Primary structure of an environmental stress and abscisic acid-inducible alfalfa protein

Biotechnological Perspectives of Omics and Genetic Engineering Methods in Alfalfa

For several decades, researchers are working to develop improved major crops with better adaptability and tolerance to environmental stresses. Forage legumes have been widely spread in the world due to their great ecological and economic values. Abiotic and biotic stresses are main factors limiting legume production, however, alfalfa (Medicago sativa L.) shows relatively high level of tolerance to drought and salt stress. Efforts focused on alfalfa improvements have led to the release of cultivars with new traits of agronomic importance such as high yield, better stress tolerance or forage quality. Alfalfa has very high nutritional value due to its efficient symbiotic association with nitrogen-fixing bacteria, while deep root system can help to prevent soil water loss in dry lands. The use of modern biotechnology tools is challenging in alfalfa since full genome, unlike to its close relative barrel medic (Medicago truncatula Gaertn.), was not released yet. Identification, isolation, and improvement of genes involved in abiotic or biotic stress response significantly contributed to the progress of our understanding how crop plants cope with these environmental challenges. In this review, we provide an overview of the progress that has been made in high-throughput sequencing, characterization of genes for abiotic or biotic stress tolerance, gene editing, as well as proteomic and metabolomics techniques bearing biotechnological potential for alfalfa improvement.

Identification of Single-Nucleotide Polymorphic Loci Associated with Biomass Yield under Water Deficit in Alfalfa (Medicago sativa L.) Using Genome-Wide Sequencing and Association Mapping

Alfalfa is a worldwide grown forage crop and is important due to its high biomass production and nutritional value. However, the production of alfalfa is challenged by adverse environmental factors such as drought and other stresses. Developing drought resistance alfalfa is an important breeding target for enhancing alfalfa productivity in arid and semi-arid regions. In the present study, we used genotyping-by-sequencing and genome-wide association to identify marker loci associated with biomass yield under drought in the field in a panel of diverse germplasm of alfalfa. A total of 28 markers at 22 genetic loci were associated with yield under water deficit, whereas only four markers associated with the same trait under well-watered condition. Comparisons of marker-trait associations between water deficit and well-watered conditions showed non-similarity except one. Most of the markers were identical across harvest periods within the treatment, although different levels of significance were found among the three harvests. The loci associated with biomass yield under water deficit located throughout all chromosomes in the alfalfa genome agreed with previous reports. Our results suggest that biomass yield under drought is a complex quantitative trait with polygenic inheritance and may involve a different mechanism compared to that of non-stress. BLAST searches of the flanking sequences of the associated loci against DNA databases revealed several stress-responsive genes linked to the drought resistance loci, including leucine-rich repeat receptor-like kinase, B3 DNA-binding domain protein, translation initiation factor IF2, and phospholipase-like protein. With further investigation, those markers closely linked to drought resistance can be used for MAS to accelerate the development of new alfalfa cultivars with improved resistance to drought and other abiotic stresses.

Identification of Loci Associated with Drought Resistance Traits in Heterozygous Autotetraploid Alfalfa (Medicago sativa L.) Using Genome-Wide Association Studies with Genotyping by Sequencing

Drought resistance is an important breeding target for enhancing alfalfa productivity in arid and semi-arid regions. Identification of genes involved in drought tolerance will facilitate breeding for improving drought resistance and water use efficiency in alfalfa. Our objective was to use a diversity panel of alfalfa accessions comprised of 198 cultivars and landraces to identify genes involved in drought tolerance. The panel was selected from the USDA-ARS National Plant Germplasm System alfalfa collection and genotyped using genotyping by sequencing. A greenhouse procedure was used for phenotyping two important traits associated with drought tolerance: drought resistance index (DRI) and relative leaf water content (RWC). Marker-trait association identified nineteen and fifteen loci associated with DRI and RWC, respectively. Alignments of target sequences flanking to the resistance loci against the reference genome of M. truncatula revealed multiple chromosomal locations. Markers associated with DRI are located on all chromosomes while markers associated with RWC are located on chromosomes 1, 2, 3, 4, 5, 6 and 7. Co-localizations of significant markers between DRI and RWC were found on chromosomes 3, 5 and 7. Most loci associated with DRI in this work overlap with the reported QTLs associated with biomass under drought in alfalfa. Additional significant markers were targeted to several contigs with unknown chromosomal locations. BLAST search using their flanking sequences revealed homology to several annotated genes with functions in stress tolerance. With further validation, these markers may be used for marker-assisted breeding new alfalfa varieties with drought resistance and enhanced water use efficiency.

System responses to long-term drought and re-watering of two contrasting alfalfa varieties

Systems analysis of two alfalfa varieties, Wisfal (Medicago sativa ssp. falcata var. Wisfal) and Chilean (M. sativa ssp. sativa var. Chilean), with contrasting tolerance/sensitivity to drought revealed common and divergent responses to drought stress. At a qualitative level, molecular, biochemical, and physiological responses to drought stress were similar in the two varieties, indicating that they employ the same strategies to cope with drought. However, quantitative differences in responses at all levels were revealed that may contribute to greater drought tolerance in Wisfal. These included lower stomatal density and conductance in Wisfal; delayed leaf senescence compared with Chilean; greater root growth following a drought episode, and greater accumulation of osmolytes, including raffinose and galactinol, and flavonoid antioxidants in roots and/or shoots of Wisfal. Genes encoding transcription factors and other regulatory proteins, and genes involved in the biosynthesis of osmolytes and (iso)flavonoids were differentially regulated between the two varieties and represent potential targets for improving drought tolerance in alfalfa in the future.

Plant glycine-rich proteins: a family or just proteins with a common motif?

Twelve years ago a set of glycine-rich proteins (GRP) of plants were characterized and since then a wealth of new GRPs have been identified. The highly specific but diverse expression pattern of grp genes, taken together with the distinct sub-cellular localisation of some GRP groups, clearly indicate that these proteins are implicated in several independent physiological processes. Notwithstanding the absence of a clear definition of the role of GRPs in plant cells, studies conducted with these proteins have provided new and interesting insights on the molecular and cell biology of plants. Complex regulated promoters and distinct mechanisms of gene expression regulation have been demonstrated. New protein targeting pathways, as well as the exportation of GRPs from different cell types have been discovered. These data show that GRPs can be useful as markers and/or models to understand distinct aspects of plant biology. In this review, the structural and functional features of this family of plant proteins will be summarised. Special emphasis will be given to the gene expression regulation of GRPs isolated from different plant species, as it can help to unravel their possible biological functions.

Characterization of cDNAs encoding two glycine-rich proteins in chickpea (Cicer arietinum L.): accumulation in response to fungal infection and other stress factors

In chickpea plants infected with the pathogenic fungus Ascochyta rabiei [Pass.] Labr. several mRNAs for two glycine-rich proteins (GRPs) were identified by differential cDNA screening. The main part of the deduced amino acid sequences of the 14.6 kD GRP1 and the larger GRP2 consists of glycine-rich repetitive elements essentially as found for GRPs in other plants. Tyrosine residues in conserved positions inside these repetitive motifs suggest an involvement of the GRPs in a polymerization process by oxidative cross-linking, i.e. cell wall fortification. Both GRP transcripts are induced by infection with A. rabiei, showing a maximum of expression 5 days post infection. Wounding of leaves and the stress of water treatment (performed as a control) also seem to induce the accumulation of GRP transcripts.

THE MOLECULAR BASIS OF DEHYDRATION TOLERANCE IN PLANTS

Molecular studies of drought stress in plants use a variety of strategies and include different species subjected to a wide range of water deficits. Initial research has by necessity been largely descriptive, and relevant genes have been identified either by reference to physiological evidence or by differential screening. A large number of genes with a potential role in drought tolerance have been described, and major themes in the molecular response have been established. Particular areas of importance are sugar metabolism and late-embryogenesis-abundant (LEA) proteins. Studies have begun to examine mechanisms that control the gene expression, and putative regulatory pathways have been established. Recent attempts to understand gene function have utilized transgenic plants. These efforts are of clear agronomic importance.

Induction of chilling resistance by water stress, and cDNA sequence analysis and expression of water stress-regulated genes in rice

Exposure of seedlings of a chilling-sensitive variety of rice (Oryza sativa L. cv. Wasetoittu) to water stress (0.5 M mannitol, 30 min) at room temperature induced a degree of chilling resistance. No such resistance was induced by exogenous abscisic acid (ABA) application (10 microM, 60 min). Upon short-term water stress, new transcripts were expressed in both seedlings and suspension-cultured cells. We suggest that the genes induced by short-term water stress, and not those induced by ABA, are related to acquired chilling resistance in this chilling-sensitive rice variety. A total of nine different cDNA clones, specifically induced by short-term water stress, were isolated by differential hybridization and partial sequencing. Northern hybridization analysis using RNAs from the seedlings subjected to chilling after water stress treatment reveal three distinct groups of above mentioned nine cDNA clones: wsi (water stress-induced) 18, 76, and 724, representative of genes whose expression increases, decreases, and remains almost fixed during chilling, respectively. The nucleotide and deduced amino acid sequences of the three representative clones were determined. Characteristic features of wsi18 are the presence of one set of amino acid sequence repeats, a conserved amino acid sequence common to LEA-group genes in the N-terminal region, and an alanine- and lysine-rich tract in the C-terminal region.

A cold-induced gene from Medicago sativa encodes a bimodular protein similar to developmentally regulated proteins

A new cold-regulated (COR) gene, msa CIC, was isolated by differential screening of a cDNA library from cold-acclimated crowns of alfalfa (Medicago sativa L. cv. Apica). Transcripts of msa CIC were not detectable in unacclimated alfalfa and accumulated to higher levels in cold-acclimated plants of the cold-tolerant cv. Apica than in those of the cold-sensitive cv. CUF-101. The DNA sequence analysis of a full-length cDNA clone revealed that msa CIC encodes for a putative protein (MSACIC) of 166 amino acids with distinct proline-rich and hydrophobic domains. Protein sequence comparisons indicated that MSACIC is similar to a group of bimodular proteins that are developmentally regulated in other plant species.

Gene expression under temperature stress

In this review, changes in plant gene expression in response to environmental stresses are discussed using the examples of high and low temperature treatments. While some changes may contribute to acclimatory processes which improve plant survival or performance under stress, others may be 'shock' responses indicative of sensitivity. The heat-shock response, which is almost ubiquitous among eukaryotic organisms, is characterized by repression of normal cellular protein synthesis mediated at both the transcriptional and the translational level, and induction of heat-shock protein (HSP) synthesis. There is a correlation between HSP synthesis and induced thermotolerance in plants, but the evidence for a causal relationship is not conclusive. The possible biochemical functions of some of the HSPs are now becoming apparent; they are believed to play an important role in preventing accumulation of damaged proteins in the cell during heat shock. Although no other environmental stress elicits the full heat-shock response, certain treatments do induce synthesis of subsets of the HSPs, and the reasons for this are considered. Alterations in gene expression in response to low temperatures are more diverse and usually less dramatic than the heat-shock response, with which they share little, if any, homology. Biochemical adjustments during cold treatment are discussed, with particular reference to those which contribute to acclimation. Several genes whose expression is induced by cold have been cloned and characterized, and in some cases it is possible to attribute in vivo functions to them; they include enzymes of lipid, carbohydrate and protein metabolism, structural proteins and putative cryoprotectants. The use of transgenic plants is further facilitating an investigation of the biochemical factors which are important in cold acclimation. Drought, osmotic stress and abscisic acid induce expression of many of the same genes as does cold treatment; it seems likely that some of the products of these genes contribute to increased freezing tolerance by protecting against intracellular dehydration. Contents Summary 1 I. Introduction 1 II. High temperature stress 3 III. Low temperature stress 10 IV. Concluding remarks 20 Acknowledgements 21 References 21.

Characterization of a spinach gene responsive to low temperature and water stress

The characterization of a cDNA for an 85 kDa spinach protein, CAP85 (cold acclimation protein) that is responsive to cold acclimation and water stress is described. Both transcript and protein levels are increased during cold acclimation and water stress. A novel characteristic of CAP85 is the presence of an 11 amino acid, lysine-rich repeat, common to Group 2 LEAs (late embryogenesis abundant proteins), which is included within a larger repeating motif present in 11 copies. Two other motifs of 8 and 16 residues are also found in three and four copies, respectively. CAP85 like other dehydrins and cold-regulated polypeptides remains soluble upon boiling. Protein blot analyses indicate that CAP85 protein is expressed in all aerial tissues as well as in roots. RNA blots show the presence of mRNA for the 85 kDa protein in leaf, petiole, and root tissue. Cell fractionation studies suggest that CAP85 is predominantly found in the cytosol.