Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors

Wael M Abdel-Mageed; Bertalan Juhasz; Burhan Lehri; Ali S Alqahtani; Imen Nouioui; Dawrin Pech-Puch; Jioji N Tabudravu; Michael Goodfellow; Jaime Rodríguez; Marcel Jaspars; Andrey V Karlyshev

doi:10.3390/md18030131

Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors

Wael M Abdel-Mageed^* (Corresponding Author)
, Bertalan Juhasz
, Burhan Lehri
, Ali S Alqahtani
, Imen Nouioui
, Dawrin Pech-Puch
, Jioji N Tabudravu
, Michael Goodfellow
, Jaime Rodríguez
, Marcel Jaspars
, Andrey V Karlyshev

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

21 Citations (Scopus)

13 Downloads (Pure)

Abstract

Dermacoccus abyssi strain MT1.1T is a piezotolerant actinobacterium that was isolated from Mariana Trench sediment collected at a depth of 10898 m. The organism was found to produce ten dermacozines (A‒J) that belonged to a new phenazine family and which displayed various biological activities such as radical scavenging and cytotoxicity. Here, we report on the isolation and identification of a new dermacozine compound, dermacozine M, the chemical structure of which was determined using 1D and 2D-NMR, and high resolution MS. A whole genome sequence of the strain contained six secondary metabolite-biosynthetic gene clusters (BGCs), including one responsible for the biosynthesis of a family of phenazine compounds. A pathway leading to the biosynthesis of dermacozines is proposed. Bioinformatic analyses of key stress-related genes provide an insight into how the organism adapted to the environmental conditions that prevail in the deep-sea.

Original language	English
Article number	131
Number of pages	18
Journal	Marine Drugs
Volume	18
Issue number	3
DOIs	https://doi.org/10.3390/md18030131
Publication status	Published - 25 Feb 2020

Bibliographical note

Funding:
This work was supported by Researchers Supporting Project number (RSP-2019/132), King Saud University, Riyadh, Saudi Arabia.

Acknowledgements:
A.S.A. is thankful to the Researchers Supporting Project number (RSP-2019/132), King Saud University, Riyadh, Saudi Arabia.The authors are also indebted to Wasu Pathom-Aree (Chiang Mai University, Thailand) who isolated the strain.

Conflicts of Interest:
The authors declare that they don’t have any conflicts of interest.

Author Contributions:
W.M.A.-M., B.L. and A.V.K. were responsible for the whole genome sequencing and bioinformatic analyses; W.M.A.-M. and A.S.A. analyzed the sequence data for protein coding genes and their functions; B.J. and M.J. were responsible for cultivating the organism and for the isolation and identification of dermacozine M; I.N. and M.G. isolated and purified the DNA for whole genome sequencing and was responsible for the systematics; D.P.-P. and J.R. did the computational calculations; J.N.T. did the 13C chemical shift simulation and W.M.A.-M., B.J., B.L., A.S.A., M.G., D.P.-P., M.G., M.J. and A.V.K. prepared the manuscript; all of authors read and ap

Keywords

Mariana Trench
Dermacoccus abyssi MT1.1T
dermacozines
genome sequencing
biosynthetic gene clusters
Dermacozines
Genome sequencing
Biosynthetic gene clusters
Dermacoccus abyssi MT1.1
Dermacoccus abyssi MT1
COLD SHOCK
BACTERIA
SP NOV.
GENES
SHEWANELLA-VIOLACEA
1(T)
STRAIN
DERMACOZINES

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Abdel-Mageed_WholeGenomeSequence_VOR
© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
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Cite this

Abdel-Mageed, W. M., Juhasz, B., Lehri, B., Alqahtani, A. S., Nouioui, I., Pech-Puch, D., Tabudravu, J. N., Goodfellow, M., Rodríguez, J., Jaspars, M., & Karlyshev, A. V. (2020). Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors. Marine Drugs, 18(3), Article 131. https://doi.org/10.3390/md18030131

Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors. / Abdel-Mageed, Wael M (Corresponding Author); Juhasz, Bertalan; Lehri, Burhan et al.
In: Marine Drugs, Vol. 18, No. 3, 131, 25.02.2020.

Research output: Contribution to journal › Article › peer-review

Abdel-Mageed, WM, Juhasz, B, Lehri, B, Alqahtani, AS, Nouioui, I, Pech-Puch, D, Tabudravu, JN, Goodfellow, M, Rodríguez, J, Jaspars, M & Karlyshev, AV 2020, 'Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors', Marine Drugs, vol. 18, no. 3, 131. https://doi.org/10.3390/md18030131

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abstract = "Dermacoccus abyssi strain MT1.1T is a piezotolerant actinobacterium that was isolated from Mariana Trench sediment collected at a depth of 10898 m. The organism was found to produce ten dermacozines (A‒J) that belonged to a new phenazine family and which displayed various biological activities such as radical scavenging and cytotoxicity. Here, we report on the isolation and identification of a new dermacozine compound, dermacozine M, the chemical structure of which was determined using 1D and 2D-NMR, and high resolution MS. A whole genome sequence of the strain contained six secondary metabolite-biosynthetic gene clusters (BGCs), including one responsible for the biosynthesis of a family of phenazine compounds. A pathway leading to the biosynthesis of dermacozines is proposed. Bioinformatic analyses of key stress-related genes provide an insight into how the organism adapted to the environmental conditions that prevail in the deep-sea.",

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note = "Funding: This work was supported by Researchers Supporting Project number (RSP-2019/132), King Saud University, Riyadh, Saudi Arabia. Acknowledgements: A.S.A. is thankful to the Researchers Supporting Project number (RSP-2019/132), King Saud University, Riyadh, Saudi Arabia.The authors are also indebted to Wasu Pathom-Aree (Chiang Mai University, Thailand) who isolated the strain. Conflicts of Interest: The authors declare that they don{\textquoteright}t have any conflicts of interest. Author Contributions: W.M.A.-M., B.L. and A.V.K. were responsible for the whole genome sequencing and bioinformatic analyses; W.M.A.-M. and A.S.A. analyzed the sequence data for protein coding genes and their functions; B.J. and M.J. were responsible for cultivating the organism and for the isolation and identification of dermacozine M; I.N. and M.G. isolated and purified the DNA for whole genome sequencing and was responsible for the systematics; D.P.-P. and J.R. did the computational calculations; J.N.T. did the 13C chemical shift simulation and W.M.A.-M., B.J., B.L., A.S.A., M.G., D.P.-P., M.G., M.J. and A.V.K. prepared the manuscript; all of authors read and ap",

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AU - Juhasz, Bertalan

AU - Lehri, Burhan

AU - Alqahtani, Ali S

AU - Nouioui, Imen

AU - Pech-Puch, Dawrin

AU - Tabudravu, Jioji N

AU - Goodfellow, Michael

AU - Rodríguez, Jaime

AU - Jaspars, Marcel

AU - Karlyshev, Andrey V

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JO - Marine Drugs

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ER -

Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors

Abstract

Bibliographical note

Keywords

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