New possibilities arise for studies of hybridization: SNP-based markers for the multi-species Daphnia longispina complex derived from transcriptome data
New possibilities arise for studies of hybridization: SNP-based markers for the multi-species Daphnia longispina complex derived from transcriptome data
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杂交研究出现了新的可能性：基于转录组数据的多物种长斯水蚤复合体的 SNP 标记
DOI：
10.1093/plankt/fbv028
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发表时间：
2015
影响因子：
2.1
通讯作者：
J. Wolinska
中科院分区：
文献类型：
--
作者：
Rusek J;G. Ayan;P.W. Turko;C. Tellenbach;S. Giessler;P. Spaak;J. Wolinska
为了跟踪群落动态和网状进化的杂交种复合体，长期的比较研究自然种群是必要的。这些研究需要开发用于精细遗传分析的工具。在本研究中，我们开发了用于杂交淡水甲壳动物的种诊断SNP标记：多种长鳍水蚤。具体来说，我们利用了转录组数据从一个关键物种的这种混合复杂的，注释的基因组relatedDaphniaspecies和明确定义的参考基因型从三个亲本物种。共11个核基因座与几个物种特异性SNP位点的序列比对，这些参考基因型从三个亲本物种和它们的种间杂种。PCR-RFLP检测被开发用于通过基于SNP的基因分型进行成本有效的大群体筛查。RFLP模式的分类群分配与欧洲几个筛选群体的微卫星基因分型几乎完全一致。最后，我们能够扩增这些位点的两个短区域，在甲醛保存的样品可以追溯到1960年。在这里开发的物种特异性SNP标记提供了宝贵的工具，研究杂交随着时间的推移，包括各种环境因素对杂交和生物多样性变化的长期影响。基于SNP的基因分型最终将允许在不同的时间尺度上揭示生态进化动态。
In order to trace community dynamics and reticulate evolution in hybrid species complexes, long-term comparative studies of natural populations are necessary. Such studies require the development of tools for fine-scale genetic analyses. In the present study, we developed species-diagnostic SNP-based markers for hybridizing freshwater crustaceans: the multispeciesDaphnia longispinacomplex. Specifically, we took advantage of transcriptome data from a key species of this hybrid complex, the annotated genome of a relatedDaphniaspecies and well-defined reference genotypes from three parental species. Altogether eleven nuclear loci with several species-specific SNP sites were identified in sequence alignments of these reference genotypes from three parental species and their interspecific hybrids. A PCR-RFLP assay was developed for cost-efficient large population screening by SNP-based genotyping. Taxon assignment by RFLP patterns was nearly perfectly concordant with microsatellite genotyping across several screened populations from Europe. Finally, we were able to amplify two short regions of these loci in formaldehyde-preserved samples dating back to the year 1960. The species-specific SNP-based markers developed here provide valuable tools to study hybridization over time, including the long-term impact of various environmental factors on hybridization and biodiversity changes. SNP-based genotyping will finally allow eco-evolutionary dynamics to be revealed at different time scales.
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影响因子：
4.5
作者：
Duffy, MA;Perry, LJ;Hairston, NG
通讯作者：
Hairston, NG
DOI：
10.1098/rspb.2006.3523
发表时间：
2006-08
期刊：
Proceedings of the Royal Society B: Biological Sciences
影响因子：
--
作者：
J. Wolinska;Kerstin Bittner;D. Ebert;P. Spaak
通讯作者：
J. Wolinska;Kerstin Bittner;D. Ebert;P. Spaak
位点数量、遗传分歧和基因分型错误对显性标记在杂交鉴定中的效用的影响
影响因子：
2.6
作者：
Michael G. Sovic;L. Kubatko;P. Fuerst
通讯作者：
P. Fuerst
估计杂交群体中遗传上不同的个体类别的频率
影响因子：
3.1
作者：
J. Nason;N. Ellstrand
通讯作者：
N. Ellstrand
马群中抗 EHV 抗体反应的遗传学。
影响因子：
2.4
作者：
J. Rusek;M. Klumplerova;D. Molínková;M. Sedlinská;L. Dušek;J. Muzík;L. Putnová;I. Vrtková;V. Celer;P. Horin
通讯作者：
P. Horin