Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters

Wael M Abdel-Mageed* (Corresponding Author), Burhan Lehri, Scott A Jarmusch, Kevin Miranda, Lamya H Al-Wahaibi, Heather A Stewart, Alan J Jamieson, Marcel Jaspars* (Corresponding Author), Andrey V Karlyshev

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

11 Citations (Scopus)
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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.

Original languageEnglish
Article number100782
Number of pages11
JournalMarine Genomics
Early online date6 May 2020
Publication statusPublished - Dec 2020

Bibliographical note

L.H.A. thanks the Deanship of Scientific Research at Princess Nourah bint Abdulrahman University for funding this work through the Fast-track Research Funding Program. The authors thank the Captain, crew and scientific party of the 2015-16 ‘PharmaDeep’ cruise on the Spanish Antarctic vessel BIO Hesperides. The cruise activity was supported by the European Union Research Infrastructures project ´EuroFleets 2´ under the 7th Framework Programme of the European Commission (agreement no. 312762). A.J.J. was the awardee of PharmaDeep: New Pharmaceuticals from the deep Antarctic. The authors also would like to thank John Still at ACEMAC for SEM images and the assay providers at Medina for their contribution.


  • South Shetland Trench
  • Dietzia sp.
  • Pseudomonas sp.
  • Halomonas sp.
  • Genome sequencing
  • biosynthetic gene clusters
  • Antimicrobials
  • Biosynthetic gene clusters


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