The details are in the genome-wide SNPs: Fine scale evolution of the Malaysian weedy rice

Sudo, Maggie Pui San; Yesudasan, Rupini; Neik, Ting Xiang; Dilipkumar, Masilamany; Jayaraj, Jayasyaliny; Teo, Su Sin; Rahman, Sadequr; Song, Beng Kah

doi:10.1016/j.plantsci.2021.110985

Cited by 3 publications

(1 citation statement)

References 54 publications

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“…Similar phenomena were also found in weedy rice from other world regions, where standing variation and novel mutations together have resulted in the repeated occurrences of the weediness traits 28 , 31 , 40 , 48 . The results of the present analysis, which indicate that wild rice introgression can also play a role in this process, are broadly consistent with other studies which suggest multiple evolutionary pathways to weediness 28 , 36 , 38 , 39 , 55 .…”

Section: Discussionsupporting

confidence: 92%

Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia

Li,

Pusadee,

Wedger

et al. 2024

Nat Commun

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High reproductive compatibility between crops and their wild relatives can provide benefits for crop breeding but also poses risks for agricultural weed evolution. Weedy rice is a feral relative of rice that infests paddies and causes severe crop losses worldwide. In regions of tropical Asia where the wild progenitor of rice occurs, weedy rice could be influenced by hybridization with the wild species. Genomic analysis of this phenomenon has been very limited. Here we use whole genome sequence analyses of 217 wild, weedy and cultivated rice samples to show that wild rice hybridization has contributed substantially to the evolution of Southeast Asian weedy rice, with some strains acquiring weed-adaptive traits through introgression from the wild progenitor. Our study highlights how adaptive introgression from wild species can contribute to agricultural weed evolution, and it provides a case study of parallel evolution of weediness in independently-evolved strains of a weedy crop relative.

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Section: Discussionsupporting

confidence: 92%

Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia

Li,

Pusadee,

Wedger

et al. 2024

Nat Commun

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Screening of heat stress-tolerant weedy rice and SNP identification of heat-tolerance-related genes

Sarker,

Hussain,

Neik

et al. 2024

Plant Biotechnol Rep

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Rice, a staple crop that feeds more than one-third of the world’s population, encounters a wide range of biotic and abiotic stresses due to climate change. Rising temperature is one of the significant abiotic stresses affecting rice productivity worldwide. The development of heat-tolerant rice cultivars is critical in this regard. Weedy rice could potentially serve as a natural resource for genes conferring agronomically important traits beneficial to cultivated rice. However, heat tolerance in both cultivated and weedy rice is still understudied. This study screened a set of 180 weedy rice accessions for heat stress tolerance and further characterised them using genome-wide single-nucleotide polymorphisms (SNPs) analysis. Five heat-tolerant (HT) accessions (MU244, MU235, MU249, MU260 and MU237), along with five heat-susceptible (HS) accessions (MU100, MU114, MU264, MU251 and MU005), were subjected to relative electrical conductivity (REC) test and reactive oxidative species assay (ROS). These tests verified that the five HT accessions performed better under heat stress than their HS counterparts. In addition, whole-genome sequences of three HT (MU235, MU237 and MU066) and four HS (MU100, MU114, MU022 and MU005) accessions were selected for the genome-wide SNPs comparison, revealing substantial amino acid variation in the heat-tolerance-related genes between the HT and HS rice groups. The proposed genes and genome-wide SNP markers may help rice breeders better understand how different rice cultivars respond to heat stress.

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Weedy Rice Infestation in Malaysia: What Do We Know and Where Do We Go?

Mahmod,

Syed Bakar,

Mispan

et al. 2024

Agriculture

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Weedy rice is a notorious weed in the rice agroecosystem. Its infestation has caused significant economic loss in many rice-production countries, including Malaysia. In Malaysia, weedy rice consists of a genetic admixture of cultivated and wild traits, resulting in a highly competitive ability against cultivated rice for resources. The morphology and genetic plasticity of weedy rice provide several adaptive advantages, enabling it to thrive in rice agroecosystems and become a serious weed infesting Malaysian rice granaries. Previous strategies in combating weedy rice have often been less effective since weedy rice is easily adapted to a wide range of environments. In this review, we address the weedy rice issue in Malaysia and the progress of weedy rice studies. A future direction on weedy rice research via omics study is also discussed to propose solutions for improvement in weed control, good agronomic practices, and food security.

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The details are in the genome-wide SNPs: Fine scale evolution of the Malaysian weedy rice

Cited by 3 publications

References 54 publications

Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia

Porous borders at the wild-crop interface promote weed adaptation in Southeast Asia

Screening of heat stress-tolerant weedy rice and SNP identification of heat-tolerance-related genes

Weedy Rice Infestation in Malaysia: What Do We Know and Where Do We Go?

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