Crop adaptation to climate change: An evolutionary perspective

Molecular Plant, Год журнала: 2023, Номер 16(10), С. 1518 - 1546

Опубликована: Июль 27, 2023

Язык: Английский

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Leveraging Automated Machine Learning for Environmental Data‐Driven Genetic Analysis and Genomic Prediction in Maize Hybrids

Advanced Science, Год журнала: 2025, Номер unknown

Опубликована: Март 6, 2025

Genotype, environment, and genotype-by-environment (G×E) interactions play a critical role in shaping crop phenotypes. Here, large-scale, multi-environment hybrid maize dataset is used to construct validate an automated machine learning framework that integrates environmental genomic data for improved accuracy efficiency genetic analyses predictions. Dimensionality-reduced parameters (RD_EPs) aligned with developmental stages are applied establish linear relationships between RD_EPs traits assess the influence of environment on phenotype. Genome-wide association study identifies 539 phenotypic plasticity trait-associated markers (PP-TAMs), 223 stability TAMs (Main-TAMs), 92 G×E-TAMs, revealing distinct bases PP G×E interactions. Training prediction models both increase by 14.02% 28.42% over genome-wide marker approaches. These results demonstrate potential utilizing improving analysis selection, offering scalable approach developing climate-adaptive varieties.

Язык: Английский

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The genomic secrets of invasive plants

New Phytologist, Год журнала: 2025, Номер unknown

Опубликована: Янв. 2, 2025

Summary Genomics has revolutionised the study of invasive species, allowing evolutionary biologists to dissect mechanisms invasion in unprecedented detail. Botanical research played an important role these advances, driving much what we currently know about key determinants success (e.g. hybridisation, whole‐genome duplication). Despite this, a comprehensive review plant genomics been lacking. Here, aim address this gap, highlighting recent discoveries that have helped progress field. For example, by leveraging natural and experimental populations, botanical confirmed importance large‐effect standing variation during adaptation species. Further, genomic investigations plants are increasingly revealing large structural variants, as well genetic changes induced duplication such redundancy or breakdown dosage‐sensitive reproductive barriers, can play adaptive evolution invaders. However, numerous questions remain, including when chromosomal inversions might help hinder invasions, whether gene reuse is common epigenetically mutations underpin plasticity populations. We conclude other outstanding studies poised answer.

Язык: Английский

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Embracing plant plasticity or robustness as a means of ensuring food security

Nature Communications, Год журнала: 2025, Номер 16(1)

Опубликована: Янв. 7, 2025

The dual challenges of global population explosion and environmental deterioration represent major hurdles for 21st Century agriculture culminating in an unprecedented demand food security. In this Review, we revisit historical concepts plasticity canalization before integrating them with contemporary studies genotype-environment interactions (G×E) that are currently being carried out at the genome-wide level. doing so address both fundamental questions regarding G×E potential strategies to best secure yields current future climate scenarios. Breeding adaptive crop cultivars under changing scenario is anything but easy. Here, authors review their integration genotype-environmental objective facilitate breeding.

Язык: Английский

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Quantifying the physiological, yield, and quality plasticity of Southern USA soybeans under heat stress

Plant Stress, Год журнала: 2023, Номер 9, С. 100195 - 100195

Опубликована: Авг. 5, 2023

Climate change is causing an increase in air temperature during the reproductive and grain-filling stages, which detrimental to soybean production quality. Assessing variability induced by heat stress morpho-physiological, yield, quality traits effective strategy for identifying heat-tolerant cultivars. In this study, ten cultivars were exposed temperatures 4.6 °C above optimum (32 °C) from R1 R6 stages investigate stress-induced traits. On average, stomatal conductance decreased 11% under compared control. However, cultivar R01-416F had maximum (34%), least canopy (+2 as Heat-stressed plants recorded a 3% reduction chlorophyll content, with DM 45 × 61 experiencing greatest decline of 22%. Across cultivars, specific leaf area 17% stress, G4620RX recording highest (28%). The results revealed significant pod number (3.8%), weight (4%), seed (4.2%), (5%), hundred-seed (1.1%) per over among R15-2422 LS5009X displayed relatively less stress. comparison control, protein (4.4%) while it 16.6% oil. Based on phenotypic plasticity index, R15-2422, LS5009XS demonstrated potential maintaining higher yields hot conditions. These findings highlight impact plasticity. knowledge generated study helps selecting developing that can withstand thus productivity warmer climates.

Язык: Английский

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Strawberry phenotypic plasticity in flowering time is driven by the interaction between genetic loci and temperature

Journal of Experimental Botany, Год журнала: 2024, Номер 75(18), С. 5923 - 5939

Опубликована: Июнь 28, 2024

Flowering time (FT), which determines when fruits or seeds can be harvested, is subject to phenotypic plasticity, that is, the ability of a genotype display different phenotypes in response environmental variation. Here, we investigated how environment affects genetic architecture FT cultivated strawberry (Fragaria × ananassa) and modifies its quantitative trait locus (QTL) effects. To this end, used bi-parental segregating population grown for 2 years at widely divergent latitudes (five European countries) combined climatic variables with genomic data (Affymetrix SNP array). Examination, using phenological models, photoperiod, temperature, global radiation indicated temperature main driver strawberry. We next characterized plasticity by three statistical approaches generated parameters including reaction norm parameters. detected 25 QTLs summarized as 10 unique QTLs. Mean values parameter were co-localized them, major 6D_M QTL whose effect strongly modulated temperature. The design validation marker offers great potential breeding programs, example selecting early-flowering varieties well adapted conditions.

Язык: Английский

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Exploration of quality variation and stability of hybrid rice under multi-environments

Molecular Breeding, Год журнала: 2024, Номер 44(1)

Опубликована: Янв. 1, 2024

Abstract Improving quality is an essential goal of rice breeding and production. However, not solely determined by genotype, but also influenced the environment. Phenotype plasticity refers to ability a given genotype produce different phenotypes under environmental conditions, which can be representation stability traits. Seven traits 141 hybrid combinations, deriving from test-crossing 7 thermosensitive genic male sterile (TGMS) 25 restorer lines, were evaluated at 5 trial sites with intermittent sowing three five in Southern China. In Yangtze River Basin, it was observed that delaying time combinations leads improvement their overall quality. Twelve parents identified have lower general combing (GCA) values increased hybrids more stable The superior tend exhibit GCA for plasticity. genome-wide association study (GWAS) 13 15 quantitative trait loci (QTLs) associated phenotype BLUP measurement, respectively. Notably, seven QTLs simultaneously affected both measurement. Two cloned genes, ALK GL7 , may involved controlling rice. direction genetic effect QTL6 ( ) on alkali spreading value (ASV) varies cropping environments. This provides novel insights into dynamic basis response regions, cultivation practices, changing climates. These findings establish foundation precise production high-quality

Язык: Английский

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Assessing the Impact of Yield Plasticity on Hybrid Performance in Maize

Physiologia Plantarum, Год журнала: 2025, Номер 177(3)

Опубликована: Май 1, 2025

ABSTRACT Improving crop resilience in the face of increasingly extreme and unpredictable weather reduced access to agricultural inputs such as nitrogen fertilizer water will require an improved understanding phenotypic plasticity crops. To understand roles different component traits determining overall for grain yield, we generated data from a panel 122 maize ( Zea mays ) hybrids grown replicated field trials 34 environments spanning 1126 km (700 miles) US Corn Belt. We observed that levels genetic versus environmental control relationships between mean parent release year, performance, linear were trait‐dependent across 18 agronomic yield components studied. Importantly unexpectedly, no clear tradeoff performance found only rare examples where genotype‐by‐environment interactions would alter selection decisions based on tested our dataset. Furthermore, showed was repeatable response fertilization not, which may help explain limited success breeding use efficiency. Together, these findings improve plasticity, with implications breeding.

Язык: Английский

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Identification of QTNs, QTN-by-environment interactions for plant height and ear height in maize multi-environment GWAS

Frontiers in Plant Science, Год журнала: 2023, Номер 14

Опубликована: Ноя. 29, 2023

Plant height (PH) and ear (EH) are important traits associated with biomass, lodging resistance, grain yield in maize. There were strong effects of genotype x environment interaction (GEI) on plant In this study, 203 maize inbred lines grown at five locations across China's Spring Summer corn belts, phenotype data collected grouped using GGE biplot. Five fell into two distinct groups (or mega environments) that coincide ecological zones called Corn Belt Belt. total, 73,174 SNPs GBS sequencing platform used as a recently released multi-environment GWAS software package IIIVmrMLM was employed to identify QTNs QTN (corn belt) (QEIs); 12 11 statistically significant QEIs for PH EH detected respectively their phenotypic further partitioned Add*E Dom*E components. 28 25 corn-belt-specific identified, respectively. The result shows there large number genetic loci underlying the GEIs is powerful tool discovering have QTN-by-Environment interaction. candidate genes annotated based transcriptomic analysis haplotype analysis. related-QEI S10_135 (Zm00001d025947, saur76, small auxin up RNA76) S4_4 (Zm00001d049692, mads32, encoding MADS-transcription factor 32), corn-belt specific including S10_4 (Zm00001d023333, sdg127, set domain gene127) S7_1 (Zm00001d018614, GLR3.4, glutamate receptor 3.4 or Zm00001d018616, DDRGK domain-containing protein) reported, relationship among GEIs, plasticity biological breeding implications discussed.

Язык: Английский

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A nested reciprocal experimental design to map the genetic architecture of transgenerational phenotypic plasticity

Horticulture Research, Год журнала: 2024, Номер 11(8)

Опубликована: Июнь 25, 2024

Abstract Extensive studies have revealed the ecological and evolutionary significance of phenotypic plasticity, but little is known about how it inherited between generations genetic architecture its transgenerational inheritance. To address these issues, we design a mapping study by growing Arabidopsis thaliana RILs in high- low-light environments further their offspring from each maternal light environment same contrasting environments. This tree-like controlled experiment provides framework for analysing regulation plasticity non-genetic We implement computational approach functional to identify specific QTLs plasticity. By estimating comparing plastic response leaf-number growth trajectories generations, find that affects whereas shaped environment. The underlying light-induced change leaf number not only changes parental also depends on generation experienced experiencing. Most are annotated genomic regions candidate genes biological functions. Our computational-experimental unique insight into dissecting mechanisms shaping plant adaptation evolution various forms.

Язык: Английский

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