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对非洲菊叶片转录组的测序和分析揭示了与白粉病抗性相关的差异表达的抗病和感病基因。

Sequencing and analysis of gerbera daisy leaf transcriptomes reveal disease resistance and susceptibility genes differentially expressed and associated with powdery mildew resistance.

机构信息

Department of Environmental Horticulture, Gulf Coast Research and Education Center, University of Florida, IFAS, 14625 County Road 672, Wimauma, FL, 33598, USA.

Department of Microbiology and Cell Science, University of Florida, IFAS, Gainesville, FL, 32611, USA.

出版信息

BMC Plant Biol. 2020 Nov 30;20(1):539. doi: 10.1186/s12870-020-02742-4.

Abstract

BACKGROUND

RNA sequencing has been widely used to profile genome-wide gene expression and identify candidate genes controlling disease resistance and other important traits in plants. Gerbera daisy is one of the most important flowers in the global floricultural trade, and powdery mildew (PM) is the most important disease of gerbera. Genetic improvement of gerbera PM resistance has become a crucial goal in gerbera breeding. A better understanding of the genetic control of gerbera resistance to PM can expedite the development of PM-resistant cultivars.

RESULTS

The objectives of this study were to identify gerbera genotypes with contrasting phenotypes in PM resistance and sequence and analyze their leaf transcriptomes to identify disease resistance and susceptibility genes differentially expressed and associated with PM resistance. An additional objective was to identify SNPs and SSRs for use in future genetic studies. We identified two gerbera genotypes, UFGE 4033 and 06-245-03, that were resistant and susceptible to PM, respectively. De novo assembly of their leaf transcriptomes using four complementary pipelines resulted in 145,348 transcripts with a N50 of 1124 bp, of which 67,312 transcripts contained open reading frames and 48,268 were expressed in both genotypes. A total of 494 transcripts were likely involved in disease resistance, and 17 and 24 transcripts were up- and down-regulated, respectively, in UFGE 4033 compared to 06-245-03. These gerbera disease resistance transcripts were most similar to the NBS-LRR class of plant resistance genes conferring resistance to various pathogens in plants. Four disease susceptibility transcripts (MLO-like) were expressed only or highly expressed in 06-245-03, offering excellent candidate targets for gene editing for PM resistance in gerbera. A total of 449,897 SNPs and 19,393 SSRs were revealed in the gerbera transcriptomes, which can be a valuable resource for developing new molecular markers.

CONCLUSION

This study represents the first transcriptomic analysis of gerbera PM resistance, a highly important yet complex trait in a globally important floral crop. The differentially expressed disease resistance and susceptibility transcripts identified provide excellent targets for development of molecular markers and genetic maps, cloning of disease resistance genes, or targeted mutagenesis of disease susceptibility genes for PM resistance in gerbera.

摘要

背景

RNA 测序已被广泛用于分析全基因组基因表达,并鉴定控制植物抗病性和其他重要性状的候选基因。非洲菊是全球花卉贸易中最重要的花卉之一,白粉病(PM)是非洲菊最重要的病害。提高非洲菊对 PM 的抗性是非洲菊育种的重要目标。更好地了解非洲菊对 PM 的遗传控制可以加速 PM 抗性品种的开发。

结果

本研究的目的是鉴定对 PM 具有不同抗性表型的非洲菊基因型,并对其叶片转录组进行测序和分析,以鉴定与 PM 抗性相关的差异表达的抗病和感病基因。另一个目标是鉴定用于未来遗传研究的 SNP 和 SSR。我们鉴定了两个非洲菊基因型 UFGE 4033 和 06-245-03,它们分别对 PM 具有抗性和敏感性。使用四个互补的管道对它们的叶片转录组进行从头组装,产生了 145348 个转录本,N50 为 1124bp,其中 67312 个转录本含有开放阅读框,48268 个在两种基因型中表达。共有 494 个转录本可能参与了疾病抗性,与 06-245-03 相比,UFGE 4033 中有 17 个和 24 个转录本分别上调和下调。这些非洲菊抗病转录本与植物抗病基因中的 NBS-LRR 类最为相似,赋予植物对各种病原体的抗性。四个疾病易感性转录本(MLO 样)仅在 06-245-03 中表达或高度表达,为非洲菊 PM 抗性的基因编辑提供了极好的候选目标。在非洲菊转录本中共发现了 449897 个 SNP 和 19393 个 SSR,可以成为开发新分子标记的宝贵资源。

结论

本研究代表了对 PM 抗性的非洲菊转录组分析的首次研究,PM 抗性是全球重要花卉作物中一个高度重要但复杂的性状。鉴定的差异表达的抗病和感病转录本为开发分子标记和遗传图谱、克隆抗病基因或靶向 PM 抗性的感病基因的突变提供了极好的目标。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/c9bc/7706040/c64209655a2b/12870_2020_2742_Fig1_HTML.jpg

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