Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters
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 the...
Published in: | Marine Genomics |
---|---|
Main Authors: | , , , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | unknown |
Published: |
Elsevier
2020
|
Subjects: | |
Online Access: | http://nora.nerc.ac.uk/id/eprint/527983/ https://doi.org/10.1016/j.margen.2020.100782 |
id |
ftnerc:oai:nora.nerc.ac.uk:527983 |
---|---|
record_format |
openpolar |
spelling |
ftnerc:oai:nora.nerc.ac.uk:527983 2023-05-15T13:41:45+02:00 Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters Abdel-Mageed, Wael M. Lehri, Burhan Jarmusch, Scott A. Miranda, Kevin Al-Wahaibi, Lamya H. Stewart, Heather A. Jamieson, Alan J. Jaspars, Marcel Karlyshev, Andrey V. 2020-12 http://nora.nerc.ac.uk/id/eprint/527983/ https://doi.org/10.1016/j.margen.2020.100782 unknown Elsevier Abdel-Mageed, Wael M.; Lehri, Burhan; Jarmusch, Scott A.; Miranda, Kevin; Al-Wahaibi, Lamya H.; Stewart, Heather A.; Jamieson, Alan J.; Jaspars, Marcel; Karlyshev, Andrey V. 2020 Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters. Marine Genomics, 54, 100782. https://doi.org/10.1016/j.margen.2020.100782 <https://doi.org/10.1016/j.margen.2020.100782> Publication - Article PeerReviewed 2020 ftnerc https://doi.org/10.1016/j.margen.2020.100782 2023-02-04T19:50:47Z 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. Article in Journal/Newspaper Antarc* Antarctica Natural Environment Research Council: NERC Open Research Archive South Shetland Trench ENVELOPE(-59.500,-59.500,-61.000,-61.000) Marine Genomics 54 100782 |
institution |
Open Polar |
collection |
Natural Environment Research Council: NERC Open Research Archive |
op_collection_id |
ftnerc |
language |
unknown |
description |
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. |
format |
Article in Journal/Newspaper |
author |
Abdel-Mageed, Wael M. Lehri, Burhan Jarmusch, Scott A. Miranda, Kevin Al-Wahaibi, Lamya H. Stewart, Heather A. Jamieson, Alan J. Jaspars, Marcel Karlyshev, Andrey V. |
spellingShingle |
Abdel-Mageed, Wael M. Lehri, Burhan Jarmusch, Scott A. Miranda, Kevin Al-Wahaibi, Lamya H. Stewart, Heather A. Jamieson, Alan J. Jaspars, Marcel Karlyshev, Andrey V. Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
author_facet |
Abdel-Mageed, Wael M. Lehri, Burhan Jarmusch, Scott A. Miranda, Kevin Al-Wahaibi, Lamya H. Stewart, Heather A. Jamieson, Alan J. Jaspars, Marcel Karlyshev, Andrey V. |
author_sort |
Abdel-Mageed, Wael M. |
title |
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
title_short |
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
title_full |
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
title_fullStr |
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
title_full_unstemmed |
Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters |
title_sort |
whole genome sequencing of four bacterial strains from south shetland trench revealing biosynthetic and environmental adaptation gene clusters |
publisher |
Elsevier |
publishDate |
2020 |
url |
http://nora.nerc.ac.uk/id/eprint/527983/ https://doi.org/10.1016/j.margen.2020.100782 |
long_lat |
ENVELOPE(-59.500,-59.500,-61.000,-61.000) |
geographic |
South Shetland Trench |
geographic_facet |
South Shetland Trench |
genre |
Antarc* Antarctica |
genre_facet |
Antarc* Antarctica |
op_relation |
Abdel-Mageed, Wael M.; Lehri, Burhan; Jarmusch, Scott A.; Miranda, Kevin; Al-Wahaibi, Lamya H.; Stewart, Heather A.; Jamieson, Alan J.; Jaspars, Marcel; Karlyshev, Andrey V. 2020 Whole genome sequencing of four bacterial strains from South Shetland Trench revealing biosynthetic and environmental adaptation gene clusters. Marine Genomics, 54, 100782. https://doi.org/10.1016/j.margen.2020.100782 <https://doi.org/10.1016/j.margen.2020.100782> |
op_doi |
https://doi.org/10.1016/j.margen.2020.100782 |
container_title |
Marine Genomics |
container_volume |
54 |
container_start_page |
100782 |
_version_ |
1766156911570321408 |