[Mini review] metagenomic studies of the Red Sea

Handle URI:
http://hdl.handle.net/10754/581498
Title:
[Mini review] metagenomic studies of the Red Sea
Authors:
Behzad, Hayedeh; Ibarra, Martin Augusto; Mineta, Katsuhiko ( 0000-0002-4727-045X ) ; Gojobori, Takashi ( 0000-0001-7850-1743 )
Abstract:
Metagenomics has significantly advanced the field of marine microbial ecology, revealing the vast diversity of previously unknown microbial life forms in different marine niches. The tremendous amount of data generated has enabled identification of a large number of microbial genes (metagenomes), their community interactions, adaptation mechanisms, and their potential applications in pharmaceutical and biotechnology-based industries. Comparative metagenomics reveals that microbial diversity is a function of the local environment, meaning that unique or unusual environments typically harbor novel microbial species with unique genes and metabolic pathways. The Red Sea has an abundance of unique characteristics; however, its microbiota is one of the least studied amongst marine environments. The Red Sea harbors approximately 25 hot anoxic brine pools, plus a vibrant coral reef ecosystem. Physiochemical studies describe the Red Sea as an oligotrophic environment that contains one of the warmest and saltiest waters in the world with year-round high UV radiations. These characteristics are believed to have shaped the evolution of microbial communities in the Red Sea. Over-representation of genes involved in DNA repair, high-intensity light responses, and osmolyte C1 oxidation were found in the Red Sea metagenomic databases suggesting acquisition of specific environmental adaptation by the Red Sea microbiota. The Red Sea brine pools harbor a diverse range of halophilic and thermophilic bacterial and archaeal communities, which are potential sources of enzymes for pharmaceutical and biotechnology-based application. Understanding the mechanisms of these adaptations and their function within the larger ecosystem could also prove useful in light of predicted global warming scenarios where global ocean temperatures are expected to rise by 1–3 °C in the next few decades. In this review, we provide an overview of the published metagenomic studies that were conducted in the Red Sea, and the bio-prospecting potential of the Red Sea microbiota. Furthermore, we discuss the limitations of the previous studies and the need for generating a large and representative metagenomic database of the Red Sea to help establish a dynamic model of the Red Sea microbiota.
KAUST Department:
Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division; Biological and Environmental Sciences and Engineering (BESE) Division
Citation:
[Mini review] metagenomic studies of the Red Sea 2015 Gene
Publisher:
Elsevier BV
Journal:
Gene
Issue Date:
23-Oct-2015
DOI:
10.1016/j.gene.2015.10.034
Type:
Article
ISSN:
03781119
Additional Links:
http://linkinghub.elsevier.com/retrieve/pii/S0378111915012421
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC); Biological and Environmental Sciences and Engineering (BESE) Division; Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorBehzad, Hayedehen
dc.contributor.authorIbarra, Martin Augustoen
dc.contributor.authorMineta, Katsuhikoen
dc.contributor.authorGojobori, Takashien
dc.date.accessioned2015-11-01T11:02:29Zen
dc.date.available2015-11-01T11:02:29Zen
dc.date.issued2015-10-23en
dc.identifier.citation[Mini review] metagenomic studies of the Red Sea 2015 Geneen
dc.identifier.issn03781119en
dc.identifier.doi10.1016/j.gene.2015.10.034en
dc.identifier.urihttp://hdl.handle.net/10754/581498en
dc.description.abstractMetagenomics has significantly advanced the field of marine microbial ecology, revealing the vast diversity of previously unknown microbial life forms in different marine niches. The tremendous amount of data generated has enabled identification of a large number of microbial genes (metagenomes), their community interactions, adaptation mechanisms, and their potential applications in pharmaceutical and biotechnology-based industries. Comparative metagenomics reveals that microbial diversity is a function of the local environment, meaning that unique or unusual environments typically harbor novel microbial species with unique genes and metabolic pathways. The Red Sea has an abundance of unique characteristics; however, its microbiota is one of the least studied amongst marine environments. The Red Sea harbors approximately 25 hot anoxic brine pools, plus a vibrant coral reef ecosystem. Physiochemical studies describe the Red Sea as an oligotrophic environment that contains one of the warmest and saltiest waters in the world with year-round high UV radiations. These characteristics are believed to have shaped the evolution of microbial communities in the Red Sea. Over-representation of genes involved in DNA repair, high-intensity light responses, and osmolyte C1 oxidation were found in the Red Sea metagenomic databases suggesting acquisition of specific environmental adaptation by the Red Sea microbiota. The Red Sea brine pools harbor a diverse range of halophilic and thermophilic bacterial and archaeal communities, which are potential sources of enzymes for pharmaceutical and biotechnology-based application. Understanding the mechanisms of these adaptations and their function within the larger ecosystem could also prove useful in light of predicted global warming scenarios where global ocean temperatures are expected to rise by 1–3 °C in the next few decades. In this review, we provide an overview of the published metagenomic studies that were conducted in the Red Sea, and the bio-prospecting potential of the Red Sea microbiota. Furthermore, we discuss the limitations of the previous studies and the need for generating a large and representative metagenomic database of the Red Sea to help establish a dynamic model of the Red Sea microbiota.en
dc.language.isoenen
dc.publisherElsevier BVen
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S0378111915012421en
dc.rightsNOTICE: this is the author’s version of a work that was accepted for publication in Gene. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Gene, 23 October 2015. DOI: 10.1016/j.gene.2015.10.034en
dc.subjectRed Seaen
dc.subjectmetagenomicsen
dc.subjectmicrobiotaen
dc.subjectunique nichesen
dc.subjectnovel species and genesen
dc.subjectbiotechnologyen
dc.subjectdynamic modelsen
dc.title[Mini review] metagenomic studies of the Red Seaen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Divisionen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.identifier.journalGeneen
dc.eprint.versionPost-printen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorBehzad, Hayedehen
kaust.authorIbarra, Martin Augustoen
kaust.authorMineta, Katsuhikoen
kaust.authorGojobori, Takashien
All Items in KAUST are protected by copyright, with all rights reserved, unless otherwise indicated.