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全球转录组和共表达网络分析揭示了 和 水稻品种对γ辐射的不同响应。

Global Transcriptome and Co-Expression Network Analysis Reveal Contrasting Response of and Rice Cultivar to γ Radiation.

机构信息

Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.

Lixiahe Agricultural Research Institute of Jiangsu Province, Yangzhou 225007, China.

出版信息

Int J Mol Sci. 2019 Sep 5;20(18):4358. doi: 10.3390/ijms20184358.

DOI:10.3390/ijms20184358
PMID:31491955
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6769861/
Abstract

and are two important subspecies in cultivated Asian rice. Irradiation is a classical approach to induce mutations and create novel germplasm. However, little is known about the differential response between and rice after γ radiation. Here, we utilized the RNA sequencing and Weighted Gene Co-expression Network Analysis (WGCNA) to compare the transcriptome differences between Nipponbare (NPB) and Yangdao6 (YD6) in response to irradiation. subspecies are more sensitive to irradiation than the subspecies. showed a higher seedling survival rate than . Irradiation caused more extensive DNA damage in shoots than in roots, and the severity was higher in NPB than in YD6. GO and KEGG pathway analyses indicate that the core genes related to DNA repair and replication and cell proliferation are similarly regulated between the varieties, however the universal stress responsive genes show contrasting differential response patterns in and . WGCNA identifies 37 co-expressing gene modules and ten candidate hub genes for each module. This provides novel evidence indicating that certain peripheral pathways may dominate the molecular networks in irradiation survival and suggests more potential target genes in breeding for universal stress tolerance in rice.

摘要

籼稻和粳稻是亚洲栽培稻的两个重要亚种。辐照是诱导突变和创造新种质的经典方法。然而,对于γ辐照后籼稻和粳稻的差异反应知之甚少。在这里,我们利用 RNA 测序和加权基因共表达网络分析(WGCNA)比较了辐照响应下 Nipponbare(NPB)和 Yangdao6(YD6)之间的转录组差异。与粳稻亚种相比,籼稻亚种对辐照更敏感。与 YD6 相比,NPB 的幼苗存活率更高。辐照在地上部造成的 DNA 损伤比在根部更广泛,NPB 比 YD6 更严重。GO 和 KEGG 通路分析表明,与 DNA 修复和复制以及细胞增殖相关的核心基因在品种之间受到类似的调控,然而,普遍应激响应基因在籼稻和粳稻中的差异反应模式相反。WGCNA 鉴定了 37 个共表达基因模块和每个模块的 10 个候选枢纽基因。这为某些外围途径可能主导辐照生存分子网络提供了新的证据,并为水稻普遍抗逆性育种提供了更多的潜在靶基因。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0a50/6769861/5af6f3ebbdb4/ijms-20-04358-g010.jpg
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