Why Environmental Biomarkers Work: Transcriptome-Proteome Correlations and Modeling of Multistressor Experiments in the Marine Bacterium Trichodesmium.
Why Environmental Biomarkers Work: Transcriptome-Proteome Correlations and Modeling of Multistressor Experiments in the Marine Bacterium Trichodesmium.
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环境生物标志物为何起作用：海洋细菌束毛藻中多胁迫实验的转录组 - 蛋白质组相关性及建模
DOI：
10.1021/acs.jproteome.1c00517
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发表时间：
2022-01-07
影响因子：
4.4
通讯作者：
Webb, Eric A.
中科院分区：
文献类型：
--
作者：
Walworth, Nathan G.;Saito, Mak A.;Lee, Michael D.;McIlvin, Matthew R.;Moran, Dawn M.;Kellogg, Riss M.;Fu, Fei-Xue;Hutchins, David A.;Webb, Eric A.
海洋微生物群落是维持地球生命的全球生物地球化学反应的重要贡献者。利用已发表的大量菌落形成蓝藻Trichodesum(菌株IMS101)的蛋白质组和转录本，我们观察到胁迫诱导蛋白质和RNA(即参与运输和动态平衡的RNA)在低和/或高二氧化碳条件下生长在不同的铁和/或磷限制下，具有很强的相关性，可以提供有关低和/或高二氧化碳条件下营养状况的有用信息。相反，许多其他中枢代谢途径的转录和翻译相关性表现出广泛的不一致性。细胞RNA和蛋白质生产/降解模型展示了初始库存较小的生物分子，如环境响应蛋白质，如何实现折叠变化单位的大幅增加，而不是那些具有较高基础表达和库存的生物分子，如代谢系统。微生物细胞由于浸泡在环境中，往往在RNA和蛋白质中都表现出较大的适应性反应，从而导致转录-蛋白质相关性。这些观察和模型结果显示了环境生物标记物的多组学一致性，并为这些观察提供了基本机制，支持了在不断变化的海洋中检测对环境刺激的反应的全球应用前景。
Ocean microbial communities are important contributors to the global biogeochemical reactions that sustain life on Earth. The factors controlling these communities are being increasingly explored using of metatranscriptomic and metaproteomic environmental biomarkers.Using published proteomes and transcriptomes from the abundant colony-forming cyanobacterium Trichodesmium (strain IMS101) grown under varying Fe and/or P limitation in low and high CO2, we observed robust correlations of stress induced proteins and RNAs (i.e., involved in transport and homeostasis) that yield useful information on nutrient status under low and/or high CO2. Conversely, transcriptional and translational correlations of many other central metabolism pathways exhibit broad discordance. A cellular RNA and protein production/degradation model demonstrates how biomolecules with small initial inventories, such as environmentally responsive proteins, achieve large increases in fold-change units, as opposed to those with higher basal expression and inventory such as metabolic systems. Microbial cells, due to their immersion in the environment, tend to show large adaptive responses in both RNA and protein that result in transcript-protein correlations. These observations and model results demonstrate a multi-omic coherence for environmental biomarkers and provide the underlying mechanism for those observations, supporting the promise for global application in detecting responses to environmental stimuli in a changing ocean.
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影响因子：
3.7
作者：
Dyhrman ST;Jenkins BD;Rynearson TA;Saito MA;Mercier ML;Alexander H;Whitney LP;Drzewianowski A;Bulygin VV;Bertrand EM;Wu Z;Benitez-Nelson C;Heithoff A
通讯作者：
Heithoff A
影响因子：
3.2
作者：
Lindell, D;Padan, E;Post, AF
通讯作者：
Post, AF
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
DOI：
10.1073/pnas.1120312109
发表时间：
2012-02-07
影响因子：
11.1
作者：
Karl, David M.;Church, Matthew J.;Mahaffey, Claire
通讯作者：
Mahaffey, Claire
影响因子：
5.2
作者：
Frischkorn, Kyle R.;Haley, Sheean T.;Dyhrman, Sonya T.
通讯作者：
Dyhrman, Sonya T.