Molecular Biology and Genetics / Moleküler Biyoloji ve Genetik
Permanent URI for this collectionhttps://hdl.handle.net/11147/9
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Book Part Citation - WoS: 10Synteny Among Solanaceae Genomes(Springer, 2016) Frary, Amy; Doğanlar, Sami; Frary, AnneThe Solanaceae was among the first plant families to be analyzed via comparative mapping and thus was a pioneer in the realm of synteny studies. Analyses of chromosome content and organization have employed a range of techniques, including linkage mapping of genes and molecular markers, physical mapping via fluorescence in situ hybridization, and sequencing of relatively small genomic segments as well as the complete sequencing of the tomato genome. Early comparisons in the family involved tomato and its close relative potato and have extended outward to include eggplant, pepper, tobacco, and petunia. Not surprisingly, the degree of synteny among these species is a function of the time since their divergence, with inversion, translocation, and transposition being the chief mechanisms of chromosome rearrangement. The results of this work provide important insight into the modes and tempo of plant genome evolution while serving a practical purpose as well: knowledge of genome synteny and colinearity makes it easier to leverage resources from one species to another in this agronomically important family.Article Citation - WoS: 54Citation - Scopus: 61Qtl Hotspots in Eggplant (solanum Melongena) Detected With a High Resolution Map and Cim Analysis(Springer Verlag, 2014) Frary, Amy; Frary, Anne; Daunay, Marie Christine; Huvenaars, Koen; Mank, Rolf; Doğanlar, SamiFifty-eight F2 individuals derived from an interspecific cross between cultivated eggplant, Solanum melongena, and its wild relative, S. linnaeanum, were phenotyped for 42 plant, leaf, flower, and fruit traits. Composite interval mapping analysis using genotypic data from 736 molecular markers revealed the positions of 71 statistically significant (P ≤ 0.05) quantitative trait loci (QTL) influencing 32 of the morphological traits. Although most QTL were location-specific, QTL governing three traits (leaf lobing, leaf prickles and prickle anthocyanin) were detected in both experimental locations. Analysis of three additional traits (stem prickles, fruit calyx prickles and fruit length) in both locations yielded QTL in similar but non-overlapping map positions. The majority (69 %) of the QTL corresponded closely with those detected in previous analyses of this data set. However the increased resolution of the linkage map combined with advances in QTL mapping permitted more precise localization, such that the average interval length of these QTL was reduced by 93 %. Thirty-one percent of the QTL were novel, suggesting that simple linear regression with a low density linkage map (the method used in previous studies of this population) missed a substantial portion of significant QTL. Hotspots of QTL affecting plant hairiness, prickliness, and pigmentation were identified on chromosomes 3, 6, and 10, respectively, and may reflect the pleiotropic activity of single structural or regulatory genes at these positions. Based on synteny between the eggplant, tomato, potato and pepper genomes, putative orthologs were identified for 35 % of the QTL suggesting strong conservation of gene function within the Solanaceae. These results should make it easier to target particular loci for map-based cloning and marker-assisted selection studies.