Terpene synthases are widely distributed in bacteria
Terpene synthases are widely distributed in bacteria
复制标题
DOI：
10.1073/pnas.1422108112
复制
发表时间：
2015-01-20
影响因子：
11.1
通讯作者：
Ikeda, Haruo
中科院分区：
文献类型：
--
作者：
Yamada, Yuuki;Kuzuyama, Tomohisa;Ikeda, Haruo
细菌来源的有气味的萜烯代谢物已经知道很多年了。在基因组测序的链霉菌科微生物中，绝大多数产生降解的倍半萜醇土臭素。有两种细菌不产生土臭素，其中一种细菌产生其他倍半萜醇，而另一种细菌不产生任何可检测到的萜类代谢物。由于细菌萜烯合成酶通常与任何其他已知的真菌或植物萜烯合成酶没有显着的总体序列相似性，并且通常与其他细菌合成酶具有相对低水平的相互序列相似性，因此排除了蛋白质序列数据与环萜烯产物结构的简单相关性。我们之前描述了一种基于隐马尔可夫模型（hmm）和蛋白质家族数据库（Pfam）搜索的强大搜索方法，该方法允许发现细菌来源的单萜合成酶。使用使用140个先前确定的细菌萜烯合成酶序列的训练集生成的增强HMM参数集，Pfam搜索了来自公共数据库和内部草稿基因组数据的8,759,463种预测细菌蛋白质，现在已经揭示了262种推定的萜烯合成酶。这些推测的萜烯合成酶基因中有相当一部分的生化功能可以通过特殊工程的异源链霉菌宿主的表达和所产生的萜烯产物的光谱鉴定来确定。除了以前从真菌或植物来源中报道的各种萜烯外，我们还分离并确定了13种以前未识别的环倍半萜和二萜的完整结构。
Odoriferous terpene metabolites of bacterial origin have been known for many years. In genome-sequenced Streptomycetaceae microorganisms, the vast majority produces the degraded sesquiterpene alcohol geosmin. Two minor groups of bacteria do not produce geosmin, with one of these groups instead producing other sesquiterpene alcohols, whereas members of the remaining group do not produce any detectable terpenoid metabolites. Because bacterial terpene synthases typically show no significant overall sequence similarity to any other known fungal or plant terpene synthases and usually exhibit relatively low levels of mutual sequence similarity with other bacterial synthases, simple correlation of protein sequence data with the structure of the cyclized terpene product has been precluded. We have previously described a powerful search method based on the use of hidden Markov models (HMMs) and protein families database (Pfam) search that has allowed the discovery of monoterpene synthases of bacterial origin. Using an enhanced set of HMM parameters generated using a training set of 140 previously identified bacterial terpene synthase sequences, a Pfam search of 8,759,463 predicted bacterial proteins from public databases and in-house draft genome data has now revealed 262 presumptive terpene synthases. The biochemical function of a considerable number of these presumptive terpene synthase genes could be determined by expression in a specially engineered heterologous Streptomyces host and spectroscopic identification of the resulting terpene products. In addition to a wide variety of terpenes that had been previously reported from fungal or plant sources, we have isolated and determined the complete structures of 13 previously unidentified cyclic sesquiterpenes and diterpenes.