Extremophiles

, Volume 21, Issue 2, pp 271–282 | Cite as

Insertion sequences enrichment in extreme Red sea brine pool vent

Original Paper

Abstract

Mobile genetic elements are major agents of genome diversification and evolution. Limited studies addressed their characteristics, including abundance, and role in extreme habitats. One of the rare natural habitats exposed to multiple-extreme conditions, including high temperature, salinity and concentration of heavy metals, are the Red Sea brine pools. We assessed the abundance and distribution of different mobile genetic elements in four Red Sea brine pools including the world’s largest known multiple-extreme deep-sea environment, the Red Sea Atlantis II Deep. We report a gradient in the abundance of mobile genetic elements, dramatically increasing in the harshest environment of the pool. Additionally, we identified a strong association between the abundance of insertion sequences and extreme conditions, being highest in the harshest and deepest layer of the Red Sea Atlantis II Deep. Our comparative analyses of mobile genetic elements in secluded, extreme and relatively non-extreme environments, suggest that insertion sequences predominantly contribute to polyextremophiles genome plasticity.

Keywords

Mobile genetic elements Insertion sequences Extremophiles Deep-sea hydrothermal vents Red Sea brine pools 

Abbreviations

AS

Activated sludge

ATIID

Atlantis II Deep

BR

BR, brine

DD

Discovery Deep

HGT

Horizontal gene transfer

IAI

Integron abundance index

INF

Brine-water interface

IS

Insertion sequences

ISAI

Insertion sequence abundance index

KD

Kebrit Deep

LCL

Lower convective layer

MGEs

Mobile genetic elements

PAI

Plasmid abundance index

QC

Quality control

SRA

Sequence Read Archive

UCL

Upper convective layer

US

United States

Notes

Acknowledgements

This work was initially supported by King Abdullah University for Science and Technology Global Collaborative Partners (GCR) program. The work was funded by an American University in Cairo Faculty (Research) Support Grant to RS. AHAE was funded by a Youssef Jameel PhD Fellowship. The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication. We thank the crew and scientists on board of the KAUST Red Sea Expedition in spring 2010 and 2012, in particular, chief scientists Drs. Abdulaziz Al-Suwailem and Andre Antunes. We acknowledge Dr. Ahmed Abdelaziz and Amged Ouf of the American University in Cairo for DNA preparation and Mustafa Adel for assistance with the bioinformatics analysis.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

792_2016_900_MOESM1_ESM.pdf (293 kb)
Table S1 Metadata for datasets investigated in this study. Table S2 Characteristics of sequencing data. Table S3 Analysis of Variance (ANOVA) and multiple comparisons for analyzed MGEs. Table S4 Relative abundance of bacterial and archaeal genera among IS-annotated reads. (PDF 292 kb)

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Copyright information

© Springer Japan 2016

Authors and Affiliations

  • Ali H. A. Elbehery
    • 1
  • Ramy K. Aziz
    • 2
  • Rania Siam
    • 1
    • 3
  1. 1.Graduate Program of Biotechnology, School of Sciences and EngineeringThe American University in CairoNew CairoEgypt
  2. 2.Department of Microbiology and Immunology, Faculty of PharmacyCairo UniversityCairoEgypt
  3. 3.Department of Biology, School of Sciences and EngineeringThe American University in CairoNew CairoEgypt

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