A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding.

Consensus linkage maps are important tools in crop genomics. We have assembled a high-density tetraploid wheat consensus map by integrating 13 data sets from independent biparental populations involving durum wheat cultivars (Triticum turgidum ssp. durum), cultivated emmer (T. turgidum ssp. dicoccum) and their ancestor (wild emmer, T. turgidum ssp. dicoccoides). The consensus map harboured 30 144 markers (including 26 626 SNPs and 791 SSRs) half of which were present in at least two component maps. The final map spanned 2631 cM of all 14 durum wheat chromosomes and, differently from the individual component maps, all markers fell within the 14 linkage groups. Marker density per genetic distance unit peaked at centromeric regions, likely due to a combination of low recombination rate in the centromeric regions and even gene distribution along the chromosomes. Comparisons with bread wheat indicated fewer regions with recombination suppression, making this consensus map valuable for mapping in the A and B genomes of both durum and bread wheat. Sequence similarity analysis allowed us to relate mapped gene-derived SNPs to chromosome-specific transcripts. Dense patterns of homeologous relationships have been established between the A- and B-genome maps and between nonsyntenic homeologous chromosome regions as well, the latter tracing to ancient translocation events. The gene-based homeologous relationships are valuable to infer the map location of homeologs of target loci/QTLs. Because most SNP and SSR markers were previously mapped in bread wheat, this consensus map will facilitate a more effective integration and exploitation of genes and QTL for wheat breeding purposes.

Physiological Adaptation to Water Salinity in Six Wild Halophytes Suitable for Mediterranean Agriculture.

Owing to the high interspecific biodiversity, halophytes have been regarded as a tool for understanding salt tolerance mechanisms in plants in view of their adaptation to climate change. The present study addressed the physiological response to salinity of six halophyte species common in the Mediterranean area: Artemisia absinthium, Artemisia vulgaris, Atriplex halimus, Chenopodium album, Salsola komarovii, and Sanguisorba minor. A 161-day pot experiment was conducted, watering the plants with solutions at increasing NaCl concentration (control, 100, 200, 300 and 600 mM). Fresh weight (FW), leaf stomatal conductance (GS), relative water content (RWC) and water potential (WP) were measured. A principal component analysis (PCA) was used to describe the relationships involving the variables that accounted for data variance. A. halimus was shown to be the species most resilient to salinity, being able to maintain FW up to 300 mM, and RWC and WP up to 600 mM; it was followed by C. album. Compared to them, A. vulgaris and S. komarovii showed intermediate performances, achieving the highest FW (A. vulgaris) and GS (S. komarovii) under salinity. Lastly, S. minor and A. absinthium exhibited the most severe effects with a steep drop in GS and RWC. Lower WP values appeared to be associated with best halophyte performances under the highest salinity levels, i.e., 300 and 600 mM NaCl.

Real-time quantification of wild-type contaminants in glyphosate tolerant soybean.

BACKGROUND: Trait purity is a key factor for the successful utilization of biotech varieties and is currently assessed by analysis of individual seeds or plants. Here we propose a novel PCR-based approach to test trait purity that can be applied to bulk samples. To this aim the insertion site of a transgene is characterized and the corresponding sequence of the wild-type (wt) allele is used as diagnostic target for amplification. As a demonstration, we developed a real-time quantitative PCR method to test purity of glyphosate tolerant (Roundup Ready, RR) soybean. RESULTS: The soybean wt sequence at the RR locus was characterized and found to be highly conserved among conventional genotypes, thus allowing the detection of possibly any soybean non-trait contaminant. On the other hand, no amplification product was obtained from RR soybean varieties, indicating that the wt sequence is single copy and represents a suitable marker of conventional soybean presence. In addition, results obtained from the analysis of wt-spiked RR samples demonstrate that it is possible to use the real-time PCR assay to quantify the non-trait contamination with an acceptable degree of accuracy. CONCLUSION: In principle this approach could be successfully applied to any transgenic event, provided that the wild-type sequence is conserved and single copy. The main advantages of the assay here described derive from its applicability to bulk samples, which would allow to increase the number of single seeds or plants forming the analytical sample, thus improving accuracy and throughput while containing costs. For these reasons this application of quantitative PCR could represent a useful tool in agricultural biotechnology.

Data on seed germination using LED versus fluorescent light under growth chamber conditions.

The present investigation attempted to assess the influence of two light sources, LED versus fluorescent light, on seed germination of nine aromatic species belonging to the genus Artemisia, Atriplex, Chenopodium, Salicornia, Sanguisorba, Portulaca and Rosmarinus. Pre-germination test was carried out in petri dishes, evidencing the need to overcome seed dormancy through cold stratification in Salicornia europaea. Thereafter, seeds were germinated in small trays with peat moss substrate in two growth chambers illuminated with either LED or fluorescent light featuring similar photosynthetic photon flux density. Germination lasted 20 days, during which time five indexes of germination performance (germination percentage, speed of germination, germination energy, germination rate index, and mean daily germination) were evaluated. At the end, shoot length and seedling fresh weight were assessed as early growth traits. Data are made available to allow critical evaluation of experimental outcome.