Gene retention, fractionation and subgenome differences in polyploid plants

F Cheng, J Wu, X Cai, J Liang, M Freeling, X Wang - Nature plants, 2018 - nature.com
All natural plant species are evolved from ancient polyploids. Polyloidization plays an
important role in plant genome evolution, species divergence and crop domestication. We …

MicroRNAs in crop improvement: fine-tuners for complex traits

J Tang, C Chu - Nature plants, 2017 - nature.com
One of the most common challenges for both conventional and modern crop improvement is
that the appearance of one desirable trait in a new crop variety is always balanced by the …

Impacts of allopolyploidization and structural variation on intraspecific diversification in Brassica rapa

X Cai, L Chang, T Zhang, H Chen, L Zhang, R Lin… - Genome biology, 2021 - Springer
Background Despite the prevalence and recurrence of polyploidization in the speciation of
flowering plants, its impacts on crop intraspecific genome diversification are largely …

expVIP: a customizable RNA-seq data analysis and visualization platform

P Borrill, R Ramirez-Gonzalez, C Uauy - Plant physiology, 2016 - academic.oup.com
The majority of transcriptome sequencing (RNA-seq) expression studies in plants remain
underutilized and inaccessible due to the use of disparate transcriptome references and the …

Impact of transposable elements on genome structure and evolution in bread wheat

T Wicker, H Gundlach, M Spannagl, C Uauy, P Borrill… - Genome biology, 2018 - Springer
Abstract Background Transposable elements (TEs) are major components of large plant
genomes and main drivers of genome evolution. The most recent assembly of hexaploid …

Wheat breeding history reveals synergistic selection of pleiotropic genomic sites for plant architecture and grain yield

A Li, C Hao, Z Wang, S Geng, M Jia, F Wang, X Han… - Molecular Plant, 2022 - cell.com
Diversity surveys of crop germplasm are important for gaining insights into the genomic
basis for plant architecture and grain yield improvement, which is still poorly understood in …

[PDF][PDF] Haplotype-phased genome and evolution of phytonutrient pathways of tetraploid blueberry

M Colle, CP Leisner, CM Wai, S Ou, KA Bird… - …, 2019 - academic.oup.com
Abstract Background Highbush blueberry (Vaccinium corymbosum) has long been
consumed for its unique flavor and composition of health-promoting phytonutrients …

Genomics of evolutionary novelty in hybrids and polyploids

G Nieto Feliner, J Casacuberta, JF Wendel - Frontiers in genetics, 2020 - frontiersin.org
It has long been recognized that hybridization and polyploidy are prominent processes in
plant evolution. Although classically recognized as significant in speciation and adaptation …

Impact of transposable elements on polyploid plant genomes

CM Vicient, JM Casacuberta - Annals of Botany, 2017 - academic.oup.com
Background The growing wealth of knowledge on whole-plant genome sequences is
highlighting the key role of transposable elements (TEs) in plant evolution, as a driver of …

The causes and consequences of subgenome dominance in hybrids and recent polyploids

KA Bird, R VanBuren, JR Puzey, PP Edger - New Phytologist, 2018 - Wiley Online Library
Contents Summary 87 I. Introduction 87 II. Evolution in action: subgenome dominance within
newly formed hybrids and polyploids 88 III. Summary and future directions 90 …