AusTraits, a curated plant trait database for the Australian flora

We introduce the AusTraits database - a compilation of values of plant traits for taxa in the Australian flora (hereafter AusTraits). AusTraits synthesises data on 448 traits across 28,640 taxa from field campaigns, published literature, taxonomic monographs, and individual taxon descriptions. Traits vary in scope from physiological measures of performance (e.g. photosynthetic gas exchange, water-use efficiency) to morphological attributes (e.g. leaf area, seed mass, plant height) which link to aspects of ecological variation. AusTraits contains curated and harmonised individual- and species-level measurements coupled to, where available, contextual information on site properties and experimental conditions. This article provides information on version 3.0.2 of AusTraits which contains data for 997,808 trait-by-taxon combinations. We envision AusTraits as an ongoing collaborative initiative for easily archiving and sharing trait data, which also provides a template for other national or regional initiatives globally to fill persistent gaps in trait knowledge.

Effects of Light Spectral Quality on the Micropropagated Raspberry Plants during Ex Vitro Adaptation

This work focuses on developing light environments for the effective regulation of morphogenesis and ex vitro conditions adaptation in micropropagated raspberry plants on the basis of photomorphogenetic control of physiological processes using light-emitting diodes (LEDs). In experiments with cloned plants growing ex vitro in stressful conditions during acclimation, the effects of optical radiation of various spectral combinations from different photosynthetically active radiation (PAR) spectral regions were studied. The data on the plant development and state of the photosynthetic apparatus, features of photosynthetic gas exchange and transpiration, accumulation of photosynthetic pigments, light curves of photosynthesis, and data on growth processes in light modes using combined quasimonochromatic radiation (either mixture of red, green, and blue light or red, far-red, and blue light) with various ratio of the distinct spectral regions were obtained. Photosynthetic apparatus functional activity under different light conditions was studied with chlorophyll fluorescence determination, and plant stress responses to growing under artificial spectral light conditions were characterized. The experiments were accompanied by detailed plant phenotyping at the structural and functional levels. Plant acclimation and photosynthetic improvements in response to added far-red and green light wavelengths to the main red-blue spectrum have been elucidated.

Comparative transcriptome profiling provides insights into different photosynthetic responses in two tall fescue cultivars under low-light stress

Background Tall fescue (Festuca arundinacea Schreb) is a primary cool-season forage and turfgrass, low-light (LL) stress is a primary limiting factor for turfgrass growth. Studies on two tall fescue cultivars, Arid 3 and Airlie, showed that Airlie is more susceptible to LL stress than Arid 3. However, the underlying susceptibility mechanism is obscure. Results In this study, we investigated the physiological and transcriptional changes of two tall fescue cultivars under LL stress. The two cultivars differed in growth characteristics, chlorophyll contents, photosynthetic gas exchange, and chlorophyll fluorescence. A total of 136925 unigenes were obtained from our RNA-sequencing. There were 24944 and 30816 differentially expressed genes (DEGs) between LL stress and the control in Arid 3 and Airlie, respectively. Meanwhile, there were 20599 DEGs detected between Arid 3 and Airlie under the control, and under LL stress the DEGs between two cultivars were 20783. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis suggested that the DEGs are mainly involved in ‘cell prat’ and ‘glutathione metabolism’. These results indicated that LL stress affects the expression of phytochrome-interacting factor 5 (PIF5), constitutively photomorphogenic 1 (COP1), phytochrome A (PhyA), and phytochrome B (PhyB) in tall fescue, which are vital transcription factors. Genes related to chlorophyll metabolism and photosynthesis were also affected by LL stress, and were significantly differentially expressed between the two cultivars. Conclusions This study reveals two tall fescue cultivars develop different physiological and transcriptional changes to cope with LL stress, and provides an insight into different photosynthetic responses in two tall fescue cultivars responds to LL stress.

Leaf scale quantification of the effect of photosynthetic gas exchange on Δ47 of CO2

The clumped isotope composition (Δ47, the anomaly of the mass 47 isotopologue relative to the abundance expected from a random isotope distribution) of CO2 has been suggested as an additional tracer for gross CO2 fluxes. However, the effect of photosynthetic gas exchange on Δ47 has not been directly determined and two indirect/conceptual studies reported contradicting results. In this study, we quantify the effect of photosynthetic gas exchange on Δ47 of CO2 using leaf cuvette experiments with one C4 and two C3 plants. The experimental results are supported by calculations with a leaf cuvette model. Our results demonstrate the important roles of the Δ47 value of CO2 entering the leaf, kinetic fractionation as CO2 diffuses into, and out of the leaf and CO2–H2O isotope exchange with leaf water. We experimentally confirm the previously suggested dependence of Δ47 of CO2 in the air surrounding a leaf on the stomatal conductance and back-diffusion flux. Gas exchange can enrich or deplete the Δ47 of CO2 depending on the Δ47 of CO2 entering the leaf and the fraction of CO2 exchanged with leaf water and diffused back to the atmosphere, but under typical ambient conditions, it will lead to a decrease in Δ47.

Comparison of Transcriptional Response of C3 and C4 Plants to Drought Stress Using Meta-Analysis and Systems Biology Approach

Drought stress affects a range of plant processes. It is still not well-known how C3 and C4 plants respond to drought. Here, we used a combination of meta-analysis and network analysis to compare the transcriptional responses of Oryza sativa (rice), a C3 plant, and Zea mays (maize), a C4 plant, to drought stress. The findings showed that drought stress changes the expression of genes and affects different mechanisms in the C3 and C4 plants. We identified several genes that were differentially expressed genes (DEGs) under stress conditions in both species, most of which are associated with photosynthesis, molecule metabolic process, and response to stress. Additionally, we observed that many DEGs physically located within the quantitative trait locus regions are associated with C isotope signature (d13C), photosynthetic gas exchange, and root characteristics traits. Through the gene co-expression and differential co-expression network methods, we identified sets of genes with similar and different behaviors among C3 and C4 plants during drought stress. This result indicates that mitogen-activated protein kinases (MAPK) signaling pathway plays an important part in the differences between the C3 and C4 species. The present study provides a better understanding of the mechanisms underlying the response of C3 and C4 plants to drought stress, which may useful for engineering drought tolerance in plants.

Sulfate-Based Fertilizers Regulate Nutrient Uptake, Photosynthetic Gas Exchange, and Enzymatic Antioxidants to Increase Sunflower Growth and Yield Under Drought Stress

The challenging impact of drought to agricultural productivity requires the adoption of mitigation strategies with a better understanding of underlying mechanisms responsible for drought tolerance. The present study aimed at investigating the effects of sulfur-based fertilizers on mitigation of drought stress in sunflower. Sulfate-containing fertilizers, viz., ammonium sulfate, zinc sulfate, magnesium sulfate, potassium sulfate, and gypsum, were initially evaluated at two different rates (10 and 20 mg kg−1 soil equivalent to 20 and 40 kg ha−1, respectively) for nutrient uptake and growth-promoting traits in sunflower seedlings (cv. Hysun-33). The best performing fertilizer (gypsum) was then selected to evaluate the response of sunflower under drought stress imposed at flowering stage for three weeks (25–30% water holding capacity). Results indicated significant amelioration of drought stress with higher activity of photosynthetic apparatus, upregulation of antioxidative enzymes, and increased achene yield by gypsum application. In comparison to control, gypsum-treated plants (20 mg kg−1 soil) exhibited higher water status (32%), leaf photosynthetic rate (29%), transpiration rate (67%), and stomatal conductance (118%) under drought stress. The antioxidant enzyme activities of catalase, guaiacol peroxidase, and superoxide dismutase were also increased by 67%, 62%, and 126%, respectively, resulting in higher achene yield (19%) under water-deficit conditions. This study indicates that the application of sulfur-based fertilizers (gypsum) can be used to induce drought tolerance and obtain high sunflower yields under drought stress, and furthermore, it is a cost-effective strategy resulting in high benefit–cost ratio with respect to no gypsum application.

Physiological response and transcriptome analysis of Prunus mume to early salt stress

Soil salinisation is an important factor limiting the cultivation and distribution of Prunus mume. Therefore, identifying the regulation mechanism of salt tolerance of P. mume will promote its cultivation and molecular breeding. In this study, the garden tree species P. mume ‘Meiren’ was investigated, with a soil NaCl content (w/w) of 0.3%. Photosynthetic gas exchange parameters, relative electrical conductivity, malondialdehyde, osmoregulation substances, and antioxidant enzyme activity were measured in the early (3d), middle (10d), and late (30d) stages of stress. Salt treatment was applied for 0 h, 6 h, 24 h, and 72 h; following this, the gene library was constructed from the leaves. The results showed that the CBL-CIPK, mitogen-activated protein kinase, calcium-dependent protein kinase, and abscisic acid signalling pathways were involved in salt stress signal transduction of P. mume. Furthermore, bHLH, WRPK, ERF, and MYB were identified as potential key transcription factor families of salt tolerance in P. mume. Combined with determined physiological responses, the results showed that early salt stress inhibited the activities of RuBisCO, chlorophyll synthase, glutamyl tRNA reductase, divinyl reductase, and magnesium chelatase; resultantly, this led to a reduction in the photosynthetic rate. Also, it was found that P5CS, SS, LEA, and dehydrin regulated the synthesis of proline, soluble sugar, and macromolecular protein to alleviate osmotic stress. POD gene plays an important role in scavenging reactive oxygen species due to its regulation of POD activity. The findings of this research reveal the internal mechanism of the physiological response and provide a foundation for the construction of a genetic regulatory network in response to salt stress in P. mume.

Effects of cadmium stress on growth and physiological characteristics of sassafras seedlings

The effects of cadmium stress on the growth and physiological characteristics of Sassafras tzumu Hemsl. were studied in pot experiments. Five Cd levels were tested [CT(Control Treatment) : 0 mg/kg, Cd5: 5 mg/kg, Cd20: 20 mg/kg, Cd50: 50 mg/kg, and Cd100: 100 mg/kg]. The growth and physiological characteristics of the sassafras seedlings in each level were measured. The results showed that soil Cd had negative influences on sassafras growth and reduced the net growth of plant height and the biomass of leaf, branch and root. Significant reductions were recorded in root biomass by 18.18%(Cd5), 27.35%(Cd20), 27.57%(Cd50) and 28.95%(Cd100). The contents of hydrogen peroxide decreased first then increased while malondialdehyde showed the opposite trend with increasing cadmium concentration. Decreases were found in hydrogen peroxide contents by 10.96%(Cd5), 11.82%(Cd20) and 7.02%(Cd50); increases were found in malondialdehyde contents by 15.47%(Cd5), 16.07%(Cd20) and 7.85%(Cd50), indicating that cadmium stress had a certain effect on the peroxidation of the inner cell membranes in the seedlings that resulted in damage to the cell membrane structure. Superoxide dismutase activity decreased among treatments by 17.05%(Cd5), 10,68%(Cd20), 20.85%(Cd50) and 8.91%(Cd100), while peroxidase activity increased steadily with increasing cadmium concentration; these results suggest that peroxidase is likely the main protective enzyme involved in the reactive oxygen removal system in sassafras seedlings. Upward trends were observed in proline content by 90.76%(Cd5), 74.36%(Cd20), 99.73%(Cd50) and 126.01%(Cd100). The increase in proline content with increasing cadmium concentration indicated that cadmium stress induced proline synthesis to resist osmotic stress in the seedlings. Compared to that in CT, the soluble sugar content declined under the different treatments by 32.84%(Cd5), 5.85%(Cd20), 25.55%(Cd50) and 38.69%(Cd100). Increases were observed in the soluble protein content by 2.34%(Cd5), 21.36%(Cd20), 53.15%(Cd50) and 24.22%(Cd100). At different levels of cadmium stress, the chlorophyll content in the seedlings first increased and then decreased, and it was higher in the Cd5 and Cd20 treatments than that in the CT treatment. These results reflected that cadmium had photosynthesis-promoting effects at low concentrations and photosynthesis-suppressing effects at high concentrations. The photosynthetic gas exchange parameters and photosynthetic light-response parameters showed downward trends with increasing cadmium concentration compared with those in CT; these results reflected the negative effects of cadmium stress on photosynthesis in sassafras seedlings.

Phenotyping stomatal closure by thermal imaging for GWAS and TWAS of water use efficiency-related genes

Stomata allow CO2 uptake by leaves for photosynthetic assimilation at the cost of water vapor loss to the atmosphere. The opening and closing of stomata in response to fluctuations in light intensity regulate CO2 and water fluxes and are essential to maintenance of water-use efficiency (WUE). However, little is known about the genetic basis for natural variation in stomatal movement, especially in C4 crops. This is partly because the stomatal response to a change in light intensity is difficult to measure at the scale required for association studies. High-throughput thermal imaging was used to bypass the phenotyping bottleneck and assess 10 traits describing stomatal conductance (gs) before, during and after a stepwise decrease in light intensity for a diversity panel of 659 sorghum accessions. Results from thermal imaging significantly correlated with photosynthetic gas-exchange measurements. gs traits varied substantially across the population and were moderately heritable (h2 up to 0.72). An integrated genome-wide and transcriptome-wide association study (GWAS/TWAS) identified candidate genes putatively driving variation in stomatal conductance traits. Of the 239 unique candidate genes identified with greatest confidence, 77 were orthologs of Arabidopsis genes related to functions implicated in WUE, including stomatal opening/closing (24 genes), stomatal/epidermal cell development (35 genes), leaf/vasculature development (12 genes), or chlorophyll metabolism/photosynthesis (8 genes). These findings demonstrate an approach to finding genotype-to-phenotype relationships for a challenging trait as well as candidate genes for further investigation of the genetic basis of WUE in a model C4 grass for bioenergy, food, and forage production.

LED and HPS Supplementary Light Differentially Affect Gas Exchange in Tomato Leaves

Using light emitting diodes (LED) instead of conventionally used high pressure sodium (HPS) lamps as a supplemental light source in greenhouses results in a higher efficacy (µmol light per J electricity) and makes it possible to customize the light spectrum. To explore the effects of LED and HPS on gas exchange, thermal relations, photosynthesis, and water status of young tomato plants, seven genotypes were grown in a greenhouse under LED (95% red, 5% blue) or HPS lamps in four experiments differing in the fraction of lamp light over natural light. HPS lights emit a broader spectrum of red (40%), green–yellow (50%), blue (5%), and far-red (5%) and a substantial amount of infrared radiation (heat). Young tomato plants grown under LED showed lower leaf temperature and higher stomatal density, stomatal conductance (gs) and transpiration rate (E) than plants grown under HPS; this may be due to the different supplemental light spectrum. The young plants grown under LED tended to have increased photosynthetic capacity. Furthermore, the water stress indices CWSI and IG, which were obtained using thermal imaging, were positively correlated with gas exchange-derived gs and E, putting forward the use of thermal imaging for the phenotyping of transpiration. Under LED light, photosynthetic gas exchange was generally increased, which agreed with the water stress indices. The extent of this increase was genotype-dependent. All differences between LED and HPS were smaller in the experiments where the fraction of lamp light over natural light was smaller.