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Microbial community shift under exposure of dredged sediments from a eutrophic bay

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Abstract

Microbial communities occur in almost every habitat. To evaluate the homeostasis disruption of in situ microbiomes, dredged sediments from Guanabara Bay-Brazil (GB) were mixed with sediments from outside of the bay (D) in three different proportions (25%, 50%, and 75%) which we called GBD25, GBD50, and GBD75. Grain size, TOC, and metals—as indicators of complex contamination—dehydrogenase (DHA) and esterase enzymes (EST)—as indicators of microbial community availability—were determined. Microbial community composition was addressed by amplifying the 16S rRNA gene for DGGE analysis and sequencing using MiSeq platform (Illumina).We applied the quality ratio index (QR) to the GB, D, and every GBD mixture to integrate geochemical parameters with our microbiome data. QR indicated high environmental risk for GB and every GBD mixture, and low risk for D. The community shifted from aerobic to anaerobic profile, consistent with the characteristics of GB. Sample D was dominated by JTB255 marine benthic group, related to low impacted areas. Milano-WF1B-44 was the most representative of GB, often found in anaerobic and sulfur enriched environments. In GBD, the denitrifying sulfur-oxidizing bacteria, Sulfurovum, was the most representative, typically found in suboxic or anoxic niches. The canonical correspondence analysis was able to explain 60% of the community composition variation and exhibit the decrease of environmental quality as the contamination increases. Physiological and taxonomic shifts of the microbial assemblage in sediments were inferred by QR, which was suitable to determine sediment risk. The study produced sufficient information to improve the dredging plan and management.

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Acknowledgments

The authors are thankful to professors Mirian Crapez, Emmanoel Silva-Filho, Renato Cordeiro, and Micheli Ferreira from Universidade Federal Fluminense (UFF) for lab facilities.

Funding

This study was financed by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior – Brasil (CAPES/ Finance Code 001 and Programa de Doutorado Sanduíche no Exterior no. 88881.135581/2016-01) and by the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq/Universal n°449631/2014-1 and CNPq/PDJ no. 155406/2018-3).

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Authors and Affiliations

  1. Programa de Pós-Graduação em Geociências (Geoquímica), Instituto de Química, Universidade Federal Fluminense, Niterói, RJ, 24020-150, Brazil

    Juliana R. Nascimento, Edison D. Bidone & Elisamara Sabadini-Santos

  2. Halmos College of Natural Sciences and Oceanography, Nova Southeastern University, Dania Beach, FL, 33004, USA

    Cole G. Easson & Jose V. Lopez

  3. Biology Department, Middle Tennessee State University, Murfreesboro, TN, USA

    Cole G. Easson

  4. Instituto de Microbiologia Professor Paulo de Góes, Centro de Ciências da Saúde, Universidade Federal do Rio de Janeiro, Rio de Janeiro, RJ, 21944-570, Brazil

    Diogo de A. Jurelevicius

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  1. Juliana R. Nascimento
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Correspondence to Juliana R. Nascimento.

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Nascimento, J.R., Easson, C.G., Jurelevicius, D.d.A. et al. Microbial community shift under exposure of dredged sediments from a eutrophic bay. Environ Monit Assess 192, 539 (2020). https://doi.org/10.1007/s10661-020-08507-8

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