Identifying Genetic Signatures of Natural Selection Using Pooled Population Sequencing in Picea abies
文献类型：期刊论文
| 作者 | Chen, Jun1,2; Kallman, Thomas1,2,4; Ma, Xiao-Fei1,2,5; Zaina, Giusi3; Morgante, Michele3; Lascoux, Martin1,2 |
| 刊名 | G3-GENES GENOMES GENETICS
 |
| 出版日期 | 2016-07-01 |
| 卷号 | 6期号:7页码:1979-1989 |
| ISSN号 | 2160-1836 |
| 关键词 | pooled sequencing F-ST allele frequencies local adaptation |
| DOI | 10.1534/g3.116.028753 |
| 通讯作者 | Lascoux, Martin(martin.lascoux@ebc.uu.se) |
| 英文摘要 | The joint inference of selection and past demography remain a costly and demanding task. We used next generation sequencing of two pools of 48 Norway spruce mother trees, one corresponding to the Fennoscandian domain, and the other to the Alpine domain, to assess nucleotide polymorphism at 88 nuclear genes. These genes are candidate genes for phenological traits, and most belong to the photoperiod pathway. Estimates of population genetic summary statistics from the pooled data are similar to previous estimates, suggesting that pooled sequencing is reliable. The nonsynonymous SNPs tended to have both lower frequency differences and lower F-ST values between the two domains than silent ones. These results suggest the presence of purifying selection. The divergence between the two domains based on synonymous changes was around 5 million yr, a time similar to a recent phylogenetic estimate of 6 million yr, but much larger than earlier estimates based on isozymes. Two approaches, one of them novel and that considers both F-ST and difference in allele frequencies between the two domains, were used to identify SNPs potentially under diversifying selection. SNPs from around 20 genes were detected, including genes previously identified as main target for selection, such as PaPRR3 and PaGI. |
| 收录类别 | SCI |
| WOS关键词 | QUANTITATIVE TRAIT LOCI ; NEXT-GENERATION ; LINKAGE DISEQUILIBRIUM ; STATISTICAL-METHOD ; CLINAL VARIATION ; GENOME ; DIFFERENTIATION ; ADAPTATION ; MARKERS ; EVOLUTION |
| WOS研究方向 | Genetics & Heredity |
| WOS类目 | Genetics & Heredity |
| 语种 | 英语 |
| 出版者 | GENETICS SOCIETY AMERICA |
| WOS记录号 | WOS:000379590200018 |
| URI标识 | http://www.irgrid.ac.cn/handle/1471x/2557218 |
| 专题 | 寒区旱区环境与工程研究所 |
| 通讯作者 | Lascoux, Martin |
| 作者单位 | 1.Uppsala Univ, Dept Ecol & Genet, Evolutionary Biol Ctr, S-75236 Uppsala, Sweden 2.Uppsala Univ, Sci Life Lab, S-75236 Uppsala, Sweden 3.Univ Udine, Dept Agr Food Environm & Anim Sci, I-33100 Udine, Italy 4.Uppsala Univ, Dept Med Biochem & Microbiol, S-75236 Uppsala, Sweden 5.Chinese Acad Sci, Key Lab Stress Physiol & Ecol Cold & Arid Reg, Lanzhou, Peoples R China |
| 推荐引用方式 GB/T 7714 | Chen, Jun,Kallman, Thomas,Ma, Xiao-Fei,et al. Identifying Genetic Signatures of Natural Selection Using Pooled Population Sequencing in Picea abies[J]. G3-GENES GENOMES GENETICS,2016,6(7):1979-1989. |
| APA | Chen, Jun,Kallman, Thomas,Ma, Xiao-Fei,Zaina, Giusi,Morgante, Michele,&Lascoux, Martin.(2016).Identifying Genetic Signatures of Natural Selection Using Pooled Population Sequencing in Picea abies.G3-GENES GENOMES GENETICS,6(7),1979-1989. |
| MLA | Chen, Jun,et al."Identifying Genetic Signatures of Natural Selection Using Pooled Population Sequencing in Picea abies".G3-GENES GENOMES GENETICS 6.7(2016):1979-1989. |
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来源：寒区旱区环境与工程研究所
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