Alterations in the leaf lipidome of Brassica carinata under high-temperature stress

Heat shock responsive genes in Brassicaceae: genome-wide identification, phylogeny, and evolutionary associations within and between genera

Heat stress affects the growth and development of Brassicaceae crops. Plant breeders aim to mitigate the effects of heat stress by selecting for heat stress tolerance, but the genes responsible for heat stress in Brassicaceae remain largely unknown. During heat stress, heat shock proteins (HSPs) function as molecular chaperones to aid in protein folding, and heat shock transcription factors (HSFs) serve as transcriptional regulators of HSP expression. We identified 5002 heat shock related genes, including HSPs and HSFs, across 32 genomes in Brassicaceae. Among these, 3347 genes were duplicated, with segmented duplication primarily contributing to their expansion. We identified 466 physical gene clusters, including 240 homogenous clusters and 226 heterogeneous clusters, shedding light on the organization of heat shock related genes. Notably, 37 genes were co-located with published thermotolerance quantitative trait loci, which supports their functional role in conferring heat stress tolerance. This study provides a comprehensive resource for the identification of functional Brassicaceae heat shock related genes, elucidates their clustering and duplication patterns and establishes the genomic foundation for future heat tolerance research. We hypothesise that genetic variants in HSP and HSF genes in certain species have potential for improving heat stress tolerance in Brassicaceae crops.

Understory Environmental Conditions Drive Leaf Level-Lipid Biosynthesis in a Deciduous and Evergreen Tree Species

Plants in the understory experience climatic conditions affected by the overstory canopy that influence physiological and biochemical processes. Here, we investigate the relationships of leaf lipid molecular abundances to leaf water content, transmitted irradiance, and free-air temperature (Tair) from deciduous angiosperm (Quercus buckleyi) and evergreen gymnosperm (Juniperus ashei) understory trees across an elevation gradient in a central Texas (USA) woodland. Monthly sampling from 04/2019 to 01/2020 revealed that long-chain leaf waxes (≥ C27) accumulated with leaf water deficit over the growing season for both tree species. Higher transmitted light during the hottest, driest months was due to a decreased leaf area index (LAI) in the canopy as leaf shedding is a common drought response. Isoprenoids (sesqui-, di-terpenoids, phytosterols) in leaves changed by month with changing LAI and transmittance associated with monthly Tair changes. The chain length of n-alkanols in Q. buckleyi shifted with seasonal LAI at different topographic positions. The unsaturation of fatty acids in both tree species decreased with increased seasonal Tair but showed topography sensitivity. Leaf-level metabolites responded to understory microclimatic variables that were influenced by seasonality and topography.

Creating Climate-Resilient Crops by Increasing Drought, Heat, and Salt Tolerance

Over the years, the changes in the agriculture industry have been inevitable, considering the need to feed the growing population. As the world population continues to grow, food security has become challenged. Resources such as arable land and freshwater have become scarce due to quick urbanization in developing countries and anthropologic activities; expanding agricultural production areas is not an option. Environmental and climatic factors such as drought, heat, and salt stresses pose serious threats to food production worldwide. Therefore, the need to utilize the remaining arable land and water effectively and efficiently and to maximize the yield to support the increasing food demand has become crucial. It is essential to develop climate-resilient crops that will outperform traditional crops under any abiotic stress conditions such as heat, drought, and salt, as well as these stresses in any combinations. This review provides a glimpse of how plant breeding in agriculture has evolved to overcome the harsh environmental conditions and what the future would be like.

Transcriptome and coexpression network analysis reveals properties and candidate genes associated with grape (Vitis vinifera L.) heat tolerance

Temperature is one of the most important environmental factors affecting grape season growth and geographical distribution. With global warming and the increasing occurrence of extreme high-temperature weather, the impact of high temperatures on grape production has intensified. Therefore, identifying the molecular regulatory networks and key genes involved in grape heat tolerance is crucial for improving the resistance of grapes and promoting sustainable development in grape production. In this study, we observed the phenotypes and cellular structures of four grape varieties, namely, Thompson Seedless (TS), Brilliant Seedless (BS), Jumeigui (JMG), and Shine Muscat (SM), in the naturally high-temperature environment of Turpan. Heat tolerance evaluations were conducted. RNA-seq was performed on 36 samples of the four varieties under three temperature conditions (28°C, 35°C, and 42°C). Through differential expression analysis revealed the fewest differentially expressed genes (DEGs) between the heat-tolerant materials BS and JMG, and the DEGs common to 1890 were identified among the four varieties. The number of differentially expressed genes within the materials was similar, with a total of 3767 common DEGs identified among the four varieties. KEGG enrichment analysis revealed that fatty acid metabolism, starch and sucrose metabolism, plant hormone signal transduction, the MAPK signaling pathway, and plant-pathogen interactions were enriched in both between different temperatures of the same material, and between different materials of the same temperature. We also conducted statistical and expression pattern analyses of differentially expressed transcription factors. Based on Weighted correlation network analysis (WGCNA), four specific modules highly correlated with grape heat tolerance were identified by constructing coexpression networks. By calculating the connectivity of genes within the modules and expression analysis, six candidate genes (VIT_04s0044g01430, VIT_17s0000g09190, VIT_01s0011g01350, VIT_01s0011g03330, VIT_04s0008g05610, and VIT_16s0022g00540) related to heat tolerance were discovered. These findings provide a theoretical foundation for further understanding the molecular mechanisms of grape heat tolerance and offer new gene resources for studying heat tolerance in grapes.

The final piece of the Triangle of U: Evolution of the tetraploid Brassica carinata genome

Ethiopian mustard (Brassica carinata) is an ancient crop with remarkable stress resilience and a desirable seed fatty acid profile for biofuel uses. Brassica carinata is one of six Brassica species that share three major genomes from three diploid species (AA, BB, and CC) that spontaneously hybridized in a pairwise manner to form three allotetraploid species (AABB, AACC, and BBCC). Of the genomes of these species, that of B. carinata is the least understood. Here, we report a chromosome scale 1.31-Gbp genome assembly with 156.9-fold sequencing coverage for B. carinata, completing the reference genomes comprising the classic Triangle of U, a classical theory of the evolutionary relationships among these six species. Our assembly provides insights into the hybridization event that led to the current B. carinata genome and the genomic features that gave rise to the superior agronomic traits of B. carinata. Notably, we identified an expansion of transcription factor networks and agronomically important gene families. Completion of the Triangle of U comparative genomics platform has allowed us to examine the dynamics of polyploid evolution and the role of subgenome dominance in the domestication and continuing agronomic improvement of B. carinata and other Brassica species.

Lipidomics-Assisted GWAS (lGWAS) Approach for Improving High-Temperature Stress Tolerance of Crops

High-temperature stress (HT) over crop productivity is an important environmental factor demanding more attention as recent global warming trends are alarming and pose a potential threat to crop production. According to the Sixth IPCC report, future years will have longer warm seasons and frequent heat waves. Thus, the need arises to develop HT-tolerant genotypes that can be used to breed high-yielding crops. Several physiological, biochemical, and molecular alterations are orchestrated in providing HT tolerance to a genotype. One mechanism to counter HT is overcoming high-temperature-induced membrane superfluidity and structural disorganizations. Several HT lipidomic studies on different genotypes have indicated the potential involvement of membrane lipid remodelling in providing HT tolerance. Advances in high-throughput analytical techniques such as tandem mass spectrometry have paved the way for large-scale identification and quantification of the enormously diverse lipid molecules in a single run. Physiological trait-based breeding has been employed so far to identify and select HT tolerant genotypes but has several disadvantages, such as the genotype-phenotype gap affecting the efficiency of identifying the underlying genetic association. Tolerant genotypes maintain a high photosynthetic rate, stable membranes, and membrane-associated mechanisms. In this context, studying the HT-induced membrane lipid remodelling, resultant of several up-/down-regulations of genes and post-translational modifications, will aid in identifying potential lipid biomarkers for HT tolerance/susceptibility. The identified lipid biomarkers (LIPIDOTYPE) can thus be considered an intermediate phenotype, bridging the gap between genotype–phenotype (genotype–LIPIDOTYPE–phenotype). Recent works integrating metabolomics with quantitative genetic studies such as GWAS (mGWAS) have provided close associations between genotype, metabolites, and stress-tolerant phenotypes. This review has been sculpted to provide a potential workflow that combines MS-based lipidomics and the robust GWAS (lipidomics assisted GWAS-lGWAS) to identify membrane lipid remodelling related genes and associations which can be used to develop HS tolerant genotypes with enhanced membrane thermostability (MTS) and heat stable photosynthesis (HP).

Low- and High-Temperature Phenotypic Diversity of Brassica carinata Genotypes for Early-Season Growth and Development

Temperature is a major abiotic stress factor limiting plant growth and development during the early developmental stage. Information on carinata (Brassica carinata A. Braun) traits response to low and high temperatures is necessary for breeding or selecting genotypes suited for specific ecoregions, which is limited. In the present study, 12 carinata genotypes were evaluated under low (17/09°C), optimum (22/14°C), and high (27/19°C) day/night temperatures at the early developmental stage. This study quantified temperature effects on several physiological and morphological characteristics of 12-advanced carinata lines. High-temperature plants decreased (15%) the accumulation of flavonoids and increased the nitrogen balance index by 25%. Low-temperature treatment significantly inhibited the aboveground (plant height, leaf area, number, and shoot weight) and root (length, surface area, and weight) traits. Across all genotypes, the shoot weight decreased by 55% and the root weight by 49% under low temperature. On the other hand, the maximum proportion of biomass was partitioned to roots under low temperature than at the high temperature. A poor relationship (r ² = 0.09) was found between low- and high-temperature indices, indicating differences in trait responses and tolerance mechanisms. AX17004 and AX17009 with higher root to shoot ratios might be suitable for late planting windows or regions with low-temperature spells. The two genotypes (AX17015 and AX17005) accumulated higher biomass under low- and high-temperature treatments can be used for planting in later summer or early winter. The identified low- and high-temperature stress-tolerant carinata genotypes could be a valuable resource for increasing stress tolerance during the early developmental stage.

High Temperature Alters Leaf Lipid Membrane Composition Associated with Photochemistry of PSII and Membrane Thermostability in Rice Seedlings

Rice cultivated in the tropics is exposed to high temperature (HT) stress which threatens its growth and survival. This study aimed at characterizing the HT response in terms of PSII efficiency and membrane stability, and to identify leaf fatty acid changes that may be associated with HT tolerance or sensitivity of rice genotypes. Twenty-eight-day-old seedlings of two Thai rice cultivars (CN1 and KDML105), a standard heat tolerance (N22), and a heat sensitive (IR64) rice genotype were treated at 42 °C for 7 days. Under HT, N22 showed the highest heat tolerance displaying the lowest increase in electrolyte leakage (EL), no increments in malondialdehyde (MDA) and stable maximum quantum yield of PSII efficiency (F_v/F_m). Compared to KDML105 and IR64, CN1 was more tolerant of HT, showing a lower increase in EL and MDA, and less reduction in F_v/F_m. N22 and CN1 showed a higher percentage reduction of unsaturated fatty acids (C18:2 and C18:3), which are the major components of the thylakoid membrane, rendering the optimum thylakoid membrane fluidity and intactness of PSII complex. Moreover, they exhibited sharp increases in long-chain fatty acids, particularly C22:1, while the heat sensitive IR64 and KDML105 showed significant reductions. Dramatic increases in long-chain fatty acids may lead to cuticular wax synthesis which provides protective roles for heat tolerance. Thus, the reduction in unsaturated fatty acid composition of the thylakoid membrane and dramatic increases in long-chain fatty acids may lead to high photosynthetic performance and an enhanced synthesis of cuticular wax which further provided additional protective roles for heat tolerance ability in rice.

Membrane-Fluidization-Dependent and -Independent Pathways Are Involved in Heat-Stress-Inducible Gene Expression in the Marine Red Alga Neopyropia yezoensis

Heat stress responses are complex regulatory processes, including sensing, signal transduction, and gene expression. However, the exact mechanisms of these processes in seaweeds are not well known. We explored the relationship between membrane physical states and gene expression in the red alga Neopyropia yezoensis. To analyze heat-stress-induced gene expression, we identified two homologs of the heat-inducible high temperature response 2 (HTR2) gene in Neopyropia seriata, named NyHTR2 and NyHTR2L. We found conservation of HTR2 homologs only within the order Bangiales; their products contained a novel conserved cysteine repeat which we designated the Bangiales cysteine-rich motif. A quantitative mRNA analysis showed that expression of NyHTR2 and NyHTR2L was induced by heat stress. However, the membrane fluidizer benzyl alcohol (BA) did not induce expression of these genes, indicating that the effect of heat was not due to membrane fluidization. In contrast, expression of genes encoding multiprotein-bridging factor 1 (NyMBF1) and HSP70s (NyHSP70-1 and NyHSP70-2) was induced by heat stress and by BA, indicating that it involved a membrane-fluidization-dependent pathway. In addition, dark treatment under heat stress promoted expression of NyHTR2, NyHTR2L, NyMBF1, and NyHSP70-2, but not NyHSP70-1; expression of NyHTR2 and NyHTR2L was membrane-fluidization-independent, and that of other genes was membrane-fluidization-dependent. These findings indicate that the heat stress response in N. yezoensis involves membrane-fluidization-dependent and -independent pathways.