Transcriptome and Co-Expression Network Analyses Identify Key Genes Regulating Nitrogen Use Efficiency in Brassica juncea L.
Transcriptome and Co-Expression Network Analyses Identify Key Genes Regulating Nitrogen Use Efficiency in Brassica juncea L.
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DOI：
10.1038/s41598-018-25826-6
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发表时间：
2018-05-10
影响因子：
4.6
通讯作者：
Singh AK
中科院分区：
文献类型：
--
作者：
Goel P;Sharma NK;Bhuria M;Sharma V;Chauhan R;Pathania S;Swarnkar MK;Chawla V;Acharya V;Shankar R;Singh AK
硝酸盐是植物无机氮的主要来源，也是植物体内的信号分子。采用RNA-seq技术，通过比较高氮利用效率（NUE）的芥菜型油菜（Pusa Bold，PB）和低氮利用效率（NUE）的芥菜型油菜（Pusa Jai Kisan，PJK），研究芥菜型油菜（Brassica juncea）硝酸盐调控机制。与对照组（0 mM KNO 3）相比，PB中共有4031，3874和3667个基因，PJK中共有2982，2481和2843个基因分别在早期，低（0.25 mM KNO 3），中（2 mM KNO 3）和高（4 mM KNO 3）硝酸盐处理中差异表达。氮素吸收基因（NRT1.1、NRT1.8和NRT2.1）、同化基因（NR 1、NR 2、NiR、GS1.3和Fd-GOGAT）和再动员基因（GDH 2、ASN 2 -3和ALAT）在PB中的表达高于PJK。我们还确定了转录因子和蛋白激酶，迅速诱导响应硝酸盐，这表明它们参与硝酸盐介导的信号。共表达网络分析揭示了PB中的四个硝酸盐特异性模块，富含GO术语，如“苯丙烷途径”，“氮化合物代谢过程”和“碳水化合物代谢”。网络分析还鉴定了HUB转录因子如mTERF、FHA、Orphan、bZip和FAR 1，它们可能是B中硝酸盐介导的反应的关键调节因子。Juncea。
Nitrate is the main source of inorganic nitrogen for plants, which also act as signaling molecule. Present study was aimed to understand nitrate regulatory mechanism in Brassica juncea cultivars, with contrasting nitrogen-use-efficiency (NUE) viz. Pusa Bold (PB, high-NUE) and Pusa Jai Kisan (PJK, low-NUE), employing RNA-seq approach. A total of 4031, 3874 and 3667 genes in PB and 2982, 2481 and 2843 genes in PJK were differentially expressed in response to early, low (0.25 mM KNO3), medium (2 mM KNO3) and high (4 mM KNO3) nitrate treatments, respectively, as compared to control (0 mM KNO3). Genes of N-uptake (NRT1.1, NRT1.8, and NRT2.1), assimilation (NR1, NR2, NiR, GS1.3, and Fd-GOGAT) and remobilization (GDH2, ASN2–3 and ALaT) were highly-upregulated in PB than in PJK in response to early nitrate treatments. We have also identified transcription factors and protein kinases that were rapidly induced in response to nitrate, suggesting their involvement in nitrate-mediated signaling. Co-expression network analysis revealed four nitrate specific modules in PB, enriched with GO terms like, “Phenylpropanoid pathway”, “Nitrogen compound metabolic process” and “Carbohydrate metabolism”. The network analysis also identified HUB transcription factors like mTERF, FHA, Orphan, bZip and FAR1, which may be the key regulators of nitrate-mediated response in B. juncea.
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DOI：
10.1073/pnas.0912021106
发表时间：
2009-12-15
影响因子：
11.1
作者：
Geiger, Dietmar;Scherzer, Soenke;Hedrich, Rainer
通讯作者：
Hedrich, Rainer
影响因子：
4.4
作者：
Humbert S;Subedi S;Cohn J;Zeng B;Bi YM;Chen X;Zhu T;McNicholas PD;Rothstein SJ
通讯作者：
Rothstein SJ
影响因子：
5.8
作者：
Berry, P. M.;Spink, J.;White, P. J.
通讯作者：
White, P. J.
影响因子：
7.2
作者：
He, ZH;He, DZ;Kohorn, BD
通讯作者：
Kohorn, BD
影响因子：
3.7
作者：
Chandna R;Augustine R;Bisht NC
通讯作者：
Bisht NC