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Design and comparison of gene-pyramiding schemes in animals

Published online by Cambridge University Press:  01 August 2009

F. P. Zhao
Affiliation:
State Key Laboratory for Agrobiotechnology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China
L. Jiang
Affiliation:
State Key Laboratory for Agrobiotechnology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China
H. J. Gao
Affiliation:
State Key Laboratory for Agrobiotechnology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China College of Animal Science and Technology, Northeast Agricultural University, Harbin, 100530, China
X. D. Ding
Affiliation:
State Key Laboratory for Agrobiotechnology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China
Q. Zhang*
Affiliation:
State Key Laboratory for Agrobiotechnology, Key Laboratory of Animal Genetics and Breeding of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China
*

Abstract

Marker-assisted gene pyramiding provides a promising way to develop new animal breeds or lines, in which genes responsible for certain favorable characters identified in different breeds or lines are incorporated. In consideration of features of animal populations, we proposed five schemes for pyramiding three genes, denoted Scheme A–E, and five schemes for pyramiding four genes, denoted Scheme F–J. These schemes are representative of the possible alternatives. We also provided an algorithm to compute the population sizes needed in each generation. We compared these schemes with respect to the total population size and the number of generations required under different situations. The results show that there is no scheme that is optimal in all cases. Among the schemes for pyramiding three genes from three lines (L1, L2 and L3), Scheme D (a three-way cross between the three lines are first performed, followed by a backcross to L1 and a subsequent intercross to obtain the desired genotype) has a significant advantage over the other schemes when the recombination rate between adjacent genes ranges from 0.1 to 0.4, while Scheme A (a two-way cross between L1 and L2 and a subsequent intercross are performed, followed by a cross with L3 and a subsequent intercross to obtain the desired genotype) is optimal when recombination rate is 0.5. Among schemes for pyramiding four genes from four lines (L1, L2, L3 and L4), Scheme I (seperately, a two-way cross between L1 and L2 (L3 and L4) followed by a backcross to L1 (L3) and a subsequent intercross are performed, then the offspring from the two sides are crossed and followed by a backcross to L1 and a subsequent intercross to obtain the desired genotype) is optimal when the recombination rate ranges from 0.1 to 0.4, while Scheme F (cross and subsequent intercross between the four lines are performed successively) is the optimal when the recombination rate is 0.5. We also disscuss how the animals’ reproductive capacity, the probabilities of obtaining the desired genotypes and genetic distance between adjacent genes would affect the design of an optimal scheme.

Information

Type
Full Paper
Copyright
Copyright © The Animal Consortium 2009
Figure 0

Figure 1 Schematic diagram of gene pyramiding (Servin et al., 2004).

Figure 1

Table 1 Three cross types and their features with respect to the requirement of recombination or non-recombination events in parents for producing gametes carrying required target genes

Figure 2

Figure 2 Schemes for pyramiding three target genes. L1, L2 and L3 represent different lines carrying the three target genes, respectively. B represents a blank line without any target genes. The target genes are represented by solid circles, their corresponding alleles are represented by shaded rectangles.

Figure 3

Figure 3 Schemes for pyramiding four target genes. L1, L2, L3 and L4 represent different lines carrying the four target genes, respectively. The target genes are represented by solid circles, their corresponding alleles are represented by shaded rectangles.

Figure 4

Table 2 Cross types used in schemes for pyramiding three genes

Figure 5

Table 3 Cross types used in schemes for pyramiding four genes

Figure 6

Figure 4 Population size needed at each node for obtaining one ideotype. n represents the population size needed for obtaining a single individual with required genotype at each node, N represents the actual population size needed at each node. nm and nf respresent the number of male and female individuals with required genotype needed at each node, respectively. It is assumed that the genetic distances between all adjacent target genes are the same with the recombination rate of 0.2, the overall probability of success is 95% and the ratio of male : female : offspring is 1 : 10 : 100.

Figure 7

Table 4 The population sizes required in each generation and the total population size when cumulating three genes of interest

Figure 8

Table 5 The population sizes required in each generation and the total population size when cumulating four genes of interest

Figure 9

Figure 5 A pyramiding scheme for the case where the recombination rates between the four target genes are unequal. g3 and g4 are on the same chromosome with recombination rate of 0.1, g1 and g2 are on other two different chromosomes.