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Prokaryotic community profiling of local algae wastewaters using advanced 16S rRNA gene sequencing

Abstract

Algae biomass-fed wastewaters are a promising source of lipid and bioenergy manufacture, revealing substantial end-product investment returns. However, wastewaters would contain lytic pathogens carrying drug resistance detrimental to algae yield and environmental safety. This study was conducted to simultaneously decipher through high-throughput advanced Illumina 16S ribosomal RNA (rRNA) gene sequencing, the cultivable and uncultivable bacterial community profile found in a single sample that was directly recovered from the local wastewater systems. Samples were collected from two previously documented sources including anaerobically digested (AD) municipal wastewater and swine wastewater with algae namely Chlorella spp. in addition to control samples, swine wastewater, and municipal wastewater without algae. Results indicated the presence of a significant level of Bacteria in all samples with an average of approximately 95.49% followed by Archaea 2.34%, in local wastewaters designed for algae cultivation. Taxonomic genus identification indicated the presence of Calothrix, Pseudomonas, and Clostridium as the most prevalent strains in both local municipal and swine wastewater samples containing algae with an average of 17.37, 12.19, and 7.84%, respectively. Interestingly, swine wastewater without algae displayed the lowest level of Pseudomonas strains < 0.1%. The abundance of some Pseudomonas species in wastewaters containing algae indicates potential coexistence between these strains and algae microenvironment, suggesting further investigations. This finding was particularly relevant for the earlier documented adverse effects of some nosocomial Pseudomonas strains on algae growth and their multidrug resistance potential, requiring the development of targeted bioremediation with regard to the beneficial flora.

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Acknowledgements

We thank the Office of Research and Innovations at the University of South Florida for their financial support through their interdisciplinary grant for the Department of Cell Biology, Microbiology, and Molecular Biology (CMMB) along with the College of Pharmacy and Internal Medicine. We also thank the Department of Environmental Engineering at the University of South Florida for providing us with algae-wastewater samples.

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Correspondence to Alya Limayem.

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Responsible editor: Gerald Thouand

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Limayem, A., Micciche, A., Nayak, B. et al. Prokaryotic community profiling of local algae wastewaters using advanced 16S rRNA gene sequencing. Environ Sci Pollut Res 25, 704–711 (2018). https://doi.org/10.1007/s11356-017-0078-z

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Keywords

  • High-throughput Illumina16S rRNA gene amplicon sequencing
  • Algae wastewaters
  • Lytic bacteria
  • Drug resistance
  • Pseudomonas
  • Bioinformatics
  • Profiling
  • Taxonomy