Species sorting and seasonal dynamics primarily shape bacterial communities in the Upper Mississippi River

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127 Scopus citations


Bacterial community structure (BCS) in freshwater ecosystems varies seasonally and due to physicochemical gradients, but metacommunity structure of a major river remains understudied. Here we characterize the BCS along the Mississippi River and contributing rivers in Minnesota over three years using Illumina next-generation sequencing, to determine how changes in environmental conditions as well as inputs from surrounding land and confluences impacted community structure. Contributions of sediment to water microbial diversity were also evaluated. Long-term variation in community membership was observed, and significant shifts in relative abundances of major freshwater taxa, including α-. Proteobacteria, Burkholderiales, and Actinomycetales, were observed due to temporal and spatial variations. Environmental parameters (e.g. temperature, rainfall, and nutrient concentrations) primarily contributed to differences in phyla abundances (88% of variance), with minimal influence from spatial distance alone (<. 1% of variance). Furthermore, an annually-recurrent BCS was observed in late summer, further suggesting that seasonal dynamics strongly influence community composition. Sediment communities differed from those in the water, but contributed up to 50% to community composition in the water column. Among water sampling sites, 34% showed significant variability in BCS of replicate samples indicating variability among riverine communities due to heterogeneity in the water column. Results of this study highlight the need for a better understanding of spatial and temporal variations in riverine bacterial diversity associated with physicochemical gradients and reveal how communities in sediments, and potentially other environmental reservoirs, impact waterborne BCS. Techniques used in this study may prove useful to determine sources of microbes from sediments and soils to waterways, which will facilitate best management practices and total maximum daily load determinations.

Original languageEnglish (US)
Pages (from-to)435-445
Number of pages11
JournalScience of the Total Environment
StatePublished - Feb 1 2015

Bibliographical note

Funding Information:
This project was funded, in part, by the American Recovery and Reinvestment Act of 2009 (ARRA) and the Minnesota Environment and Natural Resources Trust Fund , as recommended by the Legislative-Citizen Commission on Minnesota Resources (LCCMR). This work was carried out in part using computing resources at the University of Minnesota Supercomputing Institute. We would also like to thank Derek Schultz for assistance with sequence processing.

Publisher Copyright:
© 2014 Elsevier B.V.


  • Bacterial community structure
  • High-throughput sequencing
  • Metacommunity theory
  • Microbial ecology
  • Mississippi River
  • Recreational water


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