Data analyzed at national, multistate or state scales often reveal more ser
ious deterioration of various biological assemblages than that suspected fr
om site specific studies simply because the impacts are observed regionally
rather than locally. Unfortunately many regional assessments are based on
data collected with differing sampling designs and methods, making their re
presentativeness, accuracy and precision questionable. In 1989, the United
States Environmental Protection Agency (USEPA) began EMAP-Surface Waters (E
MAP-SW), a program for developing methods to monitor and assess status and
trends in the nation's lakes and rivers in a statistically and ecologically
rigorous manner. EMAP-SW has now conducted regional multistate pilots in s
treams and rivers throughout the U.S.A. in collaboration with State agencie
s, universities and EPA regional offices. We discuss EMAP's conceptual desi
gn, which focuses on biological integrity through use of multiple biologica
l assemblages and includes physical and chemical habitat and landscape char
acteristics. When coupled with appropriate biological indicators, a probabi
lity-based design enabled us to provide accurate, precise and unbiased asse
ssments of biological conditions, along with quantitative estimates of samp
ling uncertainty. Regional EMAP-SW surveys indicated the importance of asse
ssing multiple biological assemblages because each assemblage was different
ially sensitive to different stressors and at different spatial scales. Syn
thesizing multiple metrics from multiple assemblages allowed us to detect t
he effects of multiple anthropogenic disturbances. We also illustrate the v
alue of using historical reconstruction and paleolimnological data for dete
rmining reference conditions where disturbance is extensive. We conclude th
at an EMAP approach to sampling design and indicators (recognizing natural
ecoregional differences) has distinct advantages for monitoring and assessm
ents that may be applicable to European Communities seeking to assess the e
cological integrity of waters.