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Draft genome and secondary metabolite biosynthetic gene clusters of Streptomyces sp. strain 196.
Molecular Biology Reports ( IF 2.8 ) Pub Date : 2020-09-04 , DOI: 10.1007/s11033-020-05731-w
Prateek Kumar 1 , Anjali Chauhan 2, 3 , Munendra Kumar 1 , Bijoy K Kuanr 3 , Renu Solanki 4 , Monisha Khanna Kapur 1
Affiliation  

Emergence of MDR ‘superbugs’ inflamed a severe sense of urgency amongst scientists aiming at the discovery of novel potential drug molecules. Bacteria of the genus Streptomyces are really worth investigating for their immense potential to produce natural compounds of pharmaceutical importance. In the present study, the genome of Streptomyces sp. strain 196 was sequenced, studied and secondary metabolite biosynthetic gene clusters (smBGCs) were detected. FAME analysis was used for taxonomic validation of strain 196. Genome of strain 196 was sequenced using the Illumina NextSeq system which has resulted in a draft genome of 7.4 Mb. Rapid annotation using subsystem technology (RAST) results revealed the presence of 6682 CDS, 64 tRNA genes and 7 rRNA genes. Comparative studies revealed that strain 196 have 93.5% nucleotide and 96% protein level similarities with Streptomyces rhizosphaericola 1AS2c. Genome mining using antiSMASH predicted the presence of BGCs responsible for diverse bioactive compound production. The detected gene clusters were two PKS-III, one PKS-I, five NRPS, two hybrid PKS-I/NRPS, one thiopeptide/LAP, and one bacteriocin types. Furthermore, many other types BGCs such as three ectoine, two siderophore, one arylpolyene, two butyrolactone, one lassopeptide, one lanthipeptide and one melanin were also found. The results of this study provides information about genome and BGCs of strain 196, this information is valuable for researchers who are interested in isolation of bioactive compounds and working on heterologous expression of cryptic BGCs for novel bioactive compounds production.



中文翻译:

草拟链霉菌的基因组草图和次级代谢产物生物合成基因簇。菌株196。

MDR“超级细菌”的出现激起了旨在发现新型潜在药物分子的科学家们的紧迫感。链霉菌属的细菌因其产生具有药物重要性的天然化合物的巨大潜力确实值得研究。在本研究中,链霉菌的基因组sp。对196株进行了测序,研究和检测了次生代谢物生物合成基因簇(smBGCs)。FAME分析用于菌株196的分类学验证。使用Illumina NextSeq系统对菌株196的基因组进行了测序,得出的基因组草图为7.4 Mb。使用子系统技术(RAST)的快速注释结果揭示了6682个CDS,64个tRNA基因和7个rRNA基因的存在。比较研究表明,菌株196与发根链霉菌具有93.5%的核苷酸和96%的蛋白质水平相似性1AS2c。使用antiSMASH进行基因组采矿可预测BGC的存在,这些BGC负责多种生物活性化合物的生产。检测到的基因簇是两种PKS-III,一种PKS-I,五个NRPS,两种杂化PKS-1 / NRPS,一种硫肽/ LAP和一种细菌素类型。此外,还发现了许多其他类型的BGC,例如三个油桃,两个铁载体,一个芳基多烯,两个丁内酯,一个小肽,一个小肽和一个黑色素。这项研究的结果提供了有关菌株196的基因组和BGC的信息,该信息对于对分离生物活性化合物以及致力于隐秘BGC的异源表达以生产新型生物活性化合物感兴趣的研究人员而言非常有价值。

更新日期:2020-09-05
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