Identification and rapid mapping of a gene conferring broad-spectrum late blight resistance in the diploid potato species Solanum verrucosum through DNA capture technologies.
Identification and rapid mapping of a gene conferring broad-spectrum late blight resistance in the diploid potato species Solanum verrucosum through DNA capture technologies.
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DOI：
10.1007/s00122-018-3078-6
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发表时间：
2018-06
期刊：
影响因子：
--
通讯作者：
Hein I
中科院分区：
文献类型：
--
作者：
Chen X;Lewandowska D;Armstrong MR;Baker K;Lim TY;Bayer M;Harrower B;McLean K;Jupe F;Witek K;Lees AK;Jones JD;Bryan GJ;Hein I
一个来自疣状茄的广谱抗晚疫病基因已定位于马铃薯第9染色体上。该基因不同于以前鉴定的抗性基因。我们已经确定和表征了一个广谱的抗疫霉从野生墨西哥种疣状茄。诊断性耐药基因富集（dRenSeq）表明，耐药性不是由先前鉴定的核苷酸结合、富含亮氨酸的重复基因赋予的。利用测序的马铃薯基因组作为参考，分别针对抗性基因（RenSeq）和单/低拷贝数基因（Generic-mapping enrichment Sequencing; GenSeq）的两种互补富集策略被部署用于通过群体分离分析进行抗性的快速、基于SNP的定位。这两种方法都独立地将抗性（称为Rpi-ver 1）定位于马铃薯9号染色体的远端。严格的富集后读段过滤鉴定了总共64个信息性SNP，其对应于亲本以及原液中显著多态性的预期比率。其中，61个SNP位于马铃薯9号染色体上并位于27个单独的基因内，其在测序的马铃薯克隆DM中位于45.9至60.9 Mb的位置。将靶区域内的RenSeq和GenSeq衍生的SNP转化为等位基因特异性的基于PCR的KASP标记，并进一步将抗性的位置限定为第9号染色体底端52.62-56.98 Mb之间的4.3 Mb间隔。本文的在线版本（10.1007/s 00122 -018-3078-6）包含补充材料，可供授权用户使用。
A broad-spectrum late blight disease-resistance gene from Solanum verrucosum has been mapped to potato chromosome 9. The gene is distinct from previously identified-resistance genes. We have identified and characterised a broad-spectrum resistance to Phytophthora infestans from the wild Mexican species Solanum verrucosum. Diagnostic resistance gene enrichment (dRenSeq) revealed that the resistance is not conferred by previously identified nucleotide-binding, leucine-rich repeat genes. Utilising the sequenced potato genome as a reference, two complementary enrichment strategies that target resistance genes (RenSeq) and single/low-copy number genes (Generic-mapping enrichment Sequencing; GenSeq), respectively, were deployed for the rapid, SNP-based mapping of the resistance through bulked-segregant analysis. Both approaches independently positioned the resistance, referred to as Rpi-ver1, to the distal end of potato chromosome 9. Stringent post-enrichment read filtering identified a total of 64 informative SNPs that corresponded to the expected ratio for significant polymorphisms in the parents as well as the bulks. Of these, 61 SNPs are located on potato chromosome 9 and reside within 27 individual genes, which in the sequenced potato clone DM locate to positions 45.9 to 60.9 Mb. RenSeq- and GenSeq-derived SNPs within the target region were converted into allele-specific PCR-based KASP markers and further defined the position of the resistance to a 4.3 Mb interval at the bottom end of chromosome 9 between positions 52.62–56.98 Mb. The online version of this article (10.1007/s00122-018-3078-6) contains supplementary material, which is available to authorized users.
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DOI：
10.1093/bioinformatics/btq033
发表时间：
2010-03-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Quinlan AR;Hall IM
通讯作者：
Hall IM
DOI：
10.1111/tpj.12307
发表时间：
2013-11
期刊：
The Plant journal : for cell and molecular biology
影响因子：
--
作者：
Jupe F;Witek K;Verweij W;Sliwka J;Pritchard L;Etherington GJ;Maclean D;Cock PJ;Leggett RM;Bryan GJ;Cardle L;Hein I;Jones JD
通讯作者：
Jones JD
DOI：
10.1007/s00122-015-2480-6
发表时间：
2015-05
期刊：
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik
影响因子：
--
作者：
Jo KR;Visser RG;Jacobsen E;Vossen JH
通讯作者：
Vossen JH
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
7.2
作者：
Huang, SW;van der Vossen, EAG;Visser, RGF
通讯作者：
Visser, RGF