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Perturbations in Genetic Networks and Gene Expression


Overview | Procedures | Genetic Networks | cis and trans effects | People | Publications

Overview

Reveal perturbations in genetic networks and gene expression associated with naturally-occurring variation in fiber phenotypes using the introgression lines.

Here we combine the phenotypically selected, near-isogenic lines generated under component 1 with the novel, custom microarray developed under component 2. The combination of QTL mapping and arraying is an especially powerful approach to discovering genes underlying traits of interest. As demonstrated in tomato, this strategy is particularly effective using NILs, which effectively isolate and thereby permit the study of the effects of small chromosomal segments on phenotypes and genetic networks. Recalling that we will tile the genome using four different populations of NILs, representing two parallel domestications and reciprocal interspecific NILs between advanced cultivars of G. barbadense and G. hirsutum, lines will be phenotypically evaluated as described above. To demonstrate the power of this combined mapping/arraying approach, we will select 10-15 lines (representing 10-15 chromosomal segments) from each of the four populations for further study. While it is not possible to describe the morphology of these 40-60 NILs a priori, we will focus on those that show striking differences from the recurrent parent in key fiber quality components (e.g., length, fineness), giving preference to introgressed segments of minimal genomic length. We also will endeavor to select reciprocally introgressant lines in at least two cases for the Maxxa/Pima and Pima/Maxxa NILs, and two parallel chromosomal regions for the wild vs. cultivated NILs in both species. The former will allow a novel test of homoeology equivalence, and the latter will provide an exciting evaluation of parallel domestication.


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