Transcriptome analysis reveals the fruit color variation in Ailanthus altissima.

Anthocyanins are responsible for the intensity of color in plants; however, the systematic mechanisms underlying the color differences in the fruit of Ailanthus altissima remain unknown. Therefore, this study aims to analyze the transcriptomes of the white and red fruit of A. altissima by screening and validating the key genes involved in flavonoid and anthocyanin biosynthesis. Samples of A. altissima fruit were collected 30, 45, and 60 days after flowering, and their pigment and sugar content were determined. The anthocyanin content was significantly higher in red than in white fruits. Transcriptome analysis was also performed on the fruit samples, 73,807 unigenes were assembled and annotated to seven databases. Twenty-one co-expressed modules were identified via weighted gene co-expression network analysis, of which two were associated with flavonoids and anthocyanins. Furthermore, in three growth stages, 126, 30, and 124 differentially expressed genes were screened between white and red fruit. Genes involved in flavonoid and anthocyanin metabolism were identified. AaDFR (A. altissima bifunctional dihydroflavonol 4-reductase/flavanone 4-reductase) and AaANS (A. altissima anthocyanidin synthase) were associated with flavonoid and anthocyanin metabolism. Members of the AaDFR and AaANS families were also identified, and their basic physicochemical characteristics, conserved domains, motif compositions, phylogenetics, and expression levels were analyzed. The overexpression of AaDFR and AaANS in transgenic Arabidopsis significantly increased the content of seed and foliar flavonoids and anthocyanins. The study elucidated the different mechanisms underlying fruit color development and provided insight into A. altissima plants breeding with commercially desirable properties.

Varying Atmospheric CO2 Mediates the Cold-Induced CBF-Dependent Signaling Pathway and Freezing Tolerance in Arabidopsis.

Changes in the stomatal aperture in response to CO2 levels allow plants to manage water usage, optimize CO2 uptake and adjust to environmental stimuli. The current study reports that sub-ambient CO2 up-regulated the low temperature induction of the C-repeat Binding Factor (CBF)-dependent cold signaling pathway in Arabidopsis (Arabidopsis thaliana) and the opposite occurred in response to supra-ambient CO2. Accordingly, cold induction of various downstream cold-responsive genes was modified by CO2 treatments and expression changes were either partially or fully CBF-dependent. Changes in electrolyte leakage during freezing tests were correlated with CO2's effects on CBF expression. Cold treatments were also performed on Arabidopsis mutants with altered stomatal responses to CO2, i.e., high leaf temperature 1-2 (ht1-2, CO2 hypersensitive) and ß-carbonic anhydrase 1 and 4 (ca1ca4, CO2 insensitive). The cold-induced expression of CBF and downstream CBF target genes plus freezing tolerance of ht1-2 was consistently less than that for Col-0, suggesting that HT1 is a positive modulator of cold signaling. The ca1ca4 mutant had diminished CBF expression during cold treatment but the downstream expression of cold-responsive genes was either similar to or greater than that of Col-0. This finding suggested that ßCA1/4 modulates the expression of certain cold-responsive genes in a CBF-independent manner. Stomatal conductance measurements demonstrated that low temperatures overrode low CO2-induced stomatal opening and this process was delayed in the cold tolerant mutant, ca1ca4, compared to the cold sensitive mutant, ht1-2. The similar stomatal responses were evident from freezing tolerant line, Ox-CBF, overexpression of CBF3, compared to wild-type ecotype Ws-2. Together, these results indicate that CO2 signaling in stomata and CBF-mediated cold signaling work coordinately in Arabidopsis to manage abiotic stress.

Sustaining yield and nutritional quality of peanuts in harsh environments: Physiological and molecular basis of drought and heat stress tolerance.

Climate change is significantly impacting agricultural production worldwide. Peanuts provide food and nutritional security to millions of people across the globe because of its high nutritive values. Drought and heat stress alone or in combination cause substantial yield losses to peanut production. The stress, in addition, adversely impact nutritional quality. Peanuts exposed to drought stress at reproductive stage are prone to aflatoxin contamination, which imposes a restriction on use of peanuts as health food and also adversely impact peanut trade. A comprehensive understanding of the impact of drought and heat stress at physiological and molecular levels may accelerate the development of stress tolerant productive peanut cultivars adapted to a given production system. Significant progress has been achieved towards the characterization of germplasm for drought and heat stress tolerance, unlocking the physiological and molecular basis of stress tolerance, identifying significant marker-trait associations as well major QTLs and candidate genes associated with drought tolerance, which after validation may be deployed to initiate marker-assisted breeding for abiotic stress adaptation in peanut. The proof of concept about the use of transgenic technology to add value to peanuts has been demonstrated. Advances in phenomics and artificial intelligence to accelerate the timely and cost-effective collection of phenotyping data in large germplasm/breeding populations have also been discussed. Greater focus is needed to accelerate research on heat stress tolerance in peanut. A suits of technological innovations are now available in the breeders toolbox to enhance productivity and nutritional quality of peanuts in harsh environments. A holistic breeding approach that considers drought and heat-tolerant traits to simultaneously address both stresses could be a successful strategy to produce climate-resilient peanut genotypes with improved nutritional quality.

Drought-Induced Responses in Maize under Different Vapor Pressure Deficit Conditions.

Water stress in plants depends on the soil water level and the evaporative demand. In this study, the physiological, biochemical, and molecular response of maize were examined under three evaporative demand conditions (low­1.00 kPa, medium­2.2 kPa, and high­4.00 kPa Vapor pressure deficit (VPD)) at three different soil water content (SWC); well-watered, 45%, and 35% SWC. Plants grown at 35% SWC under high VPD had significant (p < 0.01) lower leaf weight, leaf area, and leaf number than low VPD. Plants under low, medium, and high VPD with drought stress (45% and 35% SWC) showed a 30 to 60% reduction in their leaf area compared to well-watered plants. Gas exchange parameters including photosynthesis, stomatal conductance, and water use efficiency exhibited significant differences (p < 0.01) between treatments, with the highest reduction occuring at 35% SWC and high VPD. Both drought and VPD significantly (p < 0.01) increased C4 enzyme levels and some transcription factors with increased stress levels. Transcription factors primarily related to Abssisic Acid (ABA) synthesis were upregulated under drought, which might be related to high ABA levels. In summary, severe drought levels coupled with high VPD had shown a significant decrease in plant development by modifying enzymes, ABA, and transcription factors.

The New Cranberry Wisconsin Research Station: Renovation Priorities of a 'Stevens' Cranberry Marsh Based on Visual Mapping, Genetic Testing, and Yield Data.

Cultivar contamination is a common issue in commercial cranberry production. Unknown or unwanted cranberry genotypes are found in commercial cranberry beds that are intended to be a single uniform genotype. Identification of contamination and the impacts of contamination remain crucial issues to the cranberry industry to maintain long-term high productivity. To address this issue, tissue samples were taken from the former commercial beds of the new Wisconsin Cranberry Research Station (WCRS) for genetic fingerprinting analysis. The goals of this collection were to analyze the ten beds for genetic uniformity to determine if any should be maintained or replaced, and to assess the accuracy of visual perception of genetic contamination in the field. A total of 288 DNA samples were collected in the ten cranberry beds, and the 'Stevens' cultivar represented 180 samples, or 69% of the 261 samples expected to be 'Stevens'. Therefore, genotype contamination in the 'Stevens' beds was 31% overall. Overall, visual differentiation was accurate in distinguishing between genotypes and detecting large areas of contamination. A yield analysis was conducted along with the genotypic uniformity assessments, and a significant correlation was found between the 2017 yield of the beds and their level of genetic contamination. This study demonstrates the usefulness of genetic uniformity testing and mapping for cranberry bed management and renovation decision-making.

Impact of water stress under ambient and elevated carbon dioxide across three temperature regimes on soybean canopy gas exchange and productivity.

The present study investigated the interactive effects of three environmental stress factors elevated CO2, temperature, and drought stress on soybean growth and yield. Experiments were conducted in the sunlit, controlled environment Soil-Plant-Atmosphere-Research chambers under two-level of irrigation (WW-well water and WS-water stress-35%WW) and CO2 (aCO2-ambient 400 µmol mol-1 and eCO2-elevated 800 µmol mol-1) and each at the three day/night temperature regimes of 24/18 °C (MLT-moderately low), 28/22 °C (OT-optimum), and 32/26 °C (MHT-moderately high). Results showed the greatest negative impact of WS on plant traits such as canopy photosynthesis (PCnet), total dry weight (TDwt), and seed yield. The decreases in these traits under WS ranged between 40 and 70% averaged across temperature regimes with a greater detrimental impact in plants grown under aCO2 than eCO2. The MHT had an increased PCnet, TDwt, and seed yield primarily under eCO2, with a greater increase under WW than WS conditions. The eCO2 stimulated PCnet, TDwt, and seed yield more under WS than WW. For instance, on average across T regimes, eCO2 stimulated around 25% and 90% dry mass under WW and WS, respectively, relative to aCO2. Overall, eCO2 appears to benefit soybean productivity, at least partially, under WS and the moderately warmer temperature of this study.

Cloning and Characterization of Three Sugar Metabolism Genes (LBGAE, LBGALA, and LBMS) Regulated in Response to Elevated CO2 in Goji Berry (Lycium barbarum L.).

The composition and content of sugar play a pivotal role in goji berry (Lycium barbarum L.) fruits, determining fruit quality. Long-term exposure of goji berry to elevated CO2 (eCO2) was frequently demonstrated to reduce sugar content and secondary metabolites. In order to understand the regulatory mechanisms and improve the quality of fruit in the changing climate, it is essential to characterize sugar metabolism genes that respond to eCO2. The objectives of this study were to clone full-length cDNA of three sugar metabolism genes-LBGAE (Lycium barbarum UDP-glucuronate 4-epimerase), LBGALA (Lycium barbarum alpha-galactosidase), and LBMS (Lycium barbarum malate synthase)-that were previously identified responding to eCO2, and to analyze sequence characteristics and expression regulation patterns. Sugar metabolism enzymes regulated by these genes were also estimated along with various carbohydrates from goji berry fruits grown under ambient (400 µmol mol-1) and elevated (700 µmol mol-1) CO2 for 90 and 120 days. Homology-based sequence analysis revealed that the protein-contained functional domains are similar to sugar transport regulation and had a high sequence homology with other Solanaceae species. The sucrose metabolism-related enzyme's activity varied significantly from ambient to eCO2 in 90-day and 120-day samples along with sugars. This study provides fundamental information on sugar metabolism genes to eCO2 in goji berry to enhance fruit quality to climate change.

Stomatal closure response to soil drying at different vapor pressure deficit conditions in maize.

A plant transpiration rate under progressive soil drying remains constant until a threshold fraction of transpirable soil water (FTSW) is reached, and subsequently decreases linearly. The sensitivity of this function and the involvement of abscisic acid (ABA) and aquaporins in such responses have not been compared at various levels of atmospheric evaporative demand conditions. This study was conducted in controlled environment chambers with a drought-tolerant maize hybrid imposing progressive drought stress under three levels of vapor pressure deficit (VPD- 1.2, 2.3, and 3.5 kPa). A shift in threshold-FTSW from 1.2 kPa (FTSW-0.42) VPD to 3.5 kPa(FTSW-0.51) VPD was observed, showing an effect of VPD on stomatal closure response under soil drought conditions. Foliar ABA showed a substantial rise approximately at the same time as of stomatal closure initiated (FTSW-threshold), indicating ABA involvement. As the drought progressed, an increase in plasma membrane intrinsic protein and a decrease in tonoplast intrinsic protein expression levels were observed. Overall, this study suggests the influence of evaporative demand on the initiation of stomatal closure of drought-tolerant maize subjected to soil drying. The sensitivity of stomatal closure was associated with foliar ABA under drought stress but not under high evaporative demand conditions, indicating alternative water conservative mechanisms.

De novo characterization of the Goji berry (Lycium barbarium L.) fruit transcriptome and analysis of candidate genes involved in sugar metabolism under different CO2 concentrations.

Goji berry (Lycium barbarum L.) is one of the important economic crops due to its exceptional nutritional value and medicinal benefits. Although reduced sugar levels in goji berry exposed to long-term elevated carbon dioxide (CO2) have been documented, the underlying molecular mechanisms remain unknown. The objective of this study was to explore the transcriptome of goji berry fruit under ambient and elevated CO2 concentrations and further to screen the differentially expressed genes (DEGs) for functions related to sugar metabolism. Fruit samples from goji berry exposed to ambient (400 µmol mol-1) and elevated (700 µmol mol-1) levels of CO2 for 120 days were analyzed for total sugar, carotenoid and flavone analysis. In this study, a reduction in total sugar and carotenoid levels in the fruits grown under elevated CO2 levels were observed. Fruit samples were also used to construct cDNA libraries using a HiSeqTM2500 platform. Consequently, 81,100 unigenes were assembled, of which 35,111 (43.3%) were annotated using various databases. Through DEGs analysis, it was found that 55 genes were upregulated and 18 were down-regulated in response to elevated CO2 treatment. Genes involved in the sugar metabolism and the related pathways were identified by Gene Ontology and Kyoto encyclopedia of genes and genomes (KEGG) pathway enrichment analysis. Furthermore, three genes, LBGAE (Lycium barbarum UDP-glucuronate 4-epimerase), LBGALA (Lycium barbarum alpha-galactosidase) and LBMS (Lycium barbarum malate synthase), associated with sugar metabolism were identified and discussed with respect to the reduction in the total sugar levels along with the enzymes acid invertase (AI), sucrose synthase (SS) and sucrose phosphate synthase (SPS) of the sucrose metabolism. This study can provide gene sources for elucidating the molecular mechanisms of sugar metabolism in the fruit of goji berry under elevated CO2.

Transpiration Response of Cotton to Vapor Pressure Deficit and Its Relationship With Stomatal Traits.

Many studies have demonstrated that the cotton in warm environments is vulnerable to water-limitations thus reducing the yield. A number of plant traits have been recommended to ameliorate the effects of water deficits on plant growth and yield. Limitation on maximum transpiration rate (TR) under high vapor pressure deficit (VPD), usually occurs during midday, is often considered as a water conservation trait. The genotypes with this trait are desirable in high VPD environments where water deficits commonly develop in the later part of the growing season. Our objective of the study was to find the genotypic variation for the trait limited TR under high VPD and also to study leaf temperature, water potential, photosynthesis, and stomatal conductance responses. Also, our objective was also to study the structural changes in the stomatal traits when exposed to long term high VPD conditions and involvement in such responses. In the present study, 17 cotton genotypes were studied for their (TR) response to various VPD environments under well irrigated conditions. Out of 17, eight genotypes limited TR after approximately 2 kPa VPD and rest of them increased their TR with increased VPD. Five selected genotypes with different TR response to increasing VPD were further studied for gas exchange and stomatal properties. All genotypes, irrespective of exhibiting limited TR at high VPD, reduced stomatal conductance, photosynthesis and water potential at high VPD of 3.3 kPa. The genotypes with limited TR modified their stomatal traits mostly on the adaxial surface with frequent and small stomata under high VPD. The genotypes with limited TR also exhibited an increase in epidermal cell expansion and stomatal index at contrasting VPD gradients to effectively balance the liquid and vapor phase conductance to limit TR at high VPD.

Comparisons of the Effects of Elevated Vapor Pressure Deficit on Gene Expression in Leaves among Two Fast-Wilting and a Slow-Wilting Soybean.

Limiting the transpiration rate (TR) of a plant under high vapor pressure deficit (VPD) has the potential to improve crop yield under drought conditions. The effects of elevated VPD on the expression of genes in the leaves of three soybean accessions, Plant Introduction (PI) 416937, PI 471938 and Hutcheson (PI 518664) were investigated because these accessions have contrasting responses to VPD changes. Hutcheson, a fast-wilting soybean, and PI 471938, a slow-wilting soybean, respond to increased VPD with a linear increase in TR. TR of the slow-wilting PI 416937 is limited when VPD increases to greater than about 2 kPa. The objective of this study was to identify the response of the transcriptome of these accessions to elevated VPD under well-watered conditions and identify responses that are unique to the slow-wilting accessions. Gene expression analysis in leaves of genotypes PI 471938 and Hutcheson showed that 22 and 1 genes, respectively, were differentially expressed under high VPD. In contrast, there were 944 genes differentially expressed in PI 416937 with the same increase in VPD. The increased alteration of the transcriptome of PI 416937 in response to elevated VPD clearly distinguished it from the other slow-wilting PI 471938 and the fast-wilting Hutcheson. The inventory and analysis of differentially expressed genes in PI 416937 in response to VPD is a foundation for further investigation to extend the current understanding of plant hydraulic conductivity in drought environments.