BACKGROUND Rhodococci are industrially important soil-dwelling Gram-positive bacteria that are well known for both nitrile hydrolysis and oxidative metabolism of aromatics. Rhodococcus rhodochrous ATCC BAA-870 is capable of metabolising a wide range of aliphatic and aromatic nitriles and amides. The genome of the organism was sequenced and analysed in order to better understand this whole cell biocatalyst. RESULTS The genome of R. rhodochrous ATCC BAA-870 is the first Rhodococcus genome fully sequenced using Nanopore sequencing. The circular genome contains 5.9 megabase pairs (Mbp) and includes a 0.53 Mbp linear plasmid, that together encode 7548 predicted protein sequences according to BASys annotation, and 5535 predicted protein sequences according to RAST annotation. The genome contains numerous oxidoreductases, 15 identified antibiotic and secondary metabolite gene clusters, several terpene and nonribosomal peptide synthetase clusters, as well as 6 putative clusters of unknown type. The 0.53 Mbp plasmid encodes 677 predicted genes and contains the nitrile converting gene cluster, including a nitrilase, a low molecular weight nitrile hydratase, and an enantioselective amidase. Although there are fewer biotechnologically relevant enzymes compared to those found in rhodococci with larger genomes, such as the well-known Rhodococcus jostii RHA1, the abundance of transporters in combination with the myriad of enzymes found in strain BAA-870 might make it more suitable for use in industrially relevant processes than other rhodococci. CONCLUSIONS The sequence and comprehensive description of the R. rhodochrous ATCC BAA-870 genome will facilitate the additional exploitation of rhodococci for biotechnological applications, as well as enable further characterisation of this model organism. The genome encodes a wide range of enzymes, many with unknown substrate specificities supporting potential applications in biotechnology, including nitrilases, nitrile hydratase, monooxygenases, cytochrome P450s, reductases, proteases, lipases, and transaminases.

中文翻译：

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腈类生物催化剂Rhodocccus rhodochrous ATCC BAA-870的完整基因组序列。

背景技术红球菌是工业上重要的居住在土壤中的革兰氏阳性细菌，因腈水解和芳香族化合物的氧化代谢而广为人知。杜鹃红球菌ATCC BAA-870能够代谢多种脂族和芳族腈和酰胺。为了更好地了解这种全细胞生物催化剂，对该生物的基因组进行了测序和分析。结果红球菌ATCC BAA-870的基因组是第一个使用纳米孔测序法完全测序的红球菌基因组。环状基因组包含5.9兆碱基对（Mbp），包括一个0.53 Mbp线性质粒，根据BASys注释，它们一起编码7548个预测的蛋白质序列，根据RAST注释，编码5535个预测的蛋白质序列。基因组包含许多氧化还原酶，15个已鉴定的抗生素和次级代谢产物基因簇，几个萜烯和非核糖体肽合成酶簇以及6个未知类型的推定簇。0.53 Mbp质粒编码677个预测基因，并包含腈转化基因簇，包括腈水解酶，低分子量腈水合酶和对映选择性酰胺酶。尽管与具有较大基因组的红球菌相比，与生物技术相关的酶较少，例如著名的红球菌RHA1，但转运蛋白的丰富结合在BAA-870菌株中发现的无数酶可能使其更适合在工业上相关的过程中使用的比其他杜鹃球菌。结论R的顺序和全面描述。杜鹃属的ATCC BAA-870基因组将促进杜鹃球菌在生物技术应用中的进一步开发，并使这种模式生物得以进一步表征。基因组编码多种酶，许多酶具有未知的底物特异性，支持生物技术中的潜在应用，包括腈水解酶，腈水合酶，单加氧酶，细胞色素P450，还原酶，蛋白酶，脂肪酶和转氨酶。