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BioMed Central, Genome Biology, 1(11), p. R4

DOI: 10.1186/gb-2010-11-1-r4

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Substantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays

Journal article published in 2010 by Luca Santuari, Sylvain Pradervand, Amelia-Maria Amiguet-Vercher, Jerôme Thomas, Eavan Dorcey, Keith Harshman, Ioannis Xenarios ORCID, Thomas E. Juenger, Christian S. Hardtke
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Identification of small polymorphisms from next generation sequencing short read data is relatively easy, but detection of larger deletions is less straightforward. Here, we analyzed four divergent Arabidopsis accessions and found that intersection of absent short read coverage with weak tiling array hybridization signal reliably flags deletions. Interestingly, individual deletions were frequently observed in two or more of the accessions examined, suggesting that variation in gene content partly reflects a common history of deletion events.