RNA-Seq analysis of resistant and susceptible potato varieties during the early stages of potato virus Y infection.
RNA-Seq analysis of resistant and susceptible potato varieties during the early stages of potato virus Y infection.
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DOI：
10.1186/s12864-015-1666-2
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发表时间：
2015-06-20
期刊：
影响因子：
4.4
通讯作者：
Chang JH
中科院分区：
文献类型：
--
作者：
Goyer A;Hamlin L;Crosslin JM;Buchanan A;Chang JH
马铃薯Y病毒（Potato Virus Y，PVY）是影响马铃薯生产的重要植物病毒之一。马铃薯和PVY之间的相互作用是复杂的，并且相互作用的结果取决于马铃薯基因型、PVY菌株和环境条件。马铃薯栽培品种可以诱导对特定PVY株系的抗性，但对另一种PVY株系敏感。一个马铃薯品种在亲和和不亲和互作中对PVY的反应尚不清楚。在这项研究中，我们使用RNA测序（RNA-Seq）调查和比较马铃薯叶片接种PVY后的转录变化。我们使用了两种马铃薯品种：Premier Russet，其对PVY菌株O（PVYO）具有抗性但对菌株NTN（PVYNTN）敏感，以及Russet伯班克，其对已测试的所有PVY菌株敏感。用PVYO或PVYNTN接种叶，并在接种后4和10小时（hpi）收集样品。与不相容反应相比，相容反应中发现了更多的差异表达（DE）基因。对于所有处理，大多数DE基因在4 hpi下调，在10 hpi上调。基因本体富集分析显示生物过程GO术语“光合作用，光收获”的富集，特别是在PVYO接种的总理赤褐色叶中，而GO术语“核小体组装”在PVYNTN接种的总理赤褐色叶和PVYO接种的赤褐色伯班克叶中大部分过度表达，但在PVYO接种的总理赤褐色叶中没有。与相容性反应相比，在不相容性反应中DE超过4倍的基因较少。其中，5个基因仅在PVYO接种的总理赤褐色叶DE，所有5个下调。预测这些基因编码推定的ABC转运蛋白、MYC 2转录因子、含有VQ基序的蛋白、非特异性脂质转移蛋白和木葡聚糖内切转葡糖基酶-羟化酶。我们的研究结果表明，总理Russet的不相容和相容的反应有更多的相似性，特别是在最初的反应，比在两个不同的主机的相容反应。我们的研究结果确定了潜在的关键过程和基因，决定了反应的命运，兼容或不兼容，PVY和它的主机之间。本文的在线版本（doi：10.1186/s12864-015-1666-2）包含补充材料，可供授权用户使用。
Potato virus Y (PVY) is one of the most important plant viruses affecting potato production. The interactions between potato and PVY are complex and the outcome of the interactions depends on the potato genotype, the PVY strain, and the environmental conditions. A potato cultivar can induce resistance to a specific PVY strain, yet be susceptible to another. How a single potato cultivar responds to PVY in both compatible and incompatible interactions is not clear. In this study, we used RNA-sequencing (RNA-Seq) to investigate and compare the transcriptional changes in leaves of potato upon inoculation with PVY. We used two potato varieties: Premier Russet, which is resistant to the PVY strain O (PVYO) but susceptible to the strain NTN (PVYNTN), and Russet Burbank, which is susceptible to all PVY strains that have been tested. Leaves were inoculated with PVYO or PVYNTN, and samples were collected 4 and 10 h post inoculation (hpi). A larger number of differentially expressed (DE) genes were found in the compatible reactions compared to the incompatible reaction. For all treatments, the majority of DE genes were down-regulated at 4 hpi and up-regulated at 10 hpi. Gene Ontology enrichment analysis showed enrichment of the biological process GO term “Photosynthesis, light harvesting” specifically in PVYO-inoculated Premier Russet leaves, while the GO term “nucleosome assembly” was largely overrepresented in PVYNTN-inoculated Premier Russet leaves and PVYO-inoculated Russet Burbank leaves but not in PVYO-inoculated Premier Russet leaves. Fewer genes were DE over 4-fold in the incompatible reaction compared to the compatible reactions. Amongst these, five genes were DE only in PVYO-inoculated Premier Russet leaves, and all five were down-regulated. These genes are predicted to encode for a putative ABC transporter, a MYC2 transcription factor, a VQ-motif containing protein, a non-specific lipid-transfer protein, and a xyloglucan endotransglucosylase-hydroxylase. Our results show that the incompatible and compatible reactions in Premier Russet shared more similarities, in particular during the initial response, than the compatible reactions in the two different hosts. Our results identify potential key processes and genes that determine the fate of the reaction, compatible or incompatible, between PVY and its host. The online version of this article (doi:10.1186/s12864-015-1666-2) contains supplementary material, which is available to authorized users.
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影响因子：
3.7
作者：
Baebler Š;Stare K;Kovač M;Blejec A;Prezelj N;Stare T;Kogovšek P;Pompe-Novak M;Rosahl S;Ravnikar M;Gruden K
通讯作者：
Gruden K
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
影响因子：
11.6
作者：
Anderson, JP;Badruzsaufari, E;Kazan, K
通讯作者：
Kazan, K
影响因子：
46.9
作者：
Gutierrez-Campos, R;Torres-Acosta, JA;Gomez-Lim, MA
通讯作者：
Gomez-Lim, MA
影响因子：
6.2
作者：
Li, Na;Li, Xianghua;Wang, Shiping
通讯作者：
Wang, Shiping