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PAULSEN, S. G., A. MAYIO, D. V. PECK, J. L. STODDARD, E. TARQUINIO, S. HOLDSWORTH, J. VAN SICKLE, L. L. YUAN, C. P. HAWKINS, A. T. HERLIHY, P. R. KAUFMANN, M. BARBOUR, D. P. LARSEN, AND A. R. OLSEN. Condition of stream ecosystem in the US: An overview of the first national assessment. JOURNAL OF THE NORTH AMERICAN BENTHOLOGICAL SOCIETY. North American Benthological Society, Lawrence, KS, 27(4):812-821, (2008).

HERLIHY, A. T., S. G. PAULSEN, J. VAN SICKLE, J. L. STODDARD, C. P. HAWKINS, AND L. L. YUAN. Striving for consistency in a national assessment: The challengest of applying a reference-condition approach at a continental scale. JOURNAL OF THE NORTH AMERICAN BENTHOLOGICAL SOCIETY. North American Benthological Society, Lawrence, KS, 27(4):860-877, (2008).

WHITTIER, T. R., R. M. HUGHES, J. L. STODDARD, G. A. LOMNICKY, D. V. PECK, AND A. T. HERLIHY. A STRUCTURED APPROACH FOR DEVELOPING INDICES OF BIOTIC INTEGRITY: THREE EXAMPLES FROM STREAMS AND RIVERS IN THE WESTERN USA. TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY. American Fisheries Society, Bethesda, MD, 136:718-735, (2007).

MONTEITH, D. T., J. L. STODDARD, C. D. EVANS, H. A. DE WIT, M. FORSIUS, T. HOGASEN, A. WILANDER, B. L. SKJELKVALE, D. S. JEFFRIES, J. VUORENMAA, B. Keller, J. KOPACEK, AND J. VESELY. DISSOLVED ORGANIC CARBON TRENDS RESULTING FROM CHANGES IN ATMOSPHERIC DEPOSITION CHEMISTRY. NATURE. Macmillan Publishers Ltd., London, Uk, 450:537-540, (2007).

STODDARD, J. L. ENVIRONMENTAL MONITORING AND ASSESSMENT PROGRAM (EMAP): WESTERN STREAMS AND RIVERS STATISTICAL SUMMARY. U.S. Environmental Protection Agency, Washington, DC, EPA/620/R-05/006 (NTIS PB2007-102088), 2006.

WHITTIER, T. R., J. L. STODDARD, D. P. LARSEN, AND A. T. HERLIHY. SELECTING REFERENCE SITES FOR STREAM BIOLOGICAL ASSESSMENTS: BEST PROFESSIONAL JUDGMENT OR OBJECT CRITERIA. JOURNAL OF THE NORTH AMERICAN BENTHOLOGICAL SOCIETY. North American Benthological Society, Lawrence, KS, 26(2):349-260, (2007).

WHITTIER, T. R., J. L. STODDARD, R. M. HUGHES, AND G. A. LOMNICKY. ASSOCIATIONS AMONG CATCHMENT- AND SITE-SCALE DISTURBANCE INDICATORS AND BIOLOGICAL ASSEMBLAGES AT LEAST- AND MOST-DISTURBED STREAM AND RIVER SITES IN THE WESTERN UNITED STATES. Chapter 48, American Fisheries Society Symposium. American Fisheries Society, Bethesda, MD, , 641-664, (2006).

PECK, D. V., J. L. STODDARD, A. T. HERLIHY, AND E. TARQUINIO. DEVELOPMENT AND EVALUATION OF A MACROINVERTEBRATE INDEX OF BIOTIC INTEGRITY FOR THE WADEABLE STREAMS ASSESSMENT. Presented at North American Benthological Society, Anchorage, AK, June 04 - 09, 2006.

VAN SICKLE, J., J. L. STODDARD, AND S. G. PAULSEN. EVALUATING THE EXTENT AND RELATIVE RISK OF AQUATIC STRESSORS IN WADEABLE STREAMS THROUGHOUT THE U.S.A. Presented at Fifth National Monitoring Conference, San Jose, CA, May 07 - 11, 2006.

STODDARD, J. L. MID-ATLANTIC INTEGRATED ASSESSMENT (MAIA) STATE OF THE FLOWING WATERS REPORT. U.S. Environmental Protection Agency, Washington, DC, EPA/620/R-06/001 (NTIS PB2007-107909), 2006.

Stoddard, J L., P Larsen, C. P. Hawkins, R. K. Johnson, AND R. H. Norris. SETTING EXPECTATIONS FOR THE ECOLOGICAL CONDITION OF STREAMS: THE CONCEPT OF REFERENCE CONDITION. ECOLOGICAL APPLICATIONS. Ecological Society of America, Ithaca, NY, 16(4):1267-1276, (2006).

VAN SICKLE, J., J. L. STODDARD, S. G. PAULSEN, AND A. R. OLSEN. USING RELATIVE RISK TO COMPARE THE EFFECTS OF AQUATIC STRESSORS AT A REGIONAL SCALE. ENVIRONMENTAL MANAGEMENT. Springer-Verlag, New York, NY, 38:1020-1030, (2006).

STODDARD, J. L. AN ECOLOGICAL ASSESSMENT OF WESTERN STREAMS AND RIVERS. U.S. Environmental Protection Agency, Washington, DC, EPA/620/R-05/005 (NTIS PB-2010-106543), 2005.

SKJELKVALE, B., J. L. STODDARD, K. TORSETH, T. HOGASEN, K. BOWMAN-JAMES, J. MANNIO, D. MONTEITH, R. MOSELLO, V. PALLANZA, D. RZYCHON, J. VESELY, J. WIETING, A. WILANDER, AND A. WORSZTYNOWICZ. REGIONAL SCALE EVIDENCE FOR IMPROVEMENTS IN SURFACE WATER CHEMISTRY 1990 TO 2001. ENVIRONMENTAL POLLUTION. Elsevier Science Ltd, New York, NY, 137:165-176, (2005).

Stoddard, J L. USE OF ECOLOGICAL REGIONS IN AQUATIC ASSESSMENTS OF ECOLOGICAL CONDITION. ENVIRONMENTAL MANAGEMENT. Springer-Verlag, New York, NY, 34(Suppl. 1):S61-S70, (2005).

Hill, B. H., F H. McCormick, M. B. Griffith, A. T. Herlihy, P R. Kaufmann, J L. Stoddard, AND R. M. Hughes. A MULTI-ASSEMBLAGE INDEX OF STREAM INTEGRITY: WHAT ARE THE FISH, BUGS, AND ALGAE TELLING US? 2004 EMAP Symposium, Newport, RI, May 3-7, 2004.

Whittier, T R., J L. Stoddard, R M. Hughes, AND G. A. Lomnicky. ASSOCIATIONS AMONG WATERSHED- AND SITE-SCALE DISTURBANCES INDICATORS AND FISH ASSEMBLAGES AT LEAST- AND MOST-DISTURBED STREAM AND RIVER SITES IN WESTERN USA. Presented at American Fisheries Society meeting, Madison, WI, August 22-27, 2004.

Kahl, J. S., J L. Stoddard, R. Haeuber, S G. Paulsen, R. Birnbaum, A. T. Herlihy, F. A. Deviney, D. R. DeWalle, J. H. Kellogg, P. S. Murdoch, K. Roy, W. Sharpe, N. S. Urquhart, J. R. Webb, AND K. E. Webster. HAVE U.S. SURFACE WATERS RESPONDED TO THE 1990 CLEAN AIR ACT AMENDMENTS? ENVIRONMENTAL SCIENCE AND TECHNOLOGY. American Chemical Society, Washington, DC, 38(24):484A-490A, (2004).

Whittier, T R. AND J L. Stoddard. SELECTING LEAST-DISTURBED SURVEY SITES FOR GREAT PLAINS STREAMS AND RIVERS. Presented at North American Benthological Society meeting, Vancouver, B.C, June 6-10, 2004.

McDonald, M E., R L. Blair, D Bolgrien, B S. Brown, J. J. Dlugosz, S S. Hale, S. F. Hedtke, D T. Heggem, L E. Jackson, K. B. Jones, B. M. Levinson, R A. Linthurst, J. Messer, A R. Olsen, J F. Paul, S G. Paulsen, J L. Stoddard, K Summers, AND G D. Veith. THE US ENVIRONMENTAL PROTECTION AGENCY'S MONITORING AND ASSESSMENT PROGRAM. Chapter 29, GB Wiersma (ed.), Environmental Monitoring. CRC Press LLC, Boca Raton, FL, , 649-668, (2004).

Stoddard, J L. EMAP - WEST COMMUNICATIONS, STATE OF WASHINGTON'S APPROACH TO WATER QUALITY MONITORING. U.S. Environmental Protection Agency, Washington, DC, EPA/600/N-03/003, 2003.

Kaste, O., J L. Stoddard, AND A. Henriksen. IMPLICATION OF LAKE WATER RESIDENCE TIME ON THE CLASSIFICATION OF NORWEGIAN SURFACE WATER SITES INTO PROGRESSIVE STAGES OF NITROGEN SATURATION. WATER, AIR, AND SOIL POLLUTION. Kluwer Academic Publishers, Hingham, MA, 142:409-424, (2003).

Aber, J. D., C. L. Goodale, S. V. Ollinger, M. L. Smith, A. H. Magill, M. E. Martin, R. A. Hallett, AND J L. Stoddard. IS NITROGEN DEPOSITION ALTERING THE NITROGEN STATUS OF NORTHEASTERN FORESTS? BIOSCIENCE 53:1-15.

Hale, S S., J L. Stoddard, D T. Heggem, L. Harwell, AND R. King. MANAGING EMAP DATA. Presented at EPA Science Forum 2003, Washington, DC, May 5-7, 2003.

Stoddard, J L., J. S. Kahl, F. A. Deviney, D. DeWalle, C. T. Driscoll, A. T. Herlihy, J. H. Kellogg, P. S. Murdoch, J. R. Webb, AND K. E. Webster. RESPONSE OF SURFACE WATER CHEMISTRY TO THE CLEAN AIR ACT AMENDMENTS OF 1990. U.S. Environmental Protection Agency, Washington, DC, EPA/620/R-03/001 (NTIS PB2003-102732), 2003.