Redundancy analysis: A Swiss Army Knife for landscape genomics

T Capblancq, BR Forester - Methods in Ecology and Evolution, 2021 - Wiley Online Library
Landscape genomics identifies how spatial and environmental factors structure the amount
and distribution of genetic variation among populations. Landscape genomic analyses have …

Advancing crop genomics from lab to field

MD Purugganan, SA Jackson - Nature genetics, 2021 - nature.com
Crop genomics remains a key element in ensuring scientific progress to secure global food
security. It has been two decades since the sequence of the first plant genome, that of …

Multiple domestications of Asian rice

CY Jing, FM Zhang, XH Wang, MX Wang, L Zhou, Z Cai… - Nature plants, 2023 - nature.com
The origin of domesticated Asian rice (Oryza sativa L.) has been controversial for more than
half a century. The debates have focused on two leading hypotheses: a single domestication …

Population genomics unravels the Holocene history of bread wheat and its relatives

X Zhao, Y Guo, L Kang, C Yin, A Bi, D Xu, Z Zhang… - Nature Plants, 2023 - nature.com
Deep knowledge of crop biodiversity is essential to improving global food security. Despite
bread wheat serving as a keystone crop worldwide, the population history of bread wheat …

Anthropogenic impacts on Late Holocene land-cover change and floristic biodiversity loss in tropical southeastern Asia

Z Zheng, T Ma, P Roberts, Z Li, Y Yue… - Proceedings of the …, 2021 - National Acad Sciences
Southern China and Southeast Asia witnessed some of their most significant economic and
social changes relevant to human land use during the Late Holocene, including the …

Natural variation of DROT1 confers drought adaptation in upland rice

X Sun, H Xiong, C Jiang, D Zhang, Z Yang… - Nature …, 2022 - nature.com
Upland rice is a distinct ecotype that grows in aerobic environments and tolerates drought
stress. However, the genetic basis of its drought resistance is unclear. Here, using an …

Understanding farm-level differences in environmental impact and eco-efficiency: the case of rice production in Iran

Z Saber, R van Zelm, H Pirdashti, AM Schipper… - Sustainable Production …, 2021 - Elsevier
Eco-efficiency, defined as the economic profit per unit of environmental impact, can largely
differ between farms that produce the same crop. Understanding the underlying drivers of …

A syntelog-based pan-genome provides insights into rice domestication and de-domestication

D Wu, L Xie, Y Sun, Y Huang, L Jia, C Dong, E Shen… - Genome Biology, 2023 - Springer
Background Asian rice is one of the world's most widely cultivated crops. Large-scale
resequencing analyses have been undertaken to explore the domestication and de …

A rice variation map derived from 10 548 rice accessions reveals the importance of rare variants

T Wang, W He, X Li, C Zhang, H He… - Nucleic Acids …, 2023 - academic.oup.com
Detailed knowledge of the genetic variations in diverse crop populations forms the basis for
genetic crop improvement and gene functional studies. In the present study, we analyzed a …

Pan-genome inversion index reveals evolutionary insights into the subpopulation structure of Asian rice

Y Zhou, Z Yu, D Chebotarov, K Chougule, Z Lu… - Nature …, 2023 - nature.com
Understanding and exploiting genetic diversity is a key factor for the productive and stable
production of rice. Here, we utilize 73 high-quality genomes that encompass the …