Transcript abundance on its own cannot be used to infer fluxes in central metabolism.
Transcript abundance on its own cannot be used to infer fluxes in central metabolism.
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DOI：
10.3389/fpls.2014.00668
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发表时间：
2014
影响因子：
5.6
通讯作者：
Rolletschek H
中科院分区：
文献类型：
--
作者：
Schwender J;König C;Klapperstück M;Heinzel N;Munz E;Hebbelmann I;Hay JO;Denolf P;De Bodt S;Redestig H;Caestecker E;Jakob PM;Borisjuk L;Rolletschek H
通过对两种油菜（Brassica napus）种子脂质积累差异较大的未成熟胚进行体外培养分析，试图确定植物中心代谢代谢通量在多大程度上通过转录组和代谢组的变化来反映。利用代谢通量分析（MFA）建立了包括671个生化和转运反应在内的通量平衡代谢模型。这种高度可信的通量信息最终用于通量与转录物（代谢物）的比较分析。代谢物分析成功地鉴定了79个中心代谢中间产物，其中一些中间产物在两个材料之间的数量上存在差异，并显示出与通量相对应的显著变化。基于RNA-Seq的转录组分析显示，在这两种植物中存在大量转录差异的基因，包括一些在主要代谢途径中活跃的酶/蛋白质。除了少数例外，主要途径（糖酵解、TCA循环、氨基酸和脂肪酸合成）的差异活性并没有反映在相关转录物的丰度对比上。结论是转录丰度本身不能用来推断植物中心代谢的代谢活性/通量。在评估转录组数据和设计代谢工程实验时，需要牢记这一限制。
An attempt has been made to define the extent to which metabolic flux in central plant metabolism is reflected by changes in the transcriptome and metabolome, based on an analysis of in vitro cultured immature embryos of two oilseed rape (Brassica napus) accessions which contrast for seed lipid accumulation. Metabolic flux analysis (MFA) was used to constrain a flux balance metabolic model which included 671 biochemical and transport reactions within the central metabolism. This highly confident flux information was eventually used for comparative analysis of flux vs. transcript (metabolite). Metabolite profiling succeeded in identifying 79 intermediates within the central metabolism, some of which differed quantitatively between the two accessions and displayed a significant shift corresponding to flux. An RNA-Seq based transcriptome analysis revealed a large number of genes which were differentially transcribed in the two accessions, including some enzymes/proteins active in major metabolic pathways. With a few exceptions, differential activity in the major pathways (glycolysis, TCA cycle, amino acid, and fatty acid synthesis) was not reflected in contrasting abundances of the relevant transcripts. The conclusion was that transcript abundance on its own cannot be used to infer metabolic activity/fluxes in central plant metabolism. This limitation needs to be borne in mind in evaluating transcriptome data and designing metabolic engineering experiments.
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影响因子：
9.9
作者：
Chubukov, Victor;Uhr, Markus;Le Chat, Ludovic;Kleijn, Roelco J.;Jules, Matthieu;Link, Hannes;Aymerich, Stephane;Stelling, Joerg;Sauer, Uwe
通讯作者：
Sauer, Uwe
影响因子：
11.6
作者：
Borisjuk, Ljudmilla;Neuberger, Thomas;Rolletschek, Hardy
通讯作者：
Rolletschek, Hardy
DOI：
10.1073/pnas.1204604109
发表时间：
2012-06-19
影响因子：
11.1
作者：
Andre, Carl;Haslam, Richard P.;Shanklin, John
通讯作者：
Shanklin, John
影响因子：
7.4
作者：
Meyer, Louis J.;Gao, Jianjiong;Thelen, Jay J.
通讯作者：
Thelen, Jay J.
影响因子：
7.4
作者：
Finkemeier, Iris;Laxa, Miriam;Sweetlove, Lee J.
通讯作者：
Sweetlove, Lee J.