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Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters.
Marine Genomics ( IF 1.3 ) Pub Date : 2020-05-06 , DOI: 10.1016/j.margen.2020.100782
Wael M Abdel-Mageed 1 , Burhan Lehri 2 , Scott A Jarmusch 3 , Kevin Miranda 3 , Lamya H Al-Wahaibi 4 , Heather A Stewart 5 , Alan J Jamieson 6 , Marcel Jaspars 3 , Andrey V Karlyshev 2
Affiliation  

Whole genome sequences of four bacterial strains Dietzia maris SST1, Pseudomonas zhaodongensis SST2, Pseudomonas sp. SST3 and Halomonas sulfidaeris SST4, recovered from the South Shetland Trench sediment in Antarctica were analyzed using Ion Torrent sequencing technology. The respective sizes of their genomes (3.88, 4.99, 5.60 and 4.25 Mb) and GC contents (70.0, 60.3, 59.9 and 53.8%) are in agreement with these values of other strains of the species. The bacterial strains displayed promising antimicrobial activity against a number of pathogenic bacterial and fungal species. Whole genomes have been assembled and biosynthetic gene clusters (BGCs) have been identified using the antibiotics and Secondary Metabolite Analysis Shell (antiSMASH) web platform. Comparative analysis of the genome sequences revealed that the strains host abundant BGCs encoding for terpenes, siderophores, arylpolyene, bacteriocins, and lassopeptides. Furthermore, the key stress-related genes were identified and their distribution provided an insight into how these isolates adapt to key marine environmental conditions. This comprehensive study is a contribution to understanding the nature of life on the deep-sea environments.



中文翻译:

南设得兰海沟的四个细菌菌株的全基因组测序揭示了生物合成和环境适应基因簇。

四种细菌菌株Dietzia maris SST1,昭东假单胞菌SST2,Pseudomonas sp。的全基因组序列SST3和嗜盐单胞菌使用离子激流测序技术分析了从南极南舍得兰海沟沉积物中回收的SST4。其基因组的各自大小(3.88、4.99、5.60和4.25 Mb)和GC含量(70.0、60.3、59.9和53.8%)与该物种其他菌株的这些值一致。细菌菌株显示出对许多病原性细菌和真菌物种的有希望的抗菌活性。整个基因组已组装完毕,并已使用抗生素和次生代谢产物分析外壳(antiSMASH)网络平台鉴定了生物合成基因簇(BGC)。基因组序列的比较分析表明,该菌株携带大量BGC,它们编码萜烯,铁载体,芳基多烯,细菌素和小肽。此外,鉴定了与压力有关的关键基因,它们的分布提供了对这些分离物如何适应关键海洋环境条件的认识。这项全面的研究有助于理解深海环境中的生命本质。

更新日期:2020-05-06
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