Soil and Rhizosphere Associated Fungi in Grey Mangroves (Avicennia marina) from the Red Sea - A Metagenomic Approach

Handle URI:
http://hdl.handle.net/10754/582478
Title:
Soil and Rhizosphere Associated Fungi in Grey Mangroves (Avicennia marina) from the Red Sea - A Metagenomic Approach
Authors:
Simoes, Marta; Antunes, Andre ( 0000-0001-7668-9842 ) ; Ottoni, Cristiane A.; Amini, Mohammad Shoaib ( 0000-0001-7486-7190 ) ; Alam, Intikhab; Alzubaidy, Hanin S. ( 0000-0002-3388-4039 ) ; Mokhtar, Noor Azlin; Archer, John A.C. ( 0000-0002-3302-3933 ) ; Bajic, Vladimir B. ( 0000-0001-5435-4750 )
Abstract:
Covering a quarter of the world’s tropical coastlines and being one of the most threatened ecosystems, mangroves are among the major sources of terrestrial organic matter to oceans and harbor a wide microbial diversity. In order to protect, restore, and better understand these ecosystems, researchers have extensively studied their microbiology, yet few surveys have focused on their fungal communities. Our lack of knowledge is even more pronounced for specific fungal populations, such as the ones associated with the rhizosphere. Likewise, the Red Sea grey mangroves (Avicennia marina) remain poorly characterized, and understanding of their fungal communities still relies on cultivation-dependent methods. In this study, we analyzed metagenomic datasets from grey mangrove rhizosphere and bulk soil samples collected in the Red Sea coast, to obtain a snapshot of their fungal communities. Our data indicated that Ascomycota was the dominant phylum (76%–85%), while Basidiomycota was less abundant (14%–24%), yet present in higher numbers than usually reported for such environments. Fungal communities were more stable within the rhizosphere than within the bulk soil, both at class and genus level. This finding is consistent with the intrinsic patchiness in soil sediments and with the selection of specific microbial communities by plant roots. Our study indicates the presence of several species on this mycobiome that were not previously reported as mangrove-associated. In particular, we detected representatives of several commercially-used fungi, e.g., producers of secreted cellulases and anaerobic producers of cellulosomes. These results represent additional insights into the fungal community of the grey mangroves of the Red Sea, and show that they are significantly richer than previously reported.
KAUST Department:
Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Citation:
Soil and Rhizosphere Associated Fungi in Grey Mangroves (Avicennia marina) from the Red Sea - A Metagenomic Approach 2015 Genomics, Proteomics & Bioinformatics
Publisher:
Elsevier BV
Journal:
Genomics, Proteomics & Bioinformatics
Issue Date:
5-Nov-2015
DOI:
10.1016/j.gpb.2015.07.002
Type:
Article
ISSN:
16720229
Additional Links:
http://linkinghub.elsevier.com/retrieve/pii/S1672022915001382
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorSimoes, Martaen
dc.contributor.authorAntunes, Andreen
dc.contributor.authorOttoni, Cristiane A.en
dc.contributor.authorAmini, Mohammad Shoaiben
dc.contributor.authorAlam, Intikhaben
dc.contributor.authorAlzubaidy, Hanin S.en
dc.contributor.authorMokhtar, Noor Azlinen
dc.contributor.authorArcher, John A.C.en
dc.contributor.authorBajic, Vladimir B.en
dc.date.accessioned2015-11-22T07:06:33Zen
dc.date.available2015-11-22T07:06:33Zen
dc.date.issued2015-11-05en
dc.identifier.citationSoil and Rhizosphere Associated Fungi in Grey Mangroves (Avicennia marina) from the Red Sea - A Metagenomic Approach 2015 Genomics, Proteomics & Bioinformaticsen
dc.identifier.issn16720229en
dc.identifier.doi10.1016/j.gpb.2015.07.002en
dc.identifier.urihttp://hdl.handle.net/10754/582478en
dc.description.abstractCovering a quarter of the world’s tropical coastlines and being one of the most threatened ecosystems, mangroves are among the major sources of terrestrial organic matter to oceans and harbor a wide microbial diversity. In order to protect, restore, and better understand these ecosystems, researchers have extensively studied their microbiology, yet few surveys have focused on their fungal communities. Our lack of knowledge is even more pronounced for specific fungal populations, such as the ones associated with the rhizosphere. Likewise, the Red Sea grey mangroves (Avicennia marina) remain poorly characterized, and understanding of their fungal communities still relies on cultivation-dependent methods. In this study, we analyzed metagenomic datasets from grey mangrove rhizosphere and bulk soil samples collected in the Red Sea coast, to obtain a snapshot of their fungal communities. Our data indicated that Ascomycota was the dominant phylum (76%–85%), while Basidiomycota was less abundant (14%–24%), yet present in higher numbers than usually reported for such environments. Fungal communities were more stable within the rhizosphere than within the bulk soil, both at class and genus level. This finding is consistent with the intrinsic patchiness in soil sediments and with the selection of specific microbial communities by plant roots. Our study indicates the presence of several species on this mycobiome that were not previously reported as mangrove-associated. In particular, we detected representatives of several commercially-used fungi, e.g., producers of secreted cellulases and anaerobic producers of cellulosomes. These results represent additional insights into the fungal community of the grey mangroves of the Red Sea, and show that they are significantly richer than previously reported.en
dc.language.isoenen
dc.publisherElsevier BVen
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S1672022915001382en
dc.rights© 2015. This manuscript version is made available under the CC-BY-NC-ND 4.0 license http://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.subjectFungal diversityen
dc.subjectAscomycotaen
dc.subjectBasidiomycotaen
dc.subjectRed Seaen
dc.subjectMetagenomicsen
dc.subjectBioinformaticsen
dc.titleSoil and Rhizosphere Associated Fungi in Grey Mangroves (Avicennia marina) from the Red Sea - A Metagenomic Approachen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Divisionen
dc.identifier.journalGenomics, Proteomics & Bioinformaticsen
dc.eprint.versionPost-printen
dc.contributor.institutionLaboratório de Biotecnologia Industrial (LBI), Instituto de Pesquisas Tecnológicas do Estado de São Paulo (IPT), São Paulo 05508-901, Brazilen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorSimoes, Martaen
kaust.authorAntunes, Andreen
kaust.authorAmini, Mohammad Shoaiben
kaust.authorAlam, Intikhaben
kaust.authorAlzubaidy, Hanin S.en
kaust.authorMokhtar, Noor Azlinen
kaust.authorArcher, John A.C.en
kaust.authorBajic, Vladimir B.en
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