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一个用于六倍体甘薯([L.] Lam)的公共中密度基因分型平台。

A Public Mid-Density Genotyping Platform for Hexaploid Sweetpotato ( [L.] Lam).

机构信息

Breeding Insight, Cornell University, 525 Tower Rd, Ithaca, NY 14853, USA.

Bioinformatics Research Center, North Carolina State University, Campus Box 7609, Raleigh, NC 27695, USA.

出版信息

Genes (Basel). 2024 Aug 9;15(8):1047. doi: 10.3390/genes15081047.

DOI:10.3390/genes15081047
PMID:39202407
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11354173/
Abstract

Small public breeding programs focused on specialty crops have many barriers to adopting technology, particularly creating and using genetic marker panels for genomic-based decisions in selection. Here, we report the creation of a DArTag panel of 3120 loci distributed across the sweetpotato ( [L.] Lam) genome for molecular-marker-assisted breeding and genomic prediction. The creation of this marker panel has the potential to bring cost-effective and rapid genotyping capabilities to sweetpotato breeding programs worldwide. The open access provided by this platform will allow the genetic datasets generated on the marker panel to be compared and joined across projects, institutions, and countries. This genotyping resource has the power to make routine genotyping a reality for any breeder of sweetpotato.

摘要

小型公共繁殖计划专注于特色作物,在采用技术方面存在许多障碍,特别是在创建和使用基于基因组的选择遗传标记面板方面。在这里,我们报告了一个 3120 个基因座的 DArTag 面板的创建,这些基因座分布在甘薯([L.] Lam)基因组中,用于分子标记辅助育种和基因组预测。这个标记面板的创建有可能为全球的甘薯育种计划带来具有成本效益和快速的基因分型能力。该平台提供的开放访问将允许在标记面板上生成的遗传数据集在项目、机构和国家之间进行比较和合并。这种基因分型资源有能力使任何甘薯种植者都能实现常规基因分型。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/1dc7297e4011/genes-15-01047-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/25688247084a/genes-15-01047-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/bad05ca1fc3e/genes-15-01047-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/9dbacd1b7472/genes-15-01047-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/1dc7297e4011/genes-15-01047-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/25688247084a/genes-15-01047-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/bad05ca1fc3e/genes-15-01047-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/9dbacd1b7472/genes-15-01047-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d221/11354173/1dc7297e4011/genes-15-01047-g004.jpg

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A population-level statistic for assessing Mendelian behavior of genotyping-by-sequencing data from highly duplicated genomes.一种用于评估高通量基因组重测序数据中基因型测序数据孟德尔行为的群体水平统计量。
BMC Bioinformatics. 2022 Mar 22;23(1):101. doi: 10.1186/s12859-022-04635-9.
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When do autopolyploids need poly-sequencing data?同源多倍体何时需要多序列数据?
Mol Ecol. 2022 Feb;31(4):1021-1027. doi: 10.1111/mec.16313. Epub 2021 Dec 16.
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Recent advancements in molecular marker-assisted selection and applications in plant breeding programmes.分子标记辅助选择的最新进展及其在植物育种计划中的应用。
J Genet Eng Biotechnol. 2021 Aug 27;19(1):128. doi: 10.1186/s43141-021-00231-1.
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Applications of genotyping-by-sequencing (GBS) in maize genetics and breeding.基于测序的基因分型(GBS)在玉米遗传学和育种中的应用。
Sci Rep. 2020 Oct 1;10(1):16308. doi: 10.1038/s41598-020-73321-8.
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Unraveling the Hexaploid Sweetpotato Inheritance Using Ultra-Dense Multilocus Mapping.利用超高密度多位点图谱解析六倍体甘薯的遗传结构。
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