Comparative analysis of bacterial community-metagenomics in coastal Gulf of Mexico sediment microcosms following exposure to Macondo oil (MC252)

Handle URI:
http://hdl.handle.net/10754/563754
Title:
Comparative analysis of bacterial community-metagenomics in coastal Gulf of Mexico sediment microcosms following exposure to Macondo oil (MC252)
Authors:
Koo, Hyunmin; Mojib, Nazia ( 0000-0003-4924-5538 ) ; Thacker, Robert W.; Bej, Asim K.
Abstract:
The indigenous bacterial communities in sediment microcosms from Dauphin Island (DI), Petit Bois Island (PB) and Perdido Pass (PP) of the coastal Gulf of Mexico were compared following treatment with Macondo oil (MC252) using pyrosequencing and culture-based approaches. After quality-based trimming, 28,991 partial 16S rRNA sequence reads were analyzed by rarefaction, confirming that analyses of bacterial communities were saturated with respect to species diversity. Changes in the relative abundances of Proteobacteria, Bacteroidetes and Firmicutes played an important role in structuring bacterial communities in oil-treated sediments. Proteobacteria were dominant in oil-treated samples, whereas Firmicutes and Bacteroidetes were either the second or the third most abundant taxa. Tenericutes, members of which are known for oil biodegradation, were detected shortly after treatment, and continued to increase in DI and PP sediments. Multivariate statistical analyses (ADONIS) revealed significant dissimilarity of bacterial communities between oil-treated and untreated samples and among locations. In addition, a similarity percentage analysis showed the contribution of each species to the contrast between untreated and oil-treated samples. PCR amplification using DNA from pure cultures of Exiguobacterium,  Pseudoalteromonas,  Halomonas and Dyadobacter, isolated from oil-treated microcosm sediments, produced amplicons similar to polycyclic aromatic hydrocarbon-degrading genes. In the context of the 2010 Macondo blowout, the results from our study demonstrated that the indigenous bacterial communities in coastal Gulf of Mexico sediment microcosms responded to the MC252 oil with altered community structure and species composition. The rapid proliferation of hydrocarbonoclastic bacteria suggests their involvement in the degradation of the spilt oil in the Gulf of Mexico ecosystem.
KAUST Department:
Red Sea Research Center (RSRC); Marine Science Program
Publisher:
Springer Nature
Journal:
Antonie van Leeuwenhoek
Issue Date:
10-Sep-2014
DOI:
10.1007/s10482-014-0268-3
Type:
Article
ISSN:
00036072
Appears in Collections:
Articles; Red Sea Research Center (RSRC); Marine Science Program

Full metadata record

DC FieldValue Language
dc.contributor.authorKoo, Hyunminen
dc.contributor.authorMojib, Naziaen
dc.contributor.authorThacker, Robert W.en
dc.contributor.authorBej, Asim K.en
dc.date.accessioned2015-08-03T12:08:59Zen
dc.date.available2015-08-03T12:08:59Zen
dc.date.issued2014-09-10en
dc.identifier.issn00036072en
dc.identifier.doi10.1007/s10482-014-0268-3en
dc.identifier.urihttp://hdl.handle.net/10754/563754en
dc.description.abstractThe indigenous bacterial communities in sediment microcosms from Dauphin Island (DI), Petit Bois Island (PB) and Perdido Pass (PP) of the coastal Gulf of Mexico were compared following treatment with Macondo oil (MC252) using pyrosequencing and culture-based approaches. After quality-based trimming, 28,991 partial 16S rRNA sequence reads were analyzed by rarefaction, confirming that analyses of bacterial communities were saturated with respect to species diversity. Changes in the relative abundances of Proteobacteria, Bacteroidetes and Firmicutes played an important role in structuring bacterial communities in oil-treated sediments. Proteobacteria were dominant in oil-treated samples, whereas Firmicutes and Bacteroidetes were either the second or the third most abundant taxa. Tenericutes, members of which are known for oil biodegradation, were detected shortly after treatment, and continued to increase in DI and PP sediments. Multivariate statistical analyses (ADONIS) revealed significant dissimilarity of bacterial communities between oil-treated and untreated samples and among locations. In addition, a similarity percentage analysis showed the contribution of each species to the contrast between untreated and oil-treated samples. PCR amplification using DNA from pure cultures of Exiguobacterium,  Pseudoalteromonas,  Halomonas and Dyadobacter, isolated from oil-treated microcosm sediments, produced amplicons similar to polycyclic aromatic hydrocarbon-degrading genes. In the context of the 2010 Macondo blowout, the results from our study demonstrated that the indigenous bacterial communities in coastal Gulf of Mexico sediment microcosms responded to the MC252 oil with altered community structure and species composition. The rapid proliferation of hydrocarbonoclastic bacteria suggests their involvement in the degradation of the spilt oil in the Gulf of Mexico ecosystem.en
dc.publisherSpringer Natureen
dc.subjectBiodegradative genesen
dc.subjectBioinformaticsen
dc.subjectHydrocarbonoclastic bacteriaen
dc.subjectOil spillen
dc.subjectPCRen
dc.subjectPyrosequencingen
dc.subjectQiimeen
dc.titleComparative analysis of bacterial community-metagenomics in coastal Gulf of Mexico sediment microcosms following exposure to Macondo oil (MC252)en
dc.typeArticleen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.contributor.departmentMarine Science Programen
dc.identifier.journalAntonie van Leeuwenhoeken
dc.contributor.institutionDepartment of Biology, University of Alabama at BirminghamBirmingham, AL, United Statesen
kaust.authorMojib, Naziaen
All Items in KAUST are protected by copyright, with all rights reserved, unless otherwise indicated.