| Abstract Detail
Emerging Technologies Varala, Kranthi [1], Swaminathan, Kankshita [1], Gene, Robinson [2], Amy, Toth [2], Hudson, Matthew [3]. Using next-generation sequencing to speed non-model organism genomics. Extensive computational and database tools are available to mine genomic and genetic databases for model organisms, but little genomic data is available for many species of ecological or agricultural significance, especially those with large genomes. Genome surveys using conventional sequencing techniques are time-consuming and have potential drawbacks. High throughput 454 sequencing provides an alternative method by which much information can be gained quickly and cheaply from high-coverage surveys of genomic DNA.
454 survey sequence data, when combined with the informatics tools we have developed, allows the detection of copy number of repeats, detection of gene copy number polymorphisms, and discovery of repeats and higher-order structures within satellite repeats. This approach provides a potential aid to conventional or shotgun genome assembly, by allowing rapid assessment of copy number in any clone or clone-end sequence. Ultimately we aim to produce low-cost genome sequences of non-model organisms using this method.
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Related Links:
project web site
1 - University of Illinois, Crop Sciences
2 - University of Illinois, IGB, entomology
3 - University of Illinois, Crop Sciences, 334 Nsrc, 1101 W. Peabody Blvd., Urbana, IL, 61820, USA
Keywords:
next-generation sequencing
genomics
bioinformatics.
Presentation Type: Plant Biology Abstract
Session: P
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM
Number: P44024
Abstract ID:2669 |
