Maize Inbreds Exhibit High Levels of Copy Number Variation (CNV) and Presence/Absence Variation (PAV) in Genome Content

Date
2009-11-20
Authors
Springer, Nathan
Ying, Kai
Fu, Yan
Ji, Tieming
Yeh, Cheng-Ting
Jia, Yi
Wu, Wei
Richmond, Todd
Kitzman, Jacob
Rosenbaum, Heidi
Iniguez, A. Leonardo
Barbazuk, W. Brad
Jeddeloh, Jeffrey
Nettleton, Daniel
Schnable, Patrick
Journal Title
Journal ISSN
Volume Title
Publisher
Altmetrics
Authors
Research Projects
Organizational Units
Agronomy
Organizational Unit
Statistics
Organizational Unit
Journal Issue
Series
Abstract

Following the domestication of maize over the past ∼10,000 years, breeders have exploited the extensive genetic diversity of this species to mold its phenotype to meet human needs. The extent of structural variation, including copy number variation (CNV) and presence/absence variation (PAV), which are thought to contribute to the extraordinary phenotypic diversity and plasticity of this important crop, have not been elucidated. Whole-genome, array-based, comparative genomic hybridization (CGH) revealed a level of structural diversity between the inbred lines B73 and Mo17 that is unprecedented among higher eukaryotes. A detailed analysis of altered segments of DNA conservatively estimates that there are several hundred CNV sequences among the two genotypes, as well as several thousand PAV sequences that are present in B73 but not Mo17. Haplotype-specific PAVs contain hundreds of single-copy, expressed genes that may contribute to heterosis and to the extraordinary phenotypic diversity of this important crop.

Description

This article is from PLoS Genet 5(11): e1000734. doi:10.1371/journal.pgen.1000734. Posted with permission.

Keywords
Plant genomics, Maize, Sequence alignment, Genomic libraries, Genomic signal processing, Probe hybridization, Haplotypes, Inbred strains
Citation
DOI
Collections