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Methods

Correct Estimation of Preferential Chromosome Pairing in Autotetraploids

¹ Department of Statistics and Purdue University, West Lafayette, Indiana 47907, USA ² Department of Agronomy, Purdue University, West Lafayette, Indiana 47907, USA ³ Department of Agronomy, University of Wisconsin, Madison, Wisconsin 53706, USA

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.

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

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