The relationship between the soil water storage and water-use efficiency of seven energy crops

The aim of this work was to determine two types of photosynthetic water-use efficiency in order to examine their utility as selection criteria for tolerance of energy crops to soil water deficit. Furthermore, effects of crop cultivation on soil water content and storage were investigated. Seven energy crops were examined: miscanthus, prairie cordgrass, willow, thorn-free rose, Virginia mallow, Bohemian knotweed, and topinambour. The highest values of instantaneous (WUE) and intrinsic (WUE_i) water-use efficiencies were found for miscanthus and prairie cordgrass. The reduction of WUE and/or WUE_i was caused mainly by a rapid rise in the transpiration rate and a greater stomatal conductance, respectively. Principal component analysis showed that neither WUE nor WUE_i could be recommended as universal selection criteria for the drought tolerance in different energy crops. The proper localization of soil with a good supply of water is most the important condition for energy crop plantations.     

Salt tolerance in crop plants: new approaches through tissue culture and gene regulation

Recent approaches to study of salinity tolerance in crop plants have ranged from genetic mapping to molecular characterization of gene products induced by salt/drought stress. Transgenic plant design has allowed to test the effects of overexpression of specific prokaryotic or plant genes that are known to be up-regulated by salt/drought stress. This review summarizes current progress in the field in the context of adaptive metabolic and physiological responses to salt stress and their potential role in long term tolerance. Specifically considered are gene activation by salt, in view of proposed avenues for improved salt tolerance and the need to ascertain the additional influences of developmental regulation of such genes. Discussion includes the alternate genetic strategy we have pursued for improving salinity tolerance in alfalfa (Medicago sativa L.) and rice (Oryza sativa L.). This strategy combines single-step selection of salt-tolerant cells in culture, followed by regeneration of salt-tolerant plants and identification of genes important in conferring salt tolerance. We have postulated that activation or improved expression of a subset of genes encoding functions that are particularly vulnerable under conditions of salt-stress could counteract the molecular effects of such stress and could provide incremental improvements in tolerance. We have proceeded to identify the acquired specific changes in gene regulation for our salt-tolerant mutant cells and plants. One particularly interesting and novel gene isolate from the salt-tolerant cells is Alfin1, which encodes a putative zinc-finger regulatory protein, expressed predominantly in roots. We have demonstrated that this protein binds DNA in a sequence specific manner and may be potentially important in gene regulation in roots in response to salt and an important marker for salt tolerance in crop plants.     

Physiological and Biochemical Characteristics and Response Patterns of Salinity Stress Responsive Genes (SSRGs) in Wild Quinoa (<i>Chenopodium quinoa</i> L.)

Cultivating salt-tolerant crops is a feasible way to effectively utilize saline-alkali land and solve the problem of underutilization of saline soils. Quinoa, a protein-comprehensive cereal in the plant kingdom, is an exceptional crop in terms of salt stress tolerance level. It seems an excellent model for the exploration of salt-tolerance mechanisms and cultivation of salt-tolerant germplasms. In this study, the seeds and seedlings of the quinoa cultivar Shelly were treated with different concentrations of NaCl solution. The physiological, biochemical characteristics and agronomic traits were investigated, and the response patterns of three salt stress-responsive genes (SSRGs) in quinoa were determined by real-time PCR. The optimum level of stress tolerance of quinoa cultivar Shelly was found in the range of 250–350 mM concentration of NaCl. Salt stress significantly induced expression of superoxide dismutase (SOD), peroxidase (POD), and particularly betaine aldehyde dehydrogenase (BADH). BADH was discovered to be more sensitive to salt stress and played an important role in the salt stress tolerance of quinoa seedlings, particularly at high NaCl concentrations, as it displayed upregulation until 24 h under 100 mM salt treatment. Moreover, it showed upregulation until 12 h under 250 mM salt stress. Taken together, these results suggest that BADH played an essential role in the salt-tolerance mechanism of quinoa. Based on the expression level and prompt response induced by NaCl, we suggest that the BADH can be considered as a molecular marker for screening salt-tolerant quinoa germplasm at the early stages of crop development. Salt treatment at different plant ontogeny or at different concentrations had a significant impact on quinoa growth. Therefore, an appropriate treatment approach needs to be chosen rationally in the process of screening salt-tolerant quinoa germplasm, which is useful to the utilization of saline soils. Our study provides a fundamental information to deepen knowledge of the salt tolerance mechanism of quinoa for the development of salt-tolerant germplasm in crop breeding programs.     

Avenues for increasing salt tolerance of crops,and the role of physiologically based selection traits

Increased salt tolerance is needed for crops grown in areas at risk of salinisation. This requires new genetic sources of salt tolerance, and more efficient techniques for identifying salt-tolerant germplasm, so that new genes for tolerance can be introduced into crop cultivars. Screening a large number of genotypes for salt tolerance is not easy. Salt tolerance is achieved through the control of salt movement into and through the plant, and salt-specific effects on growth are seen only after long periods of time. Early effects on growth and metabolism are likely due to osmotic effects of the salt, that is to the salt in the soil solution. To avoid the necessity of growing plants for long periods of time to measure biomass or yield, practical selection techniques can be based on physiological traits. We illustrate this with current work on durum wheat, on selection for the trait of sodium exclusion. We have explored a wide range of genetic diversity, identified a new source of sodium exclusion, confirmed that the trait has a high heritability, checked for possible penalties associated with the trait, and are currently developing molecular markers. This illustrates the potential for marker-assisted selection based on sound physiological principles in producing salt-tolerant crop cultivars.     

Linkage mapping in prairie cordgrass (<Emphasis Type="Italic">Spartina pectinata</Emphasis> Link) using genotyping-by-sequencing

Prairie cordgrass (Spartina pectinata Link) is a polyploid Chloridoid grass with tetraploid (2n = 40), hexaploid (2n = 60), and octoploid (2n = 80) cytotypes and is a potential dedicated energy crop with promising yields in marginal environments. Efforts to breed prairie cordgrass are currently hampered by the lack of a linkage map, the lack of a Chloridoid reference genome, and the lack of information on inheritance patterns (disomic versus polysomic). Genotyping-by-sequencing (GBS) was applied to a population of 85 progenies from a reciprocal cross of heterozygous tetraploid parents. A total of 26,418 SNPs were discovered, with a distribution of allele frequencies suggesting disomic inheritance. A filtered set of 3034 single-dose, high-coverage SNPs was used for pseudo-testcross mapping with 63 progenies, resulting in two parental maps of 20 linkage groups containing 1522 and 1016 SNPs and a nearly 1:1 ratio of coupling to repulsion phase linkages, again suggesting disomic inheritance. Genomic contigs from tef, another Chloridoid grass, were used as a bridge to associate genetic markers in prairie cordgrass with unique positions in the sorghum genome, providing a glimpse into synteny between Chloridoids and other grasses. GBS enabled rapid generation of a linkage map that will aid in future breeding and genomics efforts in prairie cordgrass.     

Evaluation and Exploration of Favorable QTL Alleles for Salt Stress Related Traits in Cotton Cultivars (G. hirsutum L.)

Soil salinization is one of the major problems in global agricultural production. Cotton is a pioneer crop with regard to salt stress tolerance, and can be used for saline-alkali land improvement. The large-scale detection of salt tolerance traits in cotton accessions, and the identification of elite quantitative trait loci (QTLs)/genes for salt-tolerance have been very important in salt tolerance breeding. Here, 43 advanced salt-tolerant and 31 highly salt-sensitive cultivars were detected by analyzing ten salt tolerance related traits in 304 upland cotton cultivars. Among them, 11 advanced salt-tolerance and eight highly salt-sensitive cultivars were consistent with previously reported results. Association analysis of ten salt-tolerance related traits and 145 SSRs was performed, and a total of 95 significant associations were detected; 17, 41, and 37 of which were associated with germinative index, seedling stage physiological index, and four seedling stage biochemical indexes, respectively. Of these associations, 20 SSR loci were simultaneously associated with two or more traits. Furthermore, we detected 117 elite alleles associated with salt-tolerance traits, 4 of which were reported previously. Among these loci, 44 (37.60%) were rare alleles with a frequency of less than 5%, 6 only existed in advanced salt-tolerant cultivars, and 2 only in highly salt-sensitive cultivars. As a result, 13 advanced salt-tolerant cultivars were selected to assemble the optimal cross combinations by computer simulation for the development of salt-tolerant accessions. This study lays solid foundations for further improvements in cotton salt-tolerance by referencing elite germplasms, alleles associated with salt-tolerance traits, and optimal crosses.     

Identification of <Emphasis Type="Italic">GmSALT3</Emphasis> haplotypes and development of molecular markers based on their diversity associated with salt tolerance in soybean

Soybean [Glycine max (L.) Merr.] is a major agricultural crop and generally known as a salt-sensitive crop. In a previous study, GmSALT3 was identified as a salt tolerance gene in soybean, and its nine haplotypes (H1 to H9) were reported in Chinese soybean accessions. In the present study, we aimed to identify new haplotypes of GmSALT3 in soybean accessions and to develop molecular markers for selection of salt-tolerant and -sensitive accessions. To do so, we examined genomic variations in the GmSALT3 coding region of 216 accessions of G. max and G. soja from Korea, China, and Japan. As a result, 40 different haplotypes, including three known haplotypes (H1, H2, and H5), were identified. Performing salt tolerance tests for the haplotypes, we were able to classify them into salt-tolerant (8) and salt-sensitive (32) categories. We also found that more variations in the haplotype composition of G. soja accessions exist than in that of G. max accessions. Quantitative expression analysis showed that almost all of the salt-tolerant haplotypes had much higher levels of GmSALT3 expression than the salt-sensitive haplotypes did. Finally, we developed molecular markers and applied them to screen salt tolerance of soybean accessions. The molecular markers performed well with an accuracy of 98.8% in identifying phenotypes of soybean accessions.     

Above- and Belowground Prairie Cordgrass Response to Applied Nitrogen on Marginal Land

Prairie cordgrass (Spartina pectinata, Link.) has been evaluated for its biomass potential because of its high yield, relatively low nutrient demand, and diverse geographical adaptation. Our objectives were to determine (1) biomass production potential of prairie cordgrass in South Dakota and Kansas under varying nitrogen levels, (2) the effect of N on prairie cordgrass yield components (tillers m^?2 and tiller mass), and (3) the effect of N on yield and N concentration of belowground biomass. Older stands of Red River prairie cordgrass (RR-PCG) in South Dakota and Atkins prairie cordgrass (AT-PCG) in Kansas were fertilized with 0, 56, 112 and 168 kg N ha^?1 from 2008 to 2011 in South Dakota and in 2009 and 2010 in Kansas. Experimental design at all locations was a 4?×?4 Latin square. Prairie cordgrass was harvested around a killing frost in October and early November. Biomass production ranged from 5.50 to 13.69 Mg ha^?1 in South Dakota and 5.33 to 12.51 Mg ha^?1 in Kansas. Prairie cordgrass yield did not increase significantly with N application at any location or year. Across years, tiller density ranged from 536 to 934 tillers m^?2 for RR-PCG in South Dakota and from 234 to 315 tillers m^?2 for AT-PCG in Kansas. Neither tiller density or tiller mass was affected by N rate at any location in any year. Belowground biomass production to a depth of 25 cm was equal to or greater than aboveground biomass. However, it was not affected by N rate in all locations by any year. Understanding prairie cordgrass nitrogen-use dynamics to improve biomass and nutrient management will be essential for future investigations. Findings of this study are important to support the notion that prairie cordgrass biomass production in two different environments can be achieved with minimal N inputs.     

Recent Advances in Genetics of Salt Tolerance in Tomato

Salinity is an important environmental constraint to crop productivity in arid and semi-arid regions of the world. Most crop plants, including tomato, Lycopersicon esculentum Mill., are sensitive to salinity throughout the ontogeny of the plant. Despite considerable research on salinity in plants, there are only a few instances where salt-tolerant cultivars have been developed. This is due in part to the complexity of the trait. A plant's response to salt stress is modulated by many physiological and agronomical characteristics, which may be controlled by the actions of several to many genes whose expressions are influenced by various environmental factors. In addition, salinity tolerance is a developmentally regulated, stage-specific phenomenon; tolerance at one stage of plant development is often not correlated with tolerance at other stages. Specific ontogenic stages should be evaluated separately for the assessment of tolerance and the identification, characterization, and utilization of useful genetic components. In tomato, genetic resources for salt tolerance have been identified largely within the related wild species, and considerable efforts have been made to characterize the genetic controls of tolerance at various developmental stages. For example, the inheritance of several tolerance-related traits has been determined and quantitative trait loci (QTLs) associated with tolerance at individual developmental stages have been identified and characterized. It has been determined that at each stage salt tolerance is largely controlled by a few QTLs with major effects and several QTLs with smaller effects. Different QTLs have been identified at different developmental stages, suggesting the absence of genetic relationships among stages in tolerance to salinity. Furthermore, it has been determined that in addition to QTLs which are population specific, several QTLs for salt tolerance are conserved across populations and species. Research is currently underway to develop tomatoes with improved salt tolerance throughout the ontogeny of the plant by pyramiding QTLs through marker-assisted selection (MAS). Transgenic approaches also have been employed to gain a better understanding of the genetics of salt tolerance and to develop tomatoes with improved tolerance. For example, transgenic tomatoes with overexpression of a single-gene-controlled vacuolar Na⁺/H⁺ antiport protein, transferred from Arabidopsis thaliana, have exhibited a high level of salt tolerance under greenhouse conditions. Although transgenic plants are yet to be examined for field salt tolerance and salt-tolerant tomatoes are yet to be developed by MAS, the recent genetic advances suggest a good prospect for developing commercial cultivars of tomato with enhanced salt tolerance in near future.     

Modeling biogeochemical impacts of bioenergy buffers with perennial grasses for a row‐crop field in Illinois

Current research on the environmental sustainability of bioenergy has largely focused on the potential of bioenergy crops to sequester carbon and mitigate greenhouse gas emissions and possible impacts on water quality and quantity. A key assumption in these studies is that bioenergy crops will be grown in a manner similar to current agricultural crops such as corn and hence would affect the environment similarly. In this study, we investigate an alternative cropping system where bioenergy crops are grown in buffer strips adjacent to current agricultural crops such that nutrients present in runoff and leachate from the traditional row‐crops are reused by the bioenergy crops (switchgrass, miscanthus and native prairie grasses) in the buffer strips, thus providing environmental services and meeting economic needs of farmers. The process‐based biogeochemical model Denitrification‐Decomposition (DNDC) was used to simulate crop yield, nitrous oxide production and nitrate concentrations in leachate for a typical agricultural field in Illinois. Model parameters have been developed for the first time for miscanthus and switchgrass in DNDC. Results from model simulations indicated that growing bioenergy crops in buffer strips mitigated nutrient runoff, reduced nitrate concentrations in leachate by 60–70% and resulted in a reduction of 50–90% in nitrous oxide emissions compared with traditional cropping systems. While all the bioenergy crop buffers had significant positive environmental benefits, switchgrass performed the best with respect to minimizing nutrient runoff and nitrous oxide emissions, while miscanthus had the highest yield. Overall, our model results indicated that the bioenergy crops grown in these buffer strips achieved yields that are comparable to those obtained for traditional agricultural systems while simultaneously providing environmental services and could be used to design sustainable agricultural landscapes.     

Plant salt tolerance

Soil salinity is a major abiotic stress in plant agriculture worldwide. This has led to research into salt tolerance with the aim of improving crop plants. However, salt tolerance might have much wider implications because transgenic salt-tolerant plants often also tolerate other stresses including chilling, freezing, heat and drought. Unfortunately, suitable genetic model systems have been hard to find. A recently discovered halophytic plant species, Thellungiella halophila, now promises to help in the detection of new tolerance determinants and operating pathways in a model system that is not limited to Arabidopsis traits or ecotype variations.     

Salt-stress-responsive chloroplast proteins in <Emphasis Type="Italic">Brassica juncea</Emphasis> genotypes with contrasting salt tolerance and their quantitative PCR analysis

Brassica juncea is mainly cultivated in the arid and semi-arid regions of India where its production is significantly affected by soil salinity. Adequate knowledge of the mechanisms underlying the salt tolerance at sub-cellular levels must aid in developing the salt-tolerant plants. A proper functioning of chloroplasts under salinity conditions is highly desirable to maintain crop productivity. The adaptive molecular mechanisms offered by plants at the chloroplast level to cope with salinity stress must be a prime target in developing the salt-tolerant plants. In the present study, we have analyzed differential expression of chloroplast proteins in two Brassica juncea genotypes, Pusa Agrani (salt-sensitive) and CS-54 (salt-tolerant), under the effect of sodium chloride. The chloroplast proteins were isolated and resolved using 2DE, which facilitated identification and quantification of 12 proteins that differed in expression in the salt-tolerant and salt-sensitive genotypes. The identified proteins were related to a variety of chloroplast-associated molecular processes, including oxygen-evolving process, PS I and PS II functioning, Calvin cycle and redox homeostasis. Expression analysis of genes encoding differentially expressed proteins through real time PCR supported our findings with proteomic analysis. The study indicates that modulating the expression of chloroplast proteins associated with stabilization of photosystems and oxidative defence plays imperative roles in adaptation to salt stress.     

Improving salinity tolerance of plants through conventional breeding and genetic engineering: An analytical comparison

The last century has witnessed a substantial improvement in yield potential, quality and disease resistance in crops. This was indeed the outcome of conventional breeding, which was achieved with little or no knowledge of underlying physiological and biochemical phenomena related to a trait. Also the resources utilized on programs involving conventional breeding were not of great magnitude. Plant breeders have also been successful during the last century in producing a few salt-tolerant cultivars/lines of some potential crops through conventional breeding, but this again has utilized modest resources. However, this approach seems now inefficient due to a number of reasons, and alternatively, genetic engineering for improving crop salt tolerance is being actively followed these days by the plant scientists, world-over. A large number of transgenic lines with enhanced salt tolerance of different crops can be deciphered from the literature but up to now only a very few field-tested cultivars/lines are known despite the fact that considerable resources have been expended on the sophisticated protocols employed for generating such transgenics. This review analytically compares the achievements made so far in terms of producing salt-tolerant lines/cultivars through conventional breeding or genetic engineering.     

Morphology and biomass production of prairie cordgrass on marginal lands

Prairie cordgrass (Spartina pectinata Link.) is indigenous throughout most of the continental United States and Canada to 60°N latitude and is well suited to marginal land too wet for maize (Zea mays L.) and switchgrass (Panicum virgatum L.). Evaluations of prairie cordgrass in Europe and North America indicated it has high potential for biomass production, relative to switchgrass, in short‐season areas. Our objective was to describe morphology and biomass production and partitioning in mature stands of ‘Red River’ prairie cordgrass and determine biomass production of natural populations on marginal land. This study was conducted from 2000 to 2008 in eastern South Dakota. Mean biomass production of mature stands of Red River was 12.7 Mg ha^?1. Leaves composed >88% of the biomass, and 60% of the tillers had no internodes. Belowground biomass to a depth of approximately 25 cm, not including roots, was 21 Mg ha^?1. Tiller density ranged from 683 tillers m^?2 for a 10‐year‐old stand to 1140 tillers m^?2 for a 4‐year‐old stand. The proaxis was composed of about eight phytomers, with rhizomes originating at proximal nodes and erect tillers at distal nodes. Vegetative propagation was achieved by both phalanx and guerilla growth. Differences among natural populations for biomass were expressed on gravelly marginal land. However, production, averaged across populations, was low (1.37 Mg ha^?1) and comparable to ‘Cave‐In‐Rock’ switchgrass (1.67 Mg ha^?1) over a 4‐year period. The large carbon storage capacity of prairie cordgrass in proaxes and rhizomes makes it useful for carbon sequestration purposes. Prairie cordgrass should be compared with switchgrass and other C₄ perennial grasses along environmental gradients to determine optimum landscape positions for each and to maximize bioenergy production and minimize inputs.