Environment-oriented selection criteria to overcome controversies in breeding for drought resistance in wheat

Wheat is one of the most important cereal crops, representing a fundamental source of calories and protein for the global human population. Drought stress (DS) is a widespread phenomenon, already affecting large wheat-growing areas worldwide, and a major threat for cereal productivity, resulting in consistent losses in average grain yield (GY). Climate change is projected to exacerbate DS incidence and severity by increasing temperatures and changing rainfall patterns. Estimating that wheat production has to substantially increase to guarantee food security to a demographically expanding human population, the need for breeding programs focused on improving wheat drought resistance is manifest. Drought occurrence, in terms of time of appearance, duration, frequency, and severity, along the plant's life cycle varies significantly among different environments and different agricultural years, making it difficult to identify reliable phenological, morphological, and functional traits to be used as effective breeding tools. The situation is further complicated by the presence of confounding factors, e.g., other concomitant abiotic stresses, in an open-field context. Consequently, the relationship between morpho-functional traits and GY under water deficit is often contradictory; moreover, controversies have emerged not only on which traits are to be preferred, but also on how one specific trait should be desired. In this review, we attempt to identify the possible causes of these disputes and propose the most suitable selection criteria in different target environments and, thus, the best trait combinations for breeders in different drought contexts. In fact, an environment-oriented approach could be a valuable solution to overcome controversies in identifying the proper selection criteria for improving wheat drought resistance

Genetic dissection of maize phenology using an intraspecific introgression library

Background: Collections of nearly isogenic lines where each line carries a delimited portion of a donor source genome into a common recipient genetic background are known as introgression libraries and have already shown to be instrumental for the dissection of quantitative traits. By means of marker-assisted backcrossing, we have produced an introgression library using the extremely early-flowering maize (Zea mays L.) variety Gasp\ue9 Flint and the elite line B73 as donor and recipient genotypes, respectively, and utilized this collection to investigate the genetic basis of flowering time and related traits of adaptive and agronomic importance in maize.Results: The collection includes 75 lines with an average Gasp\ue9 Flint introgression length of 43.1 cM. The collection was evaluated for flowering time, internode length, number of ears, number of nodes (phytomeres), number of nodes above the ear, number and proportion of nodes below the ear and plant height. Five QTLs for flowering time were mapped, all corresponding to major QTLs for number of nodes. Three additional QTLs for number of nodes were mapped. Besides flowering time, the QTLs for number of nodes drove phenotypic variation for plant height and number of nodes below and above the top ear, but not for internode length. A number of apparently Mendelian-inherited phenotypes were also observed.Conclusions: While the inheritance of flowering time was dominated by the well-known QTL Vgt1, a number of other important flowering time QTLs were identified and, thanks to the type of plant material here utilized, immediately isogenized and made available for fine mapping. At each flowering time QTL, early flowering correlated with fewer vegetative phytomeres, indicating the latter as a key developmental strategy to adapt the maize crop from the original tropical environment to the northern border of the temperate zone (southern Canada), where Gasp\ue9 Flint was originally cultivated. Because of the trait differences between the two parental genotypes, this collection will serve as a permanent source of nearly isogenic materials for multiple studies of QTL analysis and cloning. \ua9 2011 Salvi et al; licensee BioMed Central Ltd

The Global Durum Wheat Panel (GDP): An International Platform to Identify and Exchange Beneficial Alleles

Representative, broad and diverse collections are a primary resource to dissect genetic diversity and meet pre-breeding and breeding goals through the identification of beneficial alleles for target traits. From 2,500 tetraploid wheat accessions obtained through an international collaborative effort, a Global Durum wheat Panel (GDP) of 1,011 genotypes was assembled that captured 94-97% of the original diversity. The GDP consists of a wide representation of Triticum turgidum ssp. durum modern germplasm and landraces, along with a selection of emmer and primitive tetraploid wheats to maximize diversity. GDP accessions were genotyped using the wheat iSelect 90K SNP array. Among modern durum accessions, breeding programs from Italy, France and Central Asia provided the highest level of genetic diversity, with only a moderate decrease in genetic diversity observed across nearly 50 years of breeding (1970-2018). Further, the breeding programs from Europe had the largest sets of unique alleles. LD was lower in the landraces (0.4 Mbp) than in modern germplasm (1.8 Mbp) at r 2 = 0.5. ADMIXTURE analysis of modern germplasm defined a minimum of 13 distinct genetic clusters (k), which could be traced to the breeding program of origin. Chromosome regions putatively subjected to strong selection pressure were identified from fixation index (F st ) and diversity reduction index (DRI) metrics in pairwise comparisons among decades of release and breeding programs. Clusters of putative selection sweeps (PSW) were identified as co-localized with major loci controlling phenology (Ppd and Vrn), plant height (Rht) and quality (gliadins and glutenins), underlining the role of the corresponding genes as driving elements in modern breeding. Public seed availability and deep genetic characterization of the GDP make this collection a unique and ideal resource to identify and map useful genetic diversity at loci of interest to any breeding program

Phenotypic variability for early drought stress resistance in tetraploid wheat accessions correlates with terminal drought performance

Durum wheat (Triticum durum Desf.) is a fundamental staple food for the countries of the Mediterranean basin. Climate change is predicted to cause a trend of increasing drought severity in this region in the near future, necessitating the improvement of durum wheat's resilience to drought stress. Using polyethylene glycol to simulate water scarcity, early vigour parameters in germinating seeds are quickly, easily and affordably assessed. Many screenings, however, only consider the seedling stage; consequently, genotypes identified as promising for cultivation in drought scenarios, may not show such features if drought appears in later phenological phases, as happens in Mediterranean climatic areas, generally prone to terminal drought. The correlation between drought stress resistance during the seedling stage (early vigour) and later stages in the life cycle is elusive due to the lack of scientific efforts. Here we used polyethylene glycol screening to classify fifty-five tetraploid wheat accessions into three clusters (susceptible, medium resistant and highly resistant to drought), based on morpho-physiological traits. These accessions included durum wheat cultivars and landraces, as well as ancestors like durum emmer wheat and wild emmer wheat. The results of the screenings were combined with subsequent pot experiments using nine randomly selected accessions, imposing terminal drought, and evaluating their performance. Principal component analysis was performed on data for net photosynthesis, stomatal conductance, transpiration and grain yield. Notably, the genotypes that performed best in the pot experiments were also those that performed well in the screening. Highly resistant candidates had in fact higher physiological and performance parameters than susceptible candidates. In summary, polyethylene glycol screening of germinating seeds resulted to be suitable to predictively evaluate drought resistance in tetraploid wheat accessions under terminal drought conditions, typical of Mediterranean climate zones. The reported data, thus evidence of how this inexpensive and simple method might be efficiently applied for large-scale phenotyping

Association mapping for root characteristics in durum wheat

none6noneLI S.; MACCAFERRI M.; SANGUINETI M.C.; CORNETI S.; CHIARI T.; TUBEROSA R.LI S.; MACCAFERRI M.; SANGUINETI M.C.; CORNETI S.; CHIARI T.; TUBEROSA R

Genetic dissection of maize phenology using an intraspecific introgression library

Abstract Background Collections of nearly isogenic lines where each line carries a delimited portion of a donor source genome into a common recipient genetic background are known as introgression libraries and have already shown to be instrumental for the dissection of quantitative traits. By means of marker-assisted backcrossing, we have produced an introgression library using the extremely early-flowering maize (Zea mays L.) variety Gaspé Flint and the elite line B73 as donor and recipient genotypes, respectively, and utilized this collection to investigate the genetic basis of flowering time and related traits of adaptive and agronomic importance in maize. Results The collection includes 75 lines with an average Gaspé Flint introgression length of 43.1 cM. The collection was evaluated for flowering time, internode length, number of ears, number of nodes (phytomeres), number of nodes above the ear, number and proportion of nodes below the ear and plant height. Five QTLs for flowering time were mapped, all corresponding to major QTLs for number of nodes. Three additional QTLs for number of nodes were mapped. Besides flowering time, the QTLs for number of nodes drove phenotypic variation for plant height and number of nodes below and above the top ear, but not for internode length. A number of apparently Mendelian-inherited phenotypes were also observed. Conclusions While the inheritance of flowering time was dominated by the well-known QTL Vgt1, a number of other important flowering time QTLs were identified and, thanks to the type of plant material here utilized, immediately isogenized and made available for fine mapping. At each flowering time QTL, early flowering correlated with fewer vegetative phytomeres, indicating the latter as a key developmental strategy to adapt the maize crop from the original tropical environment to the northern border of the temperate zone (southern Canada), where Gaspé Flint was originally cultivated. Because of the trait differences between the two parental genotypes, this collection will serve as a permanent source of nearly isogenic materials for multiple studies of QTL analysis and cloning.</p

Searching for QTLs to enhance yield stability in durum wheat

none11noneMACCAFERRI M.; GRAZIANI M.; SANGUINETI M.C.; CORNETI S.; STEFANELLI S.; DEMONTIS A.; MASSI A.; PAUX E.; SALSE J.; FEUILLET C.; TUBEROSA R.MACCAFERRI M.; GRAZIANI M.; SANGUINETI M.C.; CORNETI S.; STEFANELLI S.; DEMONTIS A.; MASSI A.; PAUX E.; SALSE J.; FEUILLET C.; TUBEROSA R

Durum Wheat Pan-Transcriptome as a Bridge to Unravel Tetraploid and Hexaploid Wheat Gene Function and Evolution

This study presents the transcriptome analysis of 13 elite durum wheat varieties representatives of the worldwide cultivated germplasm. cDNA libraries were produced from roots, seedling leaves and developing grains. Based on the reference genome sequence assembly of durum wheat cv. Svevo, 75.0, 70.5 and 74.5% of high-confidence Svevo genes were expressed in grain, leaf and root, respectively. Principal Component Analysis (PCA) showed a gene expression clustering led by tissues and varietal ancestry. Differentially up- and down-regulated gene clusters based on tissues and varieties were identified. Functional enrichment analysis for three Gene Ontology terms showed that differentially expressed genes were significantly enriched in transport, kinase activity, binding, enzyme activity and protein metabolism. Variance expression analysis projected on the Svevo assembly revealed the chromosome regions that drove the major expression variation patterns. Clustering the gene expression profiles and the cultivar\u2019s expression profiles evidenced several gene expression patterns related to their co-ancestry, particularly for the grain. Towards a more complete assembly of a pan-transcriptome in durum, the cultivar-specific reads that could not be mapped on the Svevo genome (4-30% referred to Svevo Illumina sequencing data) are being de novo assembled. Further, using the transcriptome of the 13 varieties in relation to bread wheat reference genome (cv. Chinese Spring IWGSC RefSeq) we are currently investigating the gene loss/deletion during the polyploidisation events. Moreover, the availability of the genome assemblies of the 10+ Wheat Genomes Project, which includes cultivars that represent genetic diversity, will allow us to infer strong allele fixation events (allopolyploidisation bottleneck)