Identification of SNP and SSR markers in eggplant using RAD tag sequencing

<p>Abstract</p> <p>Background</p> <p>The eggplant (<it>Solanum melongena </it>L.) genome is relatively unexplored, especially compared to those of the other major <it>Solanaceae </it>crops tomato and potato. In particular, no SNP markers are publicly available; on the other hand, over 1,000 SSR markers were developed and publicly available. We have combined the recently developed Restriction-site Associated DNA (RAD) approach with Illumina DNA sequencing for rapid and mass discovery of both SNP and SSR markers for eggplant.</p> <p>Results</p> <p>RAD tags were generated from the genomic DNA of a pair of eggplant mapping parents, and sequenced to produce ~17.5 Mb of sequences arrangeable into ~78,000 contigs. The resulting non-redundant genomic sequence dataset consisted of ~45,000 sequences, of which ~29% were putative coding sequences and ~70% were in common between the mapping parents. The shared sequences allowed the discovery of ~10,000 SNPs and nearly 1,000 indels, equivalent to a SNP frequency of 0.8 per Kb and an indel frequency of 0.07 per Kb. Over 2,000 of the SNPs are likely to be mappable via the Illumina GoldenGate assay. A subset of 384 SNPs was used to successfully fingerprint a panel of eggplant germplasm, producing a set of informative diversity data. The RAD sequences also included nearly 2,000 putative SSRs, and primer pairs were designed to amplify 1,155 loci.</p> <p>Conclusion</p> <p>The high throughput sequencing of the RAD tags allowed the discovery of a large number of DNA markers, which will prove useful for extending our current knowledge of the genome organization of eggplant, for assisting in marker-aided selection and for carrying out comparative genomic analyses within the <it>Solanaceae </it>family.</p

Temperature-Dependent Development and Degree-Day Model of European Leaf Roller, Archips Rosanus

The effect of temperature on the duration of larval, prepupal, and pupal development of the European leaf roller, Archips rosanus L. (Lepidoptera: Tortricidae) was studied at four constant temperatures (18, 22, 26, and 30°C) where Malus communis L. (apple, Stark Crimson) was used as food. Significant positive linear relationships were observed between development rate and temperature for all life stages. Minimum developmental threshold temperatures were estimated as 5.5-6.7°C for first stages, 5.8-5.7°C for second stages, 5.1-6.3°C for prepupae, and 8.1-6.3°C for pupae, male and female, respectively. Lower threshold of complete development of adult was estimated as 6.05°C (male) and 6.0°C (female). Median development values of degree-days (DD) for first stages, second stages, prepupae, pupae and complete preimaginal development were 57.5-55.2, 55.2-66.2, 33.1-33.9, 137-175.4 and 476.2-526 for male and female, respectively. A degree-day model was developed using from the laboratory data for predicting the first emergence of the pest and spray application time. Estimated degree-day model predicted the emergence within 3-7 days of that observed at the field site in both 2001 and 2002. Accordingly, the degree-day model will be useful to predict the first emergence dates, optimum spray period and to provide a starting point to catches in pheromone traps in the summer for A. rosanus. © 2008, Versita. All rights reserved

Glycyrrhiza glabra protects the liver hepatocytes from the volatile organic compounds

52nd Congress of the European-Societies-of-Toxicology (EUROTOX) -- SEP 04-07, 2016 -- Seville, SPAINWOS: 000402436700535…European Soc Toxico

Seasonal variation of pesticide accumulation and heat shock protein expressions in blood of people live in monoculture rice farming area in Edirne-Turkiye

52nd Congress of the European-Societies-of-Toxicology (EUROTOX) -- SEP 04-07, 2016 -- Seville, SPAIN -- European Soc Toxicol[Abstract Not Available][TUBITAK-214Z056]This study supported by TUBITAK-214Z056.WOS:00040243670066