Comparative Metagenomic Screening of Aromatic Hydrocarbon Degradation and Secondary Metabolite-Producing Genes in the Red Sea, the Suez Canal, and the Mediterranean Sea
Comparative Metagenomic Screening of Aromatic Hydrocarbon Degradation and Secondary Metabolite-Producing Genes in the Red Sea, the Suez Canal, and the Mediterranean Sea
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DOI：
10.1089/omi.2020.0070
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发表时间：
2020-08-04
影响因子：
3.3
通讯作者：
Fahmy, Nora
中科院分区：
文献类型：
--
作者：
Elsaeed, Esraa;Enany, Shymaa;Fahmy, Nora
石油泄漏造成的海洋和生态系统污染可以通过识别芳香烃（HC）降解微生物及其负责生物降解的基因来解决。此外，筛选编码次生代谢物的基因对于药物发现具有无价的价值。我们在此报告，第一项宏基因组研究调查了伊斯梅利亚市苏伊士运河水样的霰弹枪宏基因组，与红海哈拉耶布市和地中海塞勒姆市海水样本相比，其芳香族碳氢化合物降解潜力。此外，为了深入了解海洋生物技术应用，我们筛选了这三个宏基因组中的聚酮合酶（PKS）和非核糖体肽合成酶（NRPS）结构域。通过与功能蛋白数据库进行比对，我们发现 SEED 数据库中有 13、6 和 3 个基因类别；来自 EgGNOG 的 2、1 和 3 基因类别； InterPro2GO 数据库中的 5、4 和 2 个基因分别被鉴定为 Halayeb、Ismailia 和 Sallum 宏基因组之间丰度存在差异。此外，红海的 Halayeb 宏基因组报告了最多数量的 PKS 结构域，除了石油降解潜力之外，还显示出在次级代谢产物生产方面具有更高的潜力。
Marine and ecosystem pollution due to oil spills can be addressed by identifying the aromatic hydrocarbon (HC)-degrading microorganisms and their responsible genes for biodegradation. Moreover, screening for genes coding for secondary metabolites is invaluable for drug discovery. We report here, the first metagenomic study investigating the shotgun metagenome of the Suez Canal water sampled at Ismailia city concerning its aromatic HC degradation potential in comparison to the seawater sampled at Halayeb city at the Red Sea and Sallum city at the Mediterranean Sea. Moreover, for an in-depth understanding of marine biotechnology applications, we screened for the polyketide synthases (PKSs) and nonribosomal peptide synthetase (NRPS) domains in those three metagenomes. By mapping against functional protein databases, we found that 13, 6, and 3 gene classes from the SEED database; 2, 1, and 3 gene classes from the EgGNOG; and 5, 4, and 2 genes from the InterPro2GO database were identified to be differentially abundant among Halayeb, Ismailia, and Sallum metagenomes, respectively. Also, Halayeb metagenome in the Red Sea reported the highest number of PKS domains showing higher potential in secondary metabolite production in addition to the oil degradation potential.