Sequencing the maize genome

Martienssen, R. A., Rabinowicz, P. D., O'Shaughnessy, A., McCombie, W. R. (2004) Sequencing the maize genome. Current Opinion in Plant Biology, 7 (2). pp. 102-107. ISSN 13695266 (ISSN)

URL: http://www.ncbi.nlm.nih.gov/pubmed/15003207
DOI: 10.1016/j.pbi.2004.01.010

Abstract

Sequencing of complex genomes can be accomplished by enriching shotgun libraries for genes. In maize, gene-enrichment by copy-number normalization (high C0t) and methylation filtration (MF) have been used to generate up to two-fold coverage of the gene-space with less than 1 million sequencing reads. Simulations using sequenced bacterial artificial chromosome (BAC) clones predict that 5x coverage of gene-rich regions, accompanied by less than 1x coverage of subclones from BAC contigs, will generate high-quality mapped sequence that meets the needs of geneticists while accommodating unusually high levels of structural polymorphism. By sequencing several inbred strains, we propose a strategy for capturing this polymorphism to investigate hybrid vigor or heterosis.

Item Type: Paper
Uncontrolled Keywords: BAC Bacterial artificial chromosome C0 DNA concentration at time zero EST Expressed sequence tag Methylation filtration MF Re-association time t chromosome map genetics genome maize methodology review Chromosomes, Artificial, Bacterial Genome, Plant Physical Chromosome Mapping Zea mays Bacteria (microorganisms) Embryophyta
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
organism description > plant > maize
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes
organism description > plant
CSHL Authors:
Communities: CSHL labs > Martienssen lab
CSHL labs > McCombie lab
Depositing User: Matt Covey
Date Deposited: 23 Apr 2013 15:18
Last Modified: 23 Apr 2013 15:18
Related URLs:
URI: http://repository.cshl.edu/id/eprint/28246

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