Bio-economic Modeling for Swine Genomic Selection Index Design and Multi-Generational Response Simulation
Abstract
The selection index is related to the efficiency and direction of genetic improvement for livestock. Nevertheless, specialized software that employs multiple bio-economic models to design and compute the selection index and predict the multi-generational selection response is still lacking. In this study, to meet the needs of pig breeding programs, visualized multivariate model-based software for pig selection index design and computation, CSIP, was developed to rapidly construct a selection index that is applicable to different pig breeding systems, such as farrow-to-finish herds, single pure-line, two-way cross, and three-way cross breeding programs, and to predict multi-generational selection response. The main advantages of CSIP include full-process visualization for the design of a selection index, which increases transparency and user comprehension; incorporation of multi-generational selection response, which facilitates the proactive mitigation of antagonistic trait response and suboptimal genetic gain; integration of gene flow and economic weight sensitivity analysis, which increases robustness and prevents errors in economic weight calculation; and an accessible, workflow-based interface that supports flexible calculation strategies to accommodate diverse practical breeding scenarios. These features position CSIP as an innovative tool for increasing the precision, efficiency, and economic viability of pig breeding programs.
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