Microarray-based optimization to detect genomic deletion mutations

Eric J Belfield; Carly Brown; Xiangchao Gan; Caifu Jiang; Dilair Baban; Aziz Mithani; Richard Mott; Jiannis Ragoussis; Nicholas P Harberd

doi:10.1016/j.gdata.2014.04.005

Microarray-based optimization to detect genomic deletion mutations

Genom Data. 2014 Dec:2:53-54. doi: 10.1016/j.gdata.2014.04.005.

Authors

Eric J Belfield¹, Carly Brown¹, Xiangchao Gan², Caifu Jiang¹, Dilair Baban³, Aziz Mithani⁴, Richard Mott³, Jiannis Ragoussis⁵, Nicholas P Harberd¹

Affiliations

¹ Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK.
² Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK ; Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK ; Max Planck Institute for Plant Breeding Research, Carl-von-Linné-Weg, Cologne 50829, Germany.
³ Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK.
⁴ Department of Plant Sciences, University of Oxford, South Parks Road, Oxford OX1 3RB, UK ; Department of Biology, LUMS School of Science and Engineering, Sector UDHA, Lahore 54792, Pakistan.
⁵ Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK ; McGill University and Genome Quebec Innovation Centre, 740 DR Penfield Ave., Montreal H3A 0G1, Canada.

Abstract

We performed array comparative genome hybridization (aCGH) analyses of five Arabidopsis thaliana mutants with genomic deletions ranging in size from 4 bp to > 5 kb. We used the Roche NimbleGen Arabidopsis CGH 3 × 720 K whole genome custom tiling array to optimize deletion detection. Details of the microarray design and hybridization data have been deposited at the NCBI GEO repository with accession number GSE55327.

Keywords: CGH; Deletion; Genome; Microarray; Mutation.

Grants and funding

BB/F020759/1/BB_/Biotechnology and Biological Sciences Research Council/United Kingdom