Development of high transferability cpSSR markers for individual identification and genetic investigation in Cupressaceae species. Huang, L., Sun, Y., Jin, Y., Gao, Q., Hu, X., Gao, F., Yang, X., Zhu, J., El-Kassaby, Y. A., & Mao, J. Ecology and Evolution, 8(10):4967–4977, 2018. _eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.4053![Development of high transferability cpSSR markers for individual identification and genetic investigation in Cupressaceae species [link]](https://bibbase.org/img/filetypes/link.svg "link")
Paper doi abstract bibtex Given the low substitution rate in plastomes, the polymorphic and codominant nature of chloroplast SSRs (cpSSRs) makes them ideal markers, complementing their nuclear counterpart. In Cupressaceae, cpSSRs are mostly paternally inherited, thus, they are useful in mating systems and pollen flow studies. Using e-PCR, 92 SSR loci were identified across six Cupressaceae plastomes, and primers were designed for 26 loci with potential interspecific transferability. The 26 developed cpSSRs were polymorphic in four genera, Platycladus, Sabina, Juniperus, and Cupressus and are suitable for Cupressaceae molecular genetic studies and utilization. We genotyped 192 Platycladus orientalis samples from a core breeding population using 10 of the developed cpSSRs and 10 nuclear SSRs, and these individuals were identified with high confidence. The developed cpSSRs can be used in (1) a marker-assisted breeding scheme, specifically when paternity identification is required, (2) population genetics investigations, and (3) biogeography of Cupressaceae and unraveling the genetic relationships between related species.
@article{huang_development_2018,
title = {Development of high transferability {cpSSR} markers for individual identification and genetic investigation in {Cupressaceae} species},
volume = {8},
issn = {2045-7758},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.4053},
doi = {10.1002/ece3.4053},
abstract = {Given the low substitution rate in plastomes, the polymorphic and codominant nature of chloroplast SSRs (cpSSRs) makes them ideal markers, complementing their nuclear counterpart. In Cupressaceae, cpSSRs are mostly paternally inherited, thus, they are useful in mating systems and pollen flow studies. Using e-PCR, 92 SSR loci were identified across six Cupressaceae plastomes, and primers were designed for 26 loci with potential interspecific transferability. The 26 developed cpSSRs were polymorphic in four genera, Platycladus, Sabina, Juniperus, and Cupressus and are suitable for Cupressaceae molecular genetic studies and utilization. We genotyped 192 Platycladus orientalis samples from a core breeding population using 10 of the developed cpSSRs and 10 nuclear SSRs, and these individuals were identified with high confidence. The developed cpSSRs can be used in (1) a marker-assisted breeding scheme, specifically when paternity identification is required, (2) population genetics investigations, and (3) biogeography of Cupressaceae and unraveling the genetic relationships between related species.},
language = {en},
number = {10},
urldate = {2023-04-27},
journal = {Ecology and Evolution},
author = {Huang, Li-Sha and Sun, Yan-Qiang and Jin, Yuqing and Gao, Qiong and Hu, Xian-Ge and Gao, Fu-Ling and Yang, Xiao-Lei and Zhu, Ji-Jun and El-Kassaby, Yousry A. and Mao, Jian-Feng},
year = {2018},
note = {\_eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.4053},
keywords = {Cupressaceae, chloroplast SSRs, genetic diversity, haplotype, mating system, paternity test},
pages = {4967--4977},
}
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Using e-PCR, 92 SSR loci were identified across six Cupressaceae plastomes, and primers were designed for 26 loci with potential interspecific transferability. The 26 developed cpSSRs were polymorphic in four genera, Platycladus, Sabina, Juniperus, and Cupressus and are suitable for Cupressaceae molecular genetic studies and utilization. We genotyped 192 Platycladus orientalis samples from a core breeding population using 10 of the developed cpSSRs and 10 nuclear SSRs, and these individuals were identified with high confidence. The developed cpSSRs can be used in (1) a marker-assisted breeding scheme, specifically when paternity identification is required, (2) population genetics investigations, and (3) biogeography of Cupressaceae and unraveling the genetic relationships between related species.","language":"en","number":"10","urldate":"2023-04-27","journal":"Ecology and Evolution","author":[{"propositions":[],"lastnames":["Huang"],"firstnames":["Li-Sha"],"suffixes":[]},{"propositions":[],"lastnames":["Sun"],"firstnames":["Yan-Qiang"],"suffixes":[]},{"propositions":[],"lastnames":["Jin"],"firstnames":["Yuqing"],"suffixes":[]},{"propositions":[],"lastnames":["Gao"],"firstnames":["Qiong"],"suffixes":[]},{"propositions":[],"lastnames":["Hu"],"firstnames":["Xian-Ge"],"suffixes":[]},{"propositions":[],"lastnames":["Gao"],"firstnames":["Fu-Ling"],"suffixes":[]},{"propositions":[],"lastnames":["Yang"],"firstnames":["Xiao-Lei"],"suffixes":[]},{"propositions":[],"lastnames":["Zhu"],"firstnames":["Ji-Jun"],"suffixes":[]},{"propositions":[],"lastnames":["El-Kassaby"],"firstnames":["Yousry","A."],"suffixes":[]},{"propositions":[],"lastnames":["Mao"],"firstnames":["Jian-Feng"],"suffixes":[]}],"year":"2018","note":"_eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.4053","keywords":"Cupressaceae, chloroplast SSRs, genetic diversity, haplotype, mating system, paternity test","pages":"4967–4977","bibtex":"@article{huang_development_2018,\n\ttitle = {Development of high transferability {cpSSR} markers for individual identification and genetic investigation in {Cupressaceae} species},\n\tvolume = {8},\n\tissn = {2045-7758},\n\turl = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.4053},\n\tdoi = {10.1002/ece3.4053},\n\tabstract = {Given the low substitution rate in plastomes, the polymorphic and codominant nature of chloroplast SSRs (cpSSRs) makes them ideal markers, complementing their nuclear counterpart. In Cupressaceae, cpSSRs are mostly paternally inherited, thus, they are useful in mating systems and pollen flow studies. Using e-PCR, 92 SSR loci were identified across six Cupressaceae plastomes, and primers were designed for 26 loci with potential interspecific transferability. The 26 developed cpSSRs were polymorphic in four genera, Platycladus, Sabina, Juniperus, and Cupressus and are suitable for Cupressaceae molecular genetic studies and utilization. We genotyped 192 Platycladus orientalis samples from a core breeding population using 10 of the developed cpSSRs and 10 nuclear SSRs, and these individuals were identified with high confidence. The developed cpSSRs can be used in (1) a marker-assisted breeding scheme, specifically when paternity identification is required, (2) population genetics investigations, and (3) biogeography of Cupressaceae and unraveling the genetic relationships between related species.},\n\tlanguage = {en},\n\tnumber = {10},\n\turldate = {2023-04-27},\n\tjournal = {Ecology and Evolution},\n\tauthor = {Huang, Li-Sha and Sun, Yan-Qiang and Jin, Yuqing and Gao, Qiong and Hu, Xian-Ge and Gao, Fu-Ling and Yang, Xiao-Lei and Zhu, Ji-Jun and El-Kassaby, Yousry A. and Mao, Jian-Feng},\n\tyear = {2018},\n\tnote = {\\_eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1002/ece3.4053},\n\tkeywords = {Cupressaceae, chloroplast SSRs, genetic diversity, haplotype, mating system, paternity test},\n\tpages = {4967--4977},\n}\n\n\n\n","author_short":["Huang, L.","Sun, Y.","Jin, Y.","Gao, Q.","Hu, X.","Gao, F.","Yang, X.","Zhu, J.","El-Kassaby, Y. 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