具有重组的有害背景选择
Deleterious background selection with recombination.
作者信息
Hudson R R, Kaplan N L
机构信息
Department of Ecology and Evolutionary Biology, University of California, Irvine 92717, USA.
出版信息
Genetics. 1995 Dec;141(4):1605-17. doi: 10.1093/genetics/141.4.1605.
Abstract
An analytic expression for the expected nucleotide diversity is obtained for a neutral locus in a region with deleterious mutation and recombination. Our analytic results are used to predict levels of variation for the entire third chromosome of Drosophila melanogaster. The predictions are consistent with the low levels of variation that have been observed at loci near the centromeres of the third chromosome of D. melanogaster. However, the low levels of variation observed near the tips of this chromosome are not predicted using currently available estimates of the deleterious mutation rate and of selection coefficients. If considerably smaller selection coefficients are assumed, the low observed levels of variation at the tips of the third chromosome are consistent with the background selection model.
摘要
对于存在有害突变和重组的区域中的中性基因座，获得了预期核苷酸多样性的解析表达式。我们的分析结果用于预测黑腹果蝇整个第三条染色体的变异水平。这些预测与在黑腹果蝇第三条染色体着丝粒附近基因座观察到的低变异水平一致。然而，使用目前可用的有害突变率和选择系数估计值，无法预测在这条染色体末端附近观察到的低变异水平。如果假设选择系数小得多，那么在第三条染色体末端观察到的低变异水平与背景选择模型一致。
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本文引用的文献
1
The mutational load with epistatic gene interactions in fitness.
Genetics. 1966 Dec;54(6):1337-51. doi: 10.1093/genetics/54.6.1337.
2
Variation at the 87A heat shock locus in Drosophila melanogaster.
Proc Natl Acad Sci U S A. 1983 Sep;80(17):5350-4. doi: 10.1073/pnas.80.17.5350.
3
The effect of deleterious mutations on neutral molecular variation.
Genetics. 1993 Aug;134(4):1289-303. doi: 10.1093/genetics/134.4.1289.
4
How can the low levels of DNA sequence variation in regions of the drosophila genome with low recombination rates be explained?
Proc Natl Acad Sci U S A. 1994 Jul 19;91(15):6815-8. doi: 10.1073/pnas.91.15.6815.
5
Evolutionary relationship of DNA sequences in finite populations.
Genetics. 1983 Oct;105(2):437-60. doi: 10.1093/genetics/105.2.437.
6
Molecular genetic variation in the centromeric region of the X chromosome in three Drosophila ananassae populations. I. Contrasts between the vermilion and forked loci.
Genetics. 1989 Jan;121(1):89-99. doi: 10.1093/genetics/121.1.89.
7
Lack of polymorphism on the Drosophila fourth chromosome resulting from selection.
Genetics. 1991 Dec;129(4):1111-7. doi: 10.1093/genetics/129.4.1111.
8
Molecular population genetics of the distal portion of the X chromosome in Drosophila: evidence for genetic hitchhiking of the yellow-achaete region.
Genetics. 1991 Dec;129(4):1147-58. doi: 10.1093/genetics/129.4.1147.
9
The distribution of transposable elements within and between chromosomes in a population of Drosophila melanogaster. I. Element frequencies and distribution.
Genet Res. 1992 Oct;60(2):103-14. doi: 10.1017/s0016672300030792.
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