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An Integrated Web Resource for Cotton

^a Center for Applied Genetic Technologies, Univ. of Georgia, 111 Riverbend Rd., Athens, GA 30602
^b Dep. of Crop and Soil Sciences, Univ. of Georgia, Coastal Plain Experiment Station, Tifton, GA 31793
^c College of Agriculture and Life Sciences, North Carolina State Univ., Raleigh, NC 27695-8604
^d Dep. of Crop and Soil Sciences, The Univ. of Georgia, Georgia Station, Griffin Campus, Griffin, GA 30223

View larger version (52K): [in a new window]   Fig. 1. (A) The Cotton Diversity Database main page, (B) enlarged menu, and (C) navigation paths for data type and variety specific searches. Also, navigation to download datasets, informatic tools, and other information are illustrated.

View larger version (53K): [in a new window]   Fig. 2. The suite of performance trial data display screens beginning with (A) the performance trait search menu, (B) overall performance, and (C) performance by location displays. (D) The trial information display is also shown.

View larger version (65K): [in a new window]   Fig. 3. The suite of cotton genetic map display screens beginning with (A) the linkage group or chromosome and (B) molecular probe information displays. (C) The molecular probe search form is also shown. Arrows indicate display or form launches based on menu item or mapped object selection.

View larger version (77K): [in a new window]   Fig. 4. The OxfordGrid interface is employed to generate comparative pairwise views of the cotton AD and D genomes. (A) It opens with a dot-plot style view of the cotton genetic maps. A horizontal menu above the dot-plot allows the selection of either inter- or intragenomic pairwise views that are based on molecular markers common to both genomes and locations. (B) A mouse click over a selected cell launches an enlarged view of the chosen combination of linkage groups and chromosomes and (C) in this display, a mouse click over a probe location pair launches detailed views of the associated cotton genetic map regions.

View larger version (58K): [in a new window]   Fig. 5. The suite of phylogenetic tree display screens. In this resource, it is used to display genetic diversity data in an interactive fashion. (A) The initial display shows the complete phylogenetic tree associated with molecular marker analysis based genetic diversity data. (B) Subtree display can be generated by a mouse click over the selected node as indicated by the dashed arrows. Also, an interactive tree-cutting feature provides a color-coded indication of clusters associated with the user selectable depth for tree cutting.

View larger version (55K): [in a new window]   Fig. 6. Display screens (B through D) for the key data types are shown with possible exploration paths indicated by black arrows. Explorations can begin with accession selection in (A) the genotype portal and then proceed to (B) the pedigree, (C) performance trait ranking, or (D) the genetic diversity tree-clusters display.