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United States Department of Agriculture

Agricultural Research Service

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Research Project: Bac End Sequencing of Tm-1clones: An Important Tool for Assembling the Cotton Genome (Ci Project No: 12-249)

Location: Genomics and Bioinformatics Research Unit

Project Number: 6402-21310-004-14
Project Type: Trust

Start Date: Jan 01, 2012
End Date: Dec 31, 2012

Objective:
In order to facilitate the sequencing and assembly of the genome of cultivated cotton, DNA sequences are needed that will act as long scaffolding of the assembly process. Ideally some of these would be generated from ends of DNA fragments that range from 100,000 bp to 160,000 bp. This project will generate Bacterial Artificial Chromosome (BAC) end sequene flow 40,000 to 50,000 BACs.

Approach:
The DNA segments are to be cloned into a Bacterial Artificial Chromosome (BAC) vector. The BAC libraries are being made by Clemson University Genomics Institute in conjunction with an ongoing National Science Foundation (NSF) project on cotton fiber. DNA sequences will be generated from each end of the DNA fragment and will be recorded as pairs to allow for genome assembly software to use them as paired end reads. The DNA source will be Tm-1 which is a variety of scientific importance to the cotton research community. Clemson University will be producing DNA fingerprints from the BACS and that DNA will be used to generate BAC end DNA sequence of 40,000 BACs. The data will be released following standard ARS policies in regard to DNA sequence information.

Last Modified: 7/25/2014
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