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Iowa State University

Plant Sciences

Ecology, Evolution and Organismal Biology Publications

Allopolyploidy

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Cis–Trans Controls And Regulatory Novelty Accompanying Allopolyploidization, Guanjing Hu, Jonathan F. Wendel Oct 2018

Cis–Trans Controls And Regulatory Novelty Accompanying Allopolyploidization, Guanjing Hu, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

Allopolyploidy is a prevalent process in plants, having important physiological, ecological, and evolutionary consequences. Transcriptomic responses to genomic merger and doubling have been demonstrated in many allopolyploid systems, encompassing a diversity of phenomena including homoeolog expression bias, genome dominance, expression‐level dominance, and revamping of co‐expression networks. Notwithstanding the foregoing, there remains a need to develop a conceptual framework that will stimulate a deeper understanding of these diverse phenomena and their mechanistic interrelationships. Here we introduce considerations relevant to this framework with a focus on cistrans interactions among duplicated genes and alleles in hybrids and allopolyploids. By extending ...


Targeted Capture Of Homoeologous Coding And Noncoding Sequence In Polyploid Cotton, Armel Salmon, Joshua A. Udall, Jeffrey A. Jeddeloh, Jonathan F. Wendel Aug 2012

Targeted Capture Of Homoeologous Coding And Noncoding Sequence In Polyploid Cotton, Armel Salmon, Joshua A. Udall, Jeffrey A. Jeddeloh, Jonathan F. Wendel

Ecology, Evolution and Organismal Biology Publications

Targeted sequence capture is a promising technology in many areas in biology. These methods enable efficient and relatively inexpensive sequencing of hundreds to thousands of genes or genomic regions from many more individuals than is practical using whole-genome sequencing approaches. Here, we demonstrate the feasibility of target enrichment using sequence capture in polyploid cotton. To capture and sequence both members of each gene pair (homeologs) of wild and domesticated Gossypium hirsutum, we created custom hybridization probes to target 1000 genes (500 pairs of homeologs) using information from the cotton transcriptome. Two widely divergent samples of G. hirsutum were hybridized to ...