High-throughput environmental DNA analysis informs a biological assessment of an urban stream.

There is growing interest in the use of DNA barcoding and metabarcoding approaches to aid biological assessments and monitoring of waterbodies. While biodiversity measured by morphology and by DNA often has been found correlated, few studies have compared DNA data to established measures of impairment such as multimetric pollution tolerance indices used by many bioassessment programs. We incorporated environmental DNA (eDNA) metabarcoding of seston into a rigorous watershed-scale biological assessment of an urban stream to examine the extent to which eDNA richness and diversity patterns were correlated with multimetric indices and ecological impairment status designations. We also evaluated different filtering approaches and taxonomic classifications to identify best practices for environmental assessments. Seston eDNA revealed a wide diversity of eukaryotic taxa but was dominated by diatoms (36%). Differentiation among sites in alpha and beta diversity was greater when operational taxonomic units (OTUs) were classified taxonomically, but coarse resolution taxonomy (kingdom) was more informative than finer resolution taxonomy (family, genus). Correlations of DNA richness and diversity with multimetric indices for fish and macroinvertebrates were generally weak, possibly because Metazoa were not highly represented in our DNA dataset. Nonetheless, sites could be differentiated based on ecological impairment status, with more impaired sites having lower eDNA diversity as measured by the Shannon index, but higher taxonomic richness. Significant environmental drivers of community structure, as inferred from constrained ordination analyses, differed among kingdoms within the eDNA dataset, as well as from fish and macrobenthos, suggesting that eDNA provides novel environmental information. These results suggest that even a simple seston eDNA filtering protocol can provide biodiversity information of value to stream bioassessment programs. The approach bears further investigation as a potentially useful rapid assessment protocol to supplement more intensive field sampling efforts.

A novel approach for the development of tiered use biological criteria for rivers and streams in an ecologically diverse landscape.

Water resource protection goals for aquatic life are often general and can result in under protection of some high quality water bodies and unattainable expectations for other water bodies. More refined aquatic life goals known as tiered aquatic life uses (TALUs) provide a framework to designate uses by setting protective goals for high quality water bodies and establishing attainable goals for water bodies altered by legally authorized legacy activities (e.g., channelization). Development of biological criteria or biocriteria typically requires identification of a set of least- or minimally-impacted reference sites that are used to establish a baseline from which goals are derived. Under a more refined system of stream types and aquatic life use goals, an adequate set of reference sites is needed to account for the natural variability of aquatic communities (e.g., landscape differences, thermal regime, and stream size). To develop sufficient datasets, Minnesota employed a reference condition approach in combination with an approach based on characterizing a stream's response to anthropogenic disturbance through development of a Biological Condition Gradient (BCG). These two approaches allowed for the creation of ecologically meaningful and consistent biocriteria within a more refined stream typology and solved issues related to small sample sizes and poor representation of minimally- or least-disturbed conditions for some stream types. Implementation of TALU biocriteria for Minnesota streams and rivers will result in consistent and protective goals that address fundamental differences among waters in terms of their potential for restoration.

Critical technical elements of state bioassessment programs: a process to evaluate program rigor and comparability.

We developed a systematic process to evaluate state/tribal bioassessment programs to provide information about the rigor of the technical approach. This is accomplished via on-site interviews to produce an evaluation that assigns one of four levels of rigor as an outcome. Level 4 is the most rigorous and reflects a technical capacity to accurately determine incremental condition and support management programs. The remaining three levels are less able to assess incremental condition and are appropriate for only some management support needs. Accurately determining impairment and diagnosing pollution-specific stressors are fundamental tasks that states/tribes must accomplish to provide management support. This goal is fulfilled to varying degrees by most states/tribes. The evaluation employs a checklist and a sliding scale of rigor for 13 technical elements. Feedback is provided to each state/tribe via a technical memorandum that describes the technical components of the monitoring program, highlights strengths, and recommends improvements for specific technical issues. This can be used to refine the bioassessment and monitoring programs to better support management programs. The results of 14 state/tribal evaluations are included here. The majority (nine states, one tribe) revealed that most operate at level 2 with developmental activities that will elevate the level of program rigor already underway. Two states operate level 4 programs and each have numeric biocriteria and refined designated uses in their water quality standards. This is the ultimate goal of the process of engaging states in the development of bioassessment programs in the U.S.