3 Works

Data from: A whole-transcriptome approach to evaluating reference genes for quantitative gene expression studies: a case study in Mimulus

Kimmy A. Stanton, Patrick P. Edger, Joshua R. Puzey, Taliesin Kinser, Philip Cheng, Daniel M. Vernon, Nancy R. Forsthoefel & Arielle M. Cooley
While quantitative PCR (qPCR) is widely recognized as being among the most accurate methods for quantifying gene expression, it is highly dependent on the use of reliable, stably expressed reference genes. With the increased availability of high-throughput methods for measuring gene expression, whole-transcriptome approaches may be increasingly utilized for reference gene selection and validation. In this study, RNA-seq was used to identify a set of novel qPCR reference genes and evaluate a panel of traditional...

Data from: Subgenome dominance in an interspecific hybrid, synthetic allopolyploid, and a 140-year-old naturally established neo-allopolyploid monkeyflower

Patrick P. Edger, Ronald D. Smith, Michael R. McKain, Arielle M. Cooley, Mario Vallejo-Marin, Yao-Wu Yuan, Adam J. Bewick, Lexiang Ji, Adrian E. Platts, Megan J. Bowman, Kevin Childs, Jacob D. Washburn, Robert Schmitz, Gregory D. Smith, J. Chris Pires & Joshua R. Puzey
Recent studies have shown that one of the parental subgenomes in ancient polyploids is generally more dominant - having both retained more genes and being more highly expressed - a phenomenon termed subgenome dominance. The genomic features that determine how quickly and which subgenome dominates within a newly formed polyploid remain poorly understood. To investigate the rate of subgenome dominance emergence, we examined gene expression, gene methylation, and transposable element (TE) methylation in a natural,...

Data from: Strongly asymmetric hybridization barriers shape the origin of a new polyploid species and its hybrid ancestor

Mario Vallejo-Marin, Arielle M. Cooley, Michelle Yuequi Lee, Madison Folmer, Michael R. McKain & Joshua Robert Puzey
PREMISE OF THE STUDY: Hybridization between diploids and tetraploids can lead to new allopolyploid species, often via a triploid intermediate. Viable triploids are often produced asymmetrically, with greater success observed for “maternal-excess” crosses where the mother has a higher ploidy than the father. Here we investigated the evolutionary origins of Mimulus peregrinus, an allohexaploid recently derived from the triploid M. ×robertsii, to determine whether reproductive asymmetry has shaped the formation of this new species. METHODS:...

Registration Year

  • 2017
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  • Dataset
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Affiliations

  • College of William & Mary
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  • Whitman College
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  • Donald Danforth Plant Science Center
    2
  • University of Stirling
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  • Michigan State University
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  • McGill University
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  • University of Georgia
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  • University of Connecticut
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  • University of Missouri
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