of both mapping populations, to improve the understanding of the inheritance of resistance to three pests ofsweetpotato.

Wolfberry genomes and the evolution of Lycium (Solanaceae)

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Phased diploid genome assemblies and pan-genomes provide insights into the genetic history of apple domestication

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Genome diversity of tuber-bearing Solanum uncovers complex evolutionary history and targets of domestication in the cultivated potato

A historic role of wild Solanum species in the diversification of long-day–adapted tetraploid potatoes is uncovered, showing that extant natural populations represent an essential source of untapped adaptive potential.

Genome sequence and analysis of the tuber crop potato

The potato genome sequence provides a platform for genetic improvement of this vital crop and predicts 39,031 protein-coding genes and presents evidence for at least two genome duplication events indicative of a palaeopolyploid origin.

The tomato genome sequence provides insights into fleshy fruit evolution

A high-quality genome sequence of domesticated tomato is presented, a draft sequence of its closest wild relative, Solanum pimpinellifolium, is compared, and the two tomato genomes are compared to each other and to the potato genome.

Disentangling the Origins of Cultivated Sweet Potato (Ipomoea batatas (L.) Lam.)

It is proposed that cultivated I. batatas have multiple origins, and evolved from at least two distinct autopolyploidization events in polymorphic wild populations of a single progenitor species.

Gene Pool Subdivision of East African Sweetpotato Parental Material

The analyzed breeding material from EA was highly genetically variable, grouped in two distinct genetic pools, and suitable to study heterosis exploiting breeding schemes.

Haplotype-resolved sweet potato genome traces back its hexaploidization history

This half haplotype-resolved hexaploid genome of sweet potato, Ipomoea batatas, is presented, representing the first successful attempt to investigate the complexity of chromosome sequence composition directly in a polyploids genome, using sequencing of the polyploid organism itself rather than any of its simplified proxy relatives.

Survey of genome sequences in a wild sweet potato, Ipomoea trifida (H. B. K.) G. Don

  • H. HirakawaY. Okada S. Isobe
  • Medicine, Biology
    DNA research : an international journal for rapid publication of reports on genes and genomes
  • 2015
De novo whole-genome sequencing was performed with two lines of I. trifida, namely the selfed line Mx23Hm and the highly heterozygous line 0431-1 using the Illumina HiSeq platform, to assist in analysis of the sweet potato genome.

Extensive genome heterogeneity leads to preferential allele expression and copy number‐dependent expression in cultivated potato

Relative to homozygous diploids, the presence of multiple homologs or homeologs in polyploids affords greater tolerance to mutations that can impact genome evolution. In this study, we describe