Open Access Research article

QTL affecting stress response to crowding in a rainbow trout broodstock population

Caird E Rexroad*, Roger L Vallejo, Sixin Liu, Yniv Palti and Gregory M Weber

Author Affiliations

USDA/ARS National Center for Cool and Cold Water Aquaculture, Leetown, WV, USA

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BMC Genetics 2012, 13:97  doi:10.1186/1471-2156-13-97

Published: 7 November 2012

Additional files

Additional file 1:

STR loci testing for Mendelian segregation distortion (MSD). In outbred populations, the progeny of an informative QTL mapping family can have any of these marker genotype proportions: 1:1; 1:2:1 and 1:1:1:1. Within each of seven FS families, the marker genotype counts were performed using a Perl script (Written by G. GAO, unpublished). Then , the STR loci were tested for MSD using Chi-Square goodness-of-fit test of marker genotype counts to expected proportions under Mendelian segregation with SAS Procedure FREQ (SAS, 2007) using a default significance level of α = 0.01.

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Additional file 2:

QTL location and effect for stress response trait0073. Summary of QTL location and effect for stress response traits using combined sire (and dam) half-sib family regression analysis performed with software GridQTL (Seaton et al. 2006). The QTL effect is expressed in ng/mL of plasma cortisol, and the allele substitution effect for each parent was tested using a one-sided t-test (testing absolute t-values) with one DF. Within each trait QTL group, the sire or dam parent that is most likely segregating the QTL allele is indicated with an asterisk (*), and the parent with the lowest P-value is bold text highlighted. The average QTL location was determined using 10000 bootstraps with re-sampling.

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