Technology-enabled great leap in deciphering plant genomes

L Xie, X Gong, K Yang, Y Huang, S Zhang, L Shen… - Nature Plants, 2024 - nature.com
Plant genomes provide essential and vital basic resources for studying many aspects of
plant biology and applications (for example, breeding). From 2000 to 2020, 1,144 genomes …

[HTML][HTML] A review of the pangenome: how it affects our understanding of genomic variation, selection and breeding in domestic animals?

Y Gong, Y Li, X Liu, Y Ma, L Jiang - Journal of Animal Science and …, 2023 - Springer
As large-scale genomic studies have progressed, it has been revealed that a single
reference genome pattern cannot represent genetic diversity at the species level. While …

Genomic innovation and regulatory rewiring during evolution of the cotton genus Gossypium

M Wang, J Li, Z Qi, Y Long, L Pei, X Huang… - Nature Genetics, 2022 - nature.com
Phenotypic diversity and evolutionary innovation ultimately trace to variation in genomic
sequence and rewiring of regulatory networks. Here, we constructed a pan-genome of the …

[HTML][HTML] Stigma receptors control intraspecies and interspecies barriers in Brassicaceae

J Huang, L Yang, L Yang, X Wu, X Cui, L Zhang, J Hui… - Nature, 2023 - nature.com
Flowering plants have evolved numerous intraspecific and interspecific prezygotic
reproductive barriers to prevent production of unfavourable offspring. Within a species, self …

BRAD V3. 0: an upgraded Brassicaceae database

H Chen, T Wang, X He, X Cai, R Lin… - Nucleic Acids …, 2022 - academic.oup.com
Abstract The Brassicaceae Database (BRAD version 3.0, BRAD V3. 0; http://brassicadb. cn)
has evolved from the former Brassica Database (BRAD V2. 0), and represents an important …

[HTML][HTML] Structural variation (SV)-based pan-genome and GWAS reveal the impacts of SVs on the speciation and diversification of allotetraploid cottons

S Jin, Z Han, Y Hu, Z Si, F Dai, L He, Y Cheng, Y Li… - Molecular Plant, 2023 - cell.com
Structural variations (SVs) have long been described as being involved in the origin,
adaption, and domestication of species. However, the underlying genetic and genomic …

A near‐complete genome assembly of Brassica rapa provides new insights into the evolution of centromeres

L Zhang, J Liang, H Chen, Z Zhang… - Plant biotechnology …, 2023 - Wiley Online Library
Brassica rapa comprises many important cultivated vegetables and oil crops. However,
Chiifu v3. 0, the current B. rapa reference genome, still contains hundreds of gaps. Here, we …

[HTML][HTML] Large-scale gene expression alterations introduced by structural variation drive morphotype diversification in Brassica oleracea

X Li, Y Wang, C Cai, J Ji, F Han, L Zhang, S Chen… - Nature Genetics, 2024 - nature.com
Brassica oleracea, globally cultivated for its vegetable crops, consists of very diverse
morphotypes, characterized by specialized enlarged organs as harvested products. This …

Graph-based pan-genomes: increased opportunities in plant genomics

S Wang, YQ Qian, RP Zhao, LL Chen… - Journal of …, 2023 - academic.oup.com
Due to the development of sequencing technology and the great reduction in sequencing
costs, an increasing number of plant genomes have been assembled, and numerous …

Unravelling inversions: Technological advances, challenges, and potential impact on crop breeding

H Hu, A Scheben, J Wang, F Li, C Li… - Plant biotechnology …, 2024 - Wiley Online Library
Inversions, a type of chromosomal structural variation, significantly influence plant
adaptation and gene functions by impacting gene expression and recombination rates …