Transcriptomics and Lipidomics of the Environmental Strain Rhodococcus ruber Point out Consumption Pathways and Potential Metabolic Bottlenecks for Polyethylene Degradation
Transcriptomics and Lipidomics of the Environmental Strain Rhodococcus ruber Point out Consumption Pathways and Potential Metabolic Bottlenecks for Polyethylene Degradation
复制标题
DOI：
10.1021/acs.est.7b00846
复制
发表时间：
2017-05-02
影响因子：
11.4
通讯作者：
Ferreira, Thierry
中科院分区：
文献类型：
--
作者：
Gravouil, Kevin;Ferru-Clement, Romain;Ferreira, Thierry
聚乙烯(PE)是世界上使用最广泛的合成聚合物之一，在自然环境中生物降解性很差。因此，PE本身就占了所有塑料垃圾的一半以上。PE的生物降解是通过非生物和生物过程相结合实现的。几种微生物已被证明生长在PE材料的表面，其中包括红球菌属的物种，这表明这些微生物具有很强的能力，至少部分地利用PE作为有效的碳源。然而，它们中的大多数，如果不是全部的话，都不能明显地诱导PE样品的降解，这表明达到最佳生物降解的瓶颈明显存在。为了确定参与PE消耗的途径，我们在本研究中使用了RNA测序和脂组学策略的组合。我们发现，短期接触不同形式的PE，表现出不同的分子量分布和氧化水平，会导致代表红球菌的R.ruber的158个基因表达增加。有趣的是，最上调的途径之一与脂肪酸的烷烃降解和β-氧化有关。这种方法还使我们能够确定代谢限制步骤，这可能是鲁伯优化PE消耗的有效目标。
Polyethylene (PE), one of the most prominent synthetic polymers used worldwide, is very poorly biodegradable in the natural environment. Consequently, PE represents by itself more than half of all plastic wastes. PE biodegradation is achieved through the combination of abiotic and biotic processes. Several microorganisms have been shown to grow on the surface of PE materials, among which are the species of the Rhodococcus genus, suggesting a potent ability of these microorganisms to use, at least partly, PE as a potent carbon source. However, most of them, if not all, fail to induce a clearcut degradation of PE samples, showing that bottlenecks to reach optimal biodegradation clearly exist. To identify the pathways involved in PE consumption, we used in the present study a combination of RNA -sequencing and lipidomic strategies. We show that short-term exposure to various forms of PE, displaying different molecular weight distributions and oxidation levels, lead to an increase in the expression of 158 genes in a Rhodococcus representative, R. ruber. Interestingly, one of the most up -regulated pathways is related to alkane degradation and beta-oxidation of fatty acids. This approach also allowed us to identify metabolic limiting steps, which could be fruitfully targeted for optimized PE consumption by R. ruber.