Olson JC, Marcarelli AM, Timm AL, Eggert SL, Kolka RK. 2017 (early view). Evaluating the effects of culvert designs on ecosystem processes in northern Wisconsin streams. River Research and Applications. DOI: 10.1002/rra.3121

Bump JK, Bergman BG, Schrank AJ, Marcarelli AM, Kane ES, Risch AC, Schutz M. 2017. Nutrient release from moose bioturbation in aquatic ecosystems. Oikos 126:389-397. DOI: 10.1111/oik.03591

Baker MA, Arp CD, Goodman KJ, Marcarelli AM, Wurtsbaugh WA. 2016. Stream-lake interaction: understanding a coupled hydro-ecological system. Pp 321-348 in: Jones JB, Stanley EH (eds) Stream Ecosystems in a Changing Environment. Academic Press.

Coble AA, Marcarelli AM, Kane ES, Huckins CJ. 2016. Uptake of ammonium and soluble reactive phosphorus in forested streams: influence of dissolved organic matter composition. Biogeochemistry 131:355372. DOI: 10.1007/s10533-016-0284-7

Coble AA, Marcarelli AM, Kane ES, Stottlemyer JR, Toczydlowski D. 2016. Temporal patterns of dissolved organic matter biodegradability are similar across three rivers of varying size. Journal of Geophysical Research - Biogeosciences 121:1617–1631. DOI:10.1002/2015JG003218

Collins SF, Baxter CV, Marcarelli AM, Wipfli MS. 2016. Effects of experimentally added salmon subsidies on resident fishes via direct and indirect pathways. Ecosphere 7:e01248. DOI:10.1002/ecs2.1248

Veverica TJ, Kane ES, Marcarelli AM, Green SA. 2016. Ionic liquid extraction unveils previously occluded humic-bound iron in peat pore water. Soil Science Society of America Journal 80:771-782. DOI:10.2136/sssaj2015.10.0377

Coble AA, Marcarelli AM, Kane ES. 2015. Ammonium and glucose amendments stimulate dissolved organic matter mineralization in a Lake Superior tributary. Journal of Great Lakes Research 41:801–807DOI:10.1016/j.jglr.2015.05.015

Collins SF, Marcarelli AM, Baxter CV, Wipfli MS. 2015. A critical assessment of the ecological assumptions underpinning compensatory mitigation of salmon-derived nutrients. Environmental Management 56:571-586. DOI: 10.1007/s00267-015-0538-5

Marcarelli AM, Huckins CJ, Eggert SL. 2015. Sand aggradation alters biofilm standing crop and metabolism in a low-gradient Lake Superior tributary. Journal of Great Lakes Research 41:1052-1059. DOI:10.1016/j.jglr.2015.09.004

Ebel JD, Marcarelli AM, Kohler AE. 2014. Biofilm nutrient limitation, standing crop, and metabolism responses to experimental application of salmon carcass analog in Idaho streams. Canadian Journal of Fisheries and Aquatic Sciences 71:1796-1804. DOI: 10.1139/cjfas-2014-0266

Marcarelli AM, Baxter CV, and Wipfli MS. 2014. Nutrient additions to mitigate for loss of Pacific salmon: consequences for stream biofilm and nutrient dynamics. Ecosphere 5:69. DOI: 10.1890/ES13-00366.1

Ray AM, Mebane CA, Raben F, Irvine KM, and Marcarelli AM. 2014. A combined macrophyte-epiphyte bioassay for assessing nutrient enrichment. Environmental Monitoring and Assessment 186:4081-4096. DOI: 10.1007/s10661-014-3682-0

Bechtold HA, Marcarelli AM, Baxter CV, and Inouye RS. 2012. Effects of N, P and organic carbon on stream biofilm nutrient limitation and uptake in a semi-arid watershed. Limnology and Oceanography 57:1544-1554. DOI: 10.4319/lo.2012.57.5.1544

Mineau MM, Baxter CV, Marcarelli AM, and Minshall GW. 2012. An invasive riparian tree reduces stream ecosystem efficiency via a recalcitrant organic matter subsidy. Ecology 93:1501-1508. DOI: 10.1890/11-1700.1

Scott JT, and Marcarelli AM. 2012. Cyanobacteria in freshwater benthic environments.  Pp 271-289 in: Whitton BA (ed) Ecology of the Cyanobacteria II: Their Diversity in Time and Space. Springer.

Marcarelli AM, Baxter CV, Mineau MM, Hall RO. 2011. Quantity and quality: unifying food web and ecosystem perspectives on the role of resource subsidies in freshwaters. Ecology 92:1215-1225. DOI: 10.1890/10-2240.1

Mineau MM, Baxter CV, and Marcarelli AM. 2011. A non-native riparian tree (Elaeagnus angustifolia) changes nutrient dynamics in streams. Ecosystems 14:353-365. DOI: 10.1007/s10021-011-9415-0

Hopkins JH, Marcarelli AM, and Bechtold HA. 2011. Ecosystem structure and function are complementary measures of water quality in a polluted, spring-influenced river. Water, Air and Soil Pollution 214:409-421.  DOI: 10.1007/s11270-010-0432-y

Marcarelli AM, Van Kirk RW, and Baxter CV. 2010. Predicting effects of hydrologic alteration and climate change on ecosystem metabolism in a western U.S. river. Ecological Applications 20:2081-2088. DOI: 10.1890/09-2364.1

Marcarelli AM, and Wurtsbaugh WA. 2009. Habitat and seasonal variations in nitrogen fixation in linked stream-lake ecosystems. Biogeochemistry 94:95-110. DOI: 10.1007/s10533-009-9311-2

Marcarelli AM , Bechtold HA, Rugenski AT, and Inouye RS. 2009. Nutrient limitation of biofilm biomass and metabolism in the Upper Snake River basin, southeast Idaho, USA. Hydrobiologia 620:63-76. DOI: 10.1007/s10750-008-9615-6

Marcarelli AM, Baker MA, and Wurtsbaugh WA. 2008. Is in-stream nitrogen fixation an important nitrogen source for benthic communities and stream ecosystems? Journal of the North American Benthological Society 27:186-211. DOI: 10.1899/07-027.1

Rugenski AT, Marcarelli AM, Bechtold HA, and Inouye RS. 2008. Effects of temperature and concentration on nutrient release rates from nutrient diffusing substrates. Journal of the North American Benthological Society 27:52-57. DOI: 10.1899/07-046R1.1

Marcarelli AM, and Wurtsbaugh WA. 2007. Effects of upstream lakes and nutrient limitation on periphytic biomass and nitrogen fixation in oligotrophic, subalpine streams. Freshwater Biology 52:2211-2225. DOI: 10.1111/j.1365-2427.2007.01851.x

Myers AK, Marcarelli AM, Arp CD, Baker MA, and Wurtsbaugh WA. 2007. Disruptions of stream sediment size and stability by lakes in mountain watersheds: potential effects on periphyton biomass. Journal of the North American Benthological Society 26:390-400. DOI: 10.1899/06-086.1

Marcarelli AM, and Wurtsbaugh WA. 2006. Temperature and nutrient supply interact to control nitrogen fixation in oligotrophic streams: an experimental examination. Limnology and Oceanography 51:2278-2289. DOI: 10.4319/lo.2006.51.5.2278

Marcarelli AM, Wurtsbaugh WA, and Griset O. 2006. Salinity controls plankton response to nutrient enrichment in Farmington Bay, Great Salt Lake, Utah. Canadian Journal of Fisheries and Aquatic Sciences 63:2236-2248. DOI: 10.1139/F06-113

Hoham RW, Marcarelli AM, Rogers HS, Ragan MD, Petre BM, Ungerer MD, Barnes JM, and Francis DO. 2000. The importance of light and photoperiod in sexual reproduction and geographical distribution in the green snow alga, Chloromonas sp.-D (Chlorophyceae, Volvocales). Hydrological Processes 14:3309-3321. DOI: 10.1002/1099-1085(20001230)14:18<3309::AID-HYP200>3.0.CO;2-R