Tandem Duplicate Genes in Maize Are Abundant and Date to Two Distinct Periods of Time

G3: Genes, Genomes, Genetics

article

Thomas J.Y. Kono¹  Alex B. Brohammer¹  Suzanne E. McGaugh²  Candice N. Hirsch¹ 

[1] Department of Agronomy and Plant Genetics;Department of Ecology, Evolution, and Behavior, University of Minnesota, Saint Paul, MN 55108

关键词: maize;    tandem duplicate;    genome evolution;    copy number variation;    transposable element;   

DOI  :  10.1534/g3.118.200580

学科分类：社会科学、人文和艺术（综合）

来源: Genetics Society of America

【 摘 要 】

Tandem duplicate genes are proximally duplicated and as such occur in similar genomic neighborhoods. Using the maize B73 and PH207 de novo genome assemblies, we identified thousands of tandem gene duplicates that account for ∼10% of the annotated genes. These tandem duplicates have a bimodal distribution of ages, which coincide with ancient allopolyploidization and more recent domestication. Tandem duplicates are smaller on average and have a higher probability of containing LTR elements than other genes, suggesting origins in nonhomologous recombination. Within relatively recent tandem duplicate genes, ∼26% appear to be undergoing degeneration or divergence in function from the ancestral copy. Our results show that tandem duplicates are abundant in maize, arose in bursts throughout maize evolutionary history under multiple potential mechanisms, and may provide a substrate for novel phenotypic variation.

【 授权许可】

CC BY|CC BY-NC