Correct Estimation of Preferential Chromosome Pairing in Autotetraploids

  1. Dachuang Cao1,
  2. Thomas C. Osborn3, and
  3. Rebecca W. Doerge1,2,4
  1. 1 Department of Statistics and Purdue University, West Lafayette, Indiana 47907, USA
  2. 2 Department of Agronomy, Purdue University, West Lafayette, Indiana 47907, USA
  3. 3 Department of Agronomy, University of Wisconsin, Madison, Wisconsin 53706, USA

Abstract

In recent work, a statistical model was proposed for the purpose of estimating parameters associated with quantitative trait locus (QTL) mapping and preferential pairing within a polyploidy framework. The statistical model contained several parameters that, when estimated from experimental data, supplied information about QTL, including a preferential pairing factor. Among the results reported were estimates of preferential pairing, many of which indicated high levels of preferential pairing (p = 0.60) that were inconsistent with biological expectations. By using the biological inconsistencies as our motivation, we present a reformulated statistical method for estimating preferential pairing, and use this method to reanalyze the same autotetraploid alfalfa data and to conduct a simulation study. Our results directly contradict the current findings of significant preferential pairing and affirm the traditional view of random chromosome segregation in alfalfa.

Footnotes

  • Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.1596604. Article published online before print in February 2004.

  • ↵4 Corresponding author. E-MAIL doerge{at}purdue.edu; FAX (765) 494-0558.

    • Accepted December 10, 2003.
    • Received May 27, 2003.
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  1. Published in Advance February 12, 2004, doi: 10.1101/gr.1596604 Genome Res. 14: 459-462 Cold Spring Harbor Laboratory Press

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