Characterization and Mapping of retr04, retr05 and retr06 Broad-Spectrum Resistances to Turnip Mosaic Virus in Brassica juncea, and the Development of Robust Methods for Utilizing Recalcitrant Genotyping Data.
Characterization and Mapping of retr04, retr05 and retr06 Broad-Spectrum Resistances to Turnip Mosaic Virus in Brassica juncea, and the Development of Robust Methods for Utilizing Recalcitrant Genotyping Data.
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DOI：
10.3389/fpls.2021.787354
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发表时间：
2021
影响因子：
5.6
通讯作者：
Walsh JA
中科院分区：
文献类型：
--
作者：
Bramham LE;Wang T;Higgins EE;Parkin IAP;Barker GC;Walsh JA
芜菁花叶病毒（Turnip mosaic virus，TuMV）在敏感宿主中诱导疾病，特别是影响芸苔属的重要作物物种的栽培。几乎没有有效的植物病毒病管理策略，目前大多数方法旨在通过控制蚜虫媒介物种间接减轻病毒。以前已经鉴定了对TuMV的遗传抗性的多种来源，尽管大多数是株系特异性的并且尚未被商业化利用。在此，已经鉴定和表征了两个芥菜品系（TWBJ14和TWBJ20），其对代表TuMV的最普遍致病型（分别为1、3、4和4）的重要TuMV分离物（UK 1、vVIR24、CDN 1和GBR 6）具有抗性，并且已知克服其他抗性来源。两种抗性的遗传均符合隐性双基因模型。使用单核苷酸多态性（SNP）阵列和基因分型测序（GBS）方法，数量性状位点（QTL）分析进行了第一次回交（BC1）遗传作图群体分离TuMV抗性。在TWBJ14和TWBJ20材料的A03和A06染色体上鉴定了一对具有加性互作效应的统计学显著的TuMV抗性相关QTL。这些B之间的互补测试。芥菜型油菜株系中存在一个抗性连锁位点。根据已建立的隐性TuMV抗性基因的抗性基因命名法，这些新的抗性相关基因座已被称为retr 04（染色体A06、TWBJ14和TWBJ20）、retr 05（A03、TWBJ14）和retr 06（A03、TWBJ20）。通过测序数据与稳健的SNP阵列数据并行研究的基因分型是高度次优的，关键的BC1亲本样品没有建立信息数据。这就需要认真考虑和制定处理受损数据的新方法。使用根据等位基因变异的潜在标记物的还原筛选和在BC1样品基因分型中观察到的重组，使受损的GBS数据具有与SNP阵列数据接近等效的QTL输出的功能。这里采用的还原筛选策略提供了一种替代方法依赖于插补或人工校正的基因型数据，并可能证明有效的类似双亲QTL定位研究。
Turnip mosaic virus (TuMV) induces disease in susceptible hosts, notably impacting cultivation of important crop species of the Brassica genus. Few effective plant viral disease management strategies exist with the majority of current approaches aiming to mitigate the virus indirectly through control of aphid vector species. Multiple sources of genetic resistance to TuMV have been identified previously, although the majority are strain-specific and have not been exploited commercially. Here, two Brassica juncea lines (TWBJ14 and TWBJ20) with resistance against important TuMV isolates (UK 1, vVIR24, CDN 1, and GBR 6) representing the most prevalent pathotypes of TuMV (1, 3, 4, and 4, respectively) and known to overcome other sources of resistance, have been identified and characterized. Genetic inheritance of both resistances was determined to be based on a recessive two-gene model. Using both single nucleotide polymorphism (SNP) array and genotyping by sequencing (GBS) methods, quantitative trait loci (QTL) analyses were performed using first backcross (BC1) genetic mapping populations segregating for TuMV resistance. Pairs of statistically significant TuMV resistance-associated QTLs with additive interactive effects were identified on chromosomes A03 and A06 for both TWBJ14 and TWBJ20 material. Complementation testing between these B. juncea lines indicated that one resistance-linked locus was shared. Following established resistance gene nomenclature for recessive TuMV resistance genes, these new resistance-associated loci have been termed retr04 (chromosome A06, TWBJ14, and TWBJ20), retr05 (A03, TWBJ14), and retr06 (A03, TWBJ20). Genotyping by sequencing data investigated in parallel to robust SNP array data was highly suboptimal, with informative data not established for key BC1 parental samples. This necessitated careful consideration and the development of new methods for processing compromised data. Using reductive screening of potential markers according to allelic variation and the recombination observed across BC1 samples genotyped, compromised GBS data was rendered functional with near-equivalent QTL outputs to the SNP array data. The reductive screening strategy employed here offers an alternative to methods relying upon imputation or artificial correction of genotypic data and may prove effective for similar biparental QTL mapping studies.
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影响因子：
3.8
作者：
HALEY, CS;KNOTT, SA
通讯作者：
KNOTT, SA
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
5.6
作者：
Greer SF;Hackenberg D;Gegas V;Mitrousia G;Edwards D;Batley J;Teakle GR;Barker GC;Walsh JA
通讯作者：
Walsh JA
DOI：
10.1534/g3.116.038190
发表时间：
2017-03-10
期刊：
G3 (Bethesda, Md.)
影响因子：
--
作者：
Furuta T;Ashikari M;Jena KK;Doi K;Reuscher S
通讯作者：
Reuscher S
影响因子：
5
作者：
Jenner, CE;Wang, XW;Walsh, JA
通讯作者：
Walsh, JA