Tomato Experiment

Researcher

Professor Irwin Goldman, Horticulture Department, UW-Madison

Description

A plant scientist is interested in finding out the location of genes which control various plant growth attributes. He is using molecular markers to do this. He thinks he has located a major gene for fruit weight (fw) close to marker tg430. The original experiment covered two years (yr), with 93 unique plant entries (entry). There were several replications each year. Unfortunately, the data now available to the scientist consists of the mean fruit weight (mfw), averaged across the replicates for each year. [The raw data are in notebooks halfway around the world!] The scientist believes a $\log_{10$ transformation ({\tt mfwlog) is reasonable, and has presented that data in that way. Nevertheless there are still 2 years of data for most entries. The marker tg430 can be used to classify entries into one of three categories, 1 = parent A, 3 = parent B, 2 = Hybrid of A and B (and . = missing marker value). The scientist is particularly interested in the `additive effect' (parent A -- parent B) and the `dominance effect' (Hybrid -- mean of parents). Note that if the dominance is zero, then the hybrid would be halfway between the two parents.

Reference

Goldman IL, Paran I and Zamir D (1995) `Quantitative trait locus anlaysis of a recombinant inbred line population derived from a Lycopersicon esculentum x Lycopersicon cheesmanii cross', Theoretical & Applied Genetics 90, 925-932.

Data & Setup

tomato.dat

entry yr mfwlog tg430

tomato.s

S: read data, one-factor analysis of variance, some contrasts

tomato.sink

S listing

tomato.sas

SAS code for reading and analysis

tomato.prt

SAS listing

tomeff.s

S: effect plots

Book Figures

tomhist.s

B: Tomato Histogram

tombox.s

B: Tomato Box-Plot

tomci.s

B: 95% Confidence Intervals by Allele