Identification of genes associated with nitrogen-use efficiency by genome-wide transcriptional analysis of two soybean genotypes.
Identification of genes associated with nitrogen-use efficiency by genome-wide transcriptional analysis of two soybean genotypes.
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DOI：
10.1186/1471-2164-12-525
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发表时间：
2011-10-26
期刊：
影响因子：
4.4
通讯作者：
Chen SL
中科院分区：
文献类型：
--
作者：
Hao QN;Zhou XA;Sha AH;Wang C;Zhou R;Chen SL
大豆是一种提供蛋白质和油的有价值的作物。大豆需要大量的氮（N）来在种子中积累高水平的N。大豆籽粒的产量和蛋白质含量直接受植株氮素利用效率（NUE）的影响，提高NUE可以提高大豆的产量和品质。基因工程是提高氮肥利用率的途径之一，但目前缺乏与氮肥利用率相关的基因信息，这一研究受到了阻碍。Solexa测序是一种在转录水平上估计基因表达的新方法。本文分析了两个大豆品种在氮限制条件下的表达谱，以鉴定与氮素利用效率相关的基因。在氮限制条件下种植两种大豆基因型;耐低氮品种（No.116）和低氮敏感品种（No.84-70）。大豆的芽和根用于测序。产生8个文库用于分析：2个基因型× 2个组织（根和芽）× 2个时间段[短期（0.5至12 h）和长期（3至12 d）响应]，并通过高通量标签测序分析比较转录组。5，739，999、5，846，807、5，731，901、5，970，775、5，476，878、5，900，343、5，930，716和5，862，642个干净标签分别用于以下8个文库：L1，116-芽短期; L2，84-70-芽短期; L3，116-芽长期; L4为84-70根，L5为116根，L 6为84-70根，L7为116根，L 8为84-70根，L 8为116根。这些分别对应于224，154、162，415、191，994、181，792、204，639、206，998、233，839和257，077个不同的标签。将干净的标签映射到参考序列，用于注释表达的基因。许多基因在文库中表现出显著的表达差异。总共有22条代谢和信号转导途径中的3,231个基因表达上调或下调。随机选取24个基因，通过定量RT-PCR证实其表达模式;其中21个基因的表达模式与数字基因表达（DGE）数据一致。在氮限制条件下，大豆耐低氮品种和低氮敏感品种之间的许多基因差异表达。其中一些基因可能是提高NUE的候选基因。这些研究结果将有助于深入了解氮素利用效率的机理，并为选育耐低氮大豆品种提供依据。
Soybean is a valuable crop that provides protein and oil. Soybean requires a large amount of nitrogen (N) to accumulate high levels of N in the seed. The yield and protein content of soybean seeds are directly affected by the N-use efficiency (NUE) of the plant, and improvements in NUE will improve yields and quality of soybean products. Genetic engineering is one of the approaches to improve NUE, but at present, it is hampered by the lack of information on genes associated with NUE. Solexa sequencing is a new method for estimating gene expression in the transcription level. Here, the expression profiles were analyzed between two soybean varieties in N-limited conditions to identify genes related to NUE. Two soybean genotypes were grown under N-limited conditions; a low-N-tolerant variety (No.116) and a low-N-sensitive variety (No.84-70). The shoots and roots of soybeans were used for sequencing. Eight libraries were generated for analysis: 2 genotypes × 2 tissues (roots and shoots) × 2 time periods [short-term (0.5 to 12 h) and long-term (3 to 12 d) responses] and compared the transcriptomes by high-throughput tag-sequencing analysis. 5,739,999, 5,846,807, 5,731,901, 5,970,775, 5,476,878, 5,900,343, 5,930,716, and 5,862,642 clean tags were obtained for the eight libraries: L1, 116-shoot short-term; L2 84-70-shoot short-term; L3 116-shoot long-term; L4 84-70-shoot long-term; L5 116-root short-term; L6 84-70-root short-term; L7 116-root long-term;L8 84-70-root long-term; these corresponded to 224,154, 162,415, 191,994, 181,792, 204,639, 206,998, 233,839 and 257,077 distinct tags, respectively. The clean tags were mapped to the reference sequences for annotation of expressed genes. Many genes showed substantial differences in expression among the libraries. In total, 3,231genes involved in twenty-two metabolic and signal transduction pathways were up- or down-regulated. Twenty-four genes were randomly selected and confirmed their expression patterns by quantitative RT-PCR; Twenty-one of the twenty-four genes showed expression patterns consistent with the Digital Gene Expression (DGE) data. A number of soybean genes were differentially expressed between the low-N-tolerant and low-N-sensitive varieties under N-limited conditions. Some of these genes may be candidates for improving NUE. These findings will help to provide a detailed understanding of NUE mechanisms, and also provide a basis for breeding soybean varieties that are tolerant to low-N conditions.
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影响因子：
4
作者：
De La Torre, Fernando;Suarez, Maria Fernanda;Canovas, Francisco M.
通讯作者：
Canovas, Francisco M.
DOI：
10.3923/ijb.2011.1.16
发表时间：
2011-01-01
期刊：
International Journal of Botany
影响因子：
--
作者：
Horchani, Faouzi;R'bia, Olfa;Aschi-Smiti, Samira
通讯作者：
Aschi-Smiti, Samira
影响因子：
14.9
作者：
Kanehisa M;Araki M;Goto S;Hattori M;Hirakawa M;Itoh M;Katayama T;Kawashima S;Okuda S;Tokimatsu T;Yamanishi Y
通讯作者：
Yamanishi Y
影响因子：
5.1
作者：
Lian, XM;Wang, SP;Zhang, QF
通讯作者：
Zhang, QF
影响因子：
4.3
作者：
Kaiser, WM;Kandlbinder, A;Glaab, J
通讯作者：
Glaab, J