John Schalles, Professor, Director of the Environmental Science Program

Research Emphasis:

Ecological Remote Sensing, Primary Production and Community Structure of Coastal Wetlands, Remote Estimation of Phytoplankton Chlorophyll in Marine and Inland Waters, Coastal and Marine Ecology, Limnology

GCE Committees:

GCE Disturbance Committee

Contact Information:

Primary Organization: Creighton University

Mailing Address:

Dr. John F. Schalles
Department of Biology
Creighton University
Omaha, Nebraska 68178-0103

Office Phone: (402) 280-2811

Other Phone: (402) 981-3901

FAX Number: (402) 280-5595

E-Mail: JohnSchalles@creighton.edu

Web Page: https://biology.creighton.edu/faculty/schalles

Other Identity Systems:

ORCID: orcid.org/0000-0003-4228-1288

GCE Data Sets:

PLT-GCED-2203 (Lower Altamaha River Spartna alterniflora aboveground biomass estimates from Landsat 5 TM imagery)

ANT-GCED-2005 (Oyster Paleobiology along the South Atlantic Coast of the United States)

GIS-GCEL-1812a (May to July 2018 regions of interest (ROIs) of tidal marsh and tidal forest plant species to be used as ground reference data in habitat mapping)

GIS-GCEL-1812 (May to July 2018 ground control points GPS coordinates of tidal marsh and tidal forest plant species to be used as ground control points in habitat mapping)

PLT-GCET-1801 (Spartina alterniflora aboveground biomass patterns from Landsat 5 TM imagery (1984-2011) and external driver data used in multivariate analysis.)

(most recent displayed - view all)

GCE Publications and Presentations: (custom bibliography)

Journal Articles

Bice, K., Sheldon, J.E., Schalles, J.F., Alber, M. and Meile, C. 2023. Temporal patterns and causal drivers of aboveground plant biomass in a coastal wetland: insights from time-series analyses . Frontiers of Marine Sciences. 10(1130958). (DOI: 10.3389/fmars.2023.1130958)

Lehmann, M.K., Gurlin, D., Pahlevan, N., Binding, C., Fichot, C., Gitelson, A., Mishra, D., Schalles, J.F., Simis, S., Smith, B. and Spyrakos, E. 2023. GLORIA - A globally representative hyperspectral in situ dataset for optical sensing of water quality. Nature - Scientific Data. 10:1130958, 6 April 2023(100 (2023)):13 p. (DOI: doi.org/10.1038/s41597-023-01973-y)

Schaeffer, B., Neely, M., Spinosa, A., Serafy, E., Odermatt, D., Weathers, K., Barracchini, T., Bouffard, D., Carvalho, L., Comny, R., De Keukelaere, P., Hunter, P., Jamet, C., Joehnk, K., Johnston, J., Knudby, A., Minaudo, C., Pahlevan, N., Rose, K., Schalles, J.F. and Tzortziou, M. 2021. Integrating inland and coastal water quality data for actionable knowledge. Special Issue: Big Earth Data and Remote Sensing in Coastal Environments. Remote Sensing. 13; 23 July 2021(15):24 p. (DOI: doi.org/10

Zinnert, J.C., Nippert, J.B., Rudgers, J.A., Pennings, S.C., Gonzalez, G., Alber, M., Baer, S.G., Blair, J.M., Burd, A.B., Collins, S.L., Craft, C.B., Di Iorio, D., Dodds, W.K., Groffman, P.M., Herbert, E., Hladik, C.M., Li, F., Litvak, M., Newsome, S., O'Donnell, J., Pockman, W.T., Schalles, J.F. and Young, D.R. 2021. State Changes: Insights from the U.S. Long Term Ecological Research Network. Ecosphere. (DOI: 10.1002/ecs2.3433)

Pahlevan, N., Smith, B., Schalles, J.F., Binding, C., Cao, Z., Ma, R., Alikas, K., Kangro, K., Gurlin, D., Ha, N., Matsushita, B., Moses, W., Greb, S., Lehmann, M.K., Ondrusek, M., Oppelt, N. and Stumpf, R. 2020. Seamless retrievals of chlorophyll-a from Sentinel-2 (MSI) and Sentinel-3(OLCI) in inland and coastal waters: A machine-learning approach. Remote Sensing of Environment. 240:111604. (DOI: https://doi.org/10.1016/j.rse.2019.111604)

Thompson, V.D., Rick, T., Garland, C.J., Thomas, D.H., Smith, K.Y., Bergh, S., Sanger, M., Tucker, B., Lulewicz, I.H., Semon, A.M., Schalles, J.F., Hladik, C.M., Alexander, C.R. Jr. and Ritchison, B.T. 2020. Ecosystem stability and Native American oyster harvesting along the Atlantic Coast of the United States. Science Advances. 6. (DOI: 10.1126/sciadv.aba9652)

Cao, F., Mishra, D., Schalles, J.F. and Miller, W. 2018. Evaluating ultraviolet (UV) based photochemistry in optically complex coastal waters using the Hyperspectral Imager for the Coastal Ocean (HICO). Estuarine, Coastal and Shelf Science. 215:199-206. (DOI: 10.1016/j.ecss.2018.10.013)

Spyrakos, E., O'Donnell, R., Hunter, P., Miller, C., Scott, M., Simis, S., Neil, C., Barbarosa, C., Binding, C., Bradt, S., Bresciani, M., Dall'Olmo, G., Giardino, C., Gitelson, A., Kutser, T., Li, L., Matsusguta, B., Martinez-Vicente, V., Matthews, M., Ogashawara, I., Ruiz-Verdu, A., Schalles, J.F., Tebbs, E., Zhang, Y. and Tyler, A. 2017. Optical types of inland and coastal waters. Limnology and Oceanography. (DOI: 10.1002/lno.10674)

O'Donnell, J. and Schalles, J.F. 2016. Examination of Abiotic Drivers and Their Influence on Spartina alterniflora Biomass over a Twenty-Eight Year Period Using Landsat 5 TM Satellite Imagery of the Central Georgia Coast. Special Issue: Remote Sensing in Coastal Environments. Remote Sensing. 8(6):22. (DOI: 10.3390/rs8060477)

Hladik, C.M., Schalles, J.F. and Alber, M. 2013. Salt marsh elevation and habitat mapping using hyperspectral and LIDAR data. Remote Sensing of the Environment. 139:318 - 330. (DOI: 10.1016/j.rse.2013.08.003)

Schalles, J.F., Hladik, C.M., Lynes, A.R. and Pennings, S.C. 2013. Landscape estimates of habitat types, plant biomass, and invertebrate densities in a Georgia salt marsh. Special Issue: Coastal Long Term Ecological Research. Oceanography. 26:88-97. (DOI: 10.5670/oceanog.2013.50)

Schalles, J.F. and Hladik, C.M. 2012. Mapping phytoplankton chlorophyll in turbid, Case 2 estuarine and coastal waters. Special Issue: VIS-NIR Spectroscopy in Plant Sciences. Israel Journal of Plant Science. 60(1-2):169-192. (DOI: 10.1560/IJPS.60.1-2.169)

Bhatti, A., Rundquist, D., Schalles, J.F., Ramirez, L. and Nasu, S. 2009. A comparision between above-water surface and subsurface spectral reflectances collected over inland waters. GeoCarto International. 24(2):133-141. (DOI: 10.1080/10106040802460707)

Zhou, J., Gilerson, A., Ioannou, S., Schalles, J.F., Gross, B., Moshary, F. and Ahmed, S. 2008. Retrieving quantum yield of sun-induced chlorophyll fluorescence near surface from hyperspectral in-situ measurement in productive water. Optics Express. 16(22):17468 - 17483. (DOI: dx.doi.org/10.1364/OE.16.017468)

Alberts, J.J., Takacs, M. and Schalles, J.F. 2004. Ultraviolet-Visible and Fluorescence Spectral Evidence of Natural Organic Matter (NOM) Changes along an Estuarine Salinity Gradient. Estuaries. 27(2):296-310. (DOI: 10.1007/BF02803386)

Books and Book Sections

Schalles, J.F. 2006. Optical remote sensing techniques to estimate phytoplankton chlorophyll a concentrations in coastal waters with varying suspended matter and CDOM concentrations. Pages 27 - 79 in: Richardson, L. and Ledrew, E. (editors). Remote Sensing of Aquatic Coastal Ecosystem Processes: Science and Management Applications. Springer, Netherlands. (DOI: ISBN-10 1402039670)

Conference Posters and Presentations

Schalles, J.F. and Peffer, C. Presentation: Regulatory, Legal, and Ethical Considerations for Drone Operations - The view from coastal Georgia . Regulatory Legal and Ethical Considerations for Drone Operations. Drones in the Coastal Zone - U.S. Southeast and Caribbean Regional Workshop, October 22, 2020, Virtual (web-based).

Schalles, J.F. Presentation: High resolution salt marsh vegetation biomass mapping with an Altum 6 band camera and Matrice 210 drone. Introduction to Using Drones in the Coastal Zone. Drones in the Coastal Zone - U.S. Southeast and Caribbean Regional Workshop, October 14, 2020, Virtual (web-based).

Schalles, J.F. Presentation: Using satellite, airborne, and drone remote sensing to study spatial-temporal patterns and responses to stressors in coastal wetlands. Lamar University Biology Department Invited Speakers Program, March 11, 2020, Beaumont, Texas.

Schalles, J.F. Presentation: Using Spectral Library Derived Cluster Analysis for Satellite Classification and Mapping of Central South Atlantic Bight (SAB) Waters. SS054 Remote Sensing of Water Quality and Quantity. ASLO 2019 Aquatic Sciences Meeting, March 1, 2019, San Juan, Puerto Rico.

Schalles, J.F., Hladik, C.M., Nealy, N., Miklesh, D.M., Meile, C., Lynn, T. and O'Donnell, J. Presentation: A 35 year spatial-temporal analysis of serious Spartina alterniflora biomass declines in coastal Georgia. Impact of multiple disturbances on coastal ecosystem structure and function. Coastal and Estuarine Research Federation Biennial Meeting, November 4, 2019, Mobile, Alabama.

Bice, K., Sheldon, J.E., Alber, M., Schalles, J.F. and Meile, C. 2022. Poster: Potential drivers of saltmarsh dynamics in the Altamaha River Estuary. LTER All Scientists' Meeting.

Bice, K., Sheldon, J.E., Alber, M., Schalles, J.F. and Meile, C. 2022. Presentation: Hydrodynamic forcings and causal drivers of saltmarsh biomass in the Altamaha River estuary. Graduate Climate Conference, Oct 28-30, Eastonville WA.

Schalles, J.F. 2022. Presentation: Drone imagery for Vegetation and Habitat Studies. LTER All Scientist Meeting, September 22, 2022.

Schalles, J.F., Hladik, C.M., O'Donnell, J., Miklesh, D.M., Pudil, T. and Nealy, N. 2021. Presentation: Satellite and drone remote sensing to study decadal scale and high resolution spatial-temporal patterns and declines of Spartina alterniflora above-ground biomass in Georgia, USA salt marshes. Session 2. 1st International Symposium on Coastal Ecosystems and Global Change (CoEco1), April 18, 2021, Xiamen University, Xiamen, China.

Schalles, J.F., Hladik, C.M., O'Donnell, J., Miklesh, D.M., Pudil, T., Nealy, N. and Currin, H. 2021. Presentation: Serious multidecadal declines in aboveground biomass of the keystone salt marsh species, Spartina alterniflora, are related to climate change in coastal Georgia, USA. Wetlandscapes: Understanding the Large-scale Wetland Functions in the Landscape Symposium. 11th INTECOL International Wetlands Conference, October 14, 2021, Christchurch, New Zealand (virtual, prerecorded).

Bice, K., Schalles, J.F. and Meile, C. 2020. Poster: Factors determining GA salt marsh biomass: A dynamical systems approach. 7th Annual Southeastern Biogeochemistry Symposium, March 14-15, Atlanta (online due to COVID-19).

Bice, K., Wrighton, K., Daly, R., Schopflin, L., Danczak, R., Song, H.-S., Schalles, J.F. and Meile, C. 2020. Poster: Investigating subsurface biogeochemistry in tide-impacted Altamaha River sediment using microbial metagenomics and metabolomics. AGU Fall meeting, December 1-17, 2020, San Francisco (online due to COVID-19).

Meile, C., Schalles, J.F., Peterson, R.N., O'Donnell, J., Bice, K., Medeiros, P.M., Di Iorio, D., Hopkinson, C.S., Joye, S.B., Stegen, J., Goldman, A., Thomle, J. and Danczak, R. 2019. Presentation: Flow and short- and long-term carbon dynamics at tidally impacted coastal interfaces in the SE USA. Goldschmidt Conference, August 18-23, 2019, Barcelona.

Bell, T., Castorani, M. and Schalles, J.F. 2018. Presentation: Using drones for high spatial and temporal resolution - Long term observations. NSF LTER All Scientists Meeting, Wednesday, October 3, 2018, Asilomar Conference Center, Pacific Grove, CA.

Miklesh, D.M., O'Donnell, J., Schalles, J.F. and Meile, C. 2018. Poster: Analysis of decadal-scale patterns of Spartina biomass in Georgia marshes using soil modeling and satellite imagery. Ocean Sciences Meeting, Feb 11-16, 2018, Portland OR.

Schalles, J.F. 2018. Presentation: Spatial and temporal perpectives on multiple stressor impacts spanning inland to coastal ecosystems. Agency & International Program Lightning Talks. GLOBOLakes and GEO Aquawatch Joint Workshop, August 30, 2018, University of Stirling, Stirling, Scotland, UK.

Schalles, J.F., O'Donnell, J., Hladik, C.M., Ponzi, S., Cao, F. and Miller, W. 2018. Poster: The dynamic littoral fringe – Spatial and temporal patterns in community structureand productivity in North American coastal ecosystems. Poster Session - Tuesday. GLOBOLakes and GEO Aquawatch Joint Workshop, Wednesday, August 29, 2018, University of Stirling, Stirling, Scotland, UK.

Schalles, J.F., O'Donnell, J., Nealy, N., Mizoguchi, T. and Hladik, C.M. 2018. Presentation: Multidecadal biomass declines and controlling variables for the keystone salt marsh species, Spartina alterniflora, in coastal Georgia . SS86: Connecting the Dots – Signals of Global Change Effects in Freshwater and Marine Ecosystems. ASLO 2018 Summer Meeting, June 15, 2018, Victoria, British Columbia, BC.

O'Donnell, J. and Schalles, J.F. 2017. Poster: Serious declines in Georgia salt marsh plant biomass are linked to climate variables. Poster Session. Climate Justice: The Struggle for Our Common Home. Loyola University 4th Annual Climate Change Conference, March 17, 2017, Chicago, IL.

O'Donnell, J., Schalles, J.F. and Hladik, C.M. 2017. Presentation: Serious declines in a large area of Georgia Salt marsh plant biomass are linked to climate variables. Collaborating across geographic scales: integrating estuarine and coastal ocean information. Coastal and Estuarine Research Federation Biennial Meeting, November 9, 2017, Providence, Rhode Island.

Schalles, J.F., Hladik, C.M., Yacobi, Y., Olley, J. and O'Donnell, J. 2017. Presentation: Chlorophyll retrieval Algorithms and effects of highly variable TSS and CDOM using a large spectral library of inland and coastal observations. #031 Global Remote Sensing of Inland Waters. Association for the Sciences of Limnology and Oceanography Annual Meeting, February 28, 2017, Honolulu, HI.

O'Donnell, J., Schalles, J.F. and Hladik, C.M. 2016. Poster: Recent declines in Georgia salt marsh plant biomass and health are linked to climate and hydrologic variables. Poster Session. Georgia Department of Natural Resources Coastal Climate Change Conference: Prepare, Respond, and Adapt, November 2, 2016, Jekyll Island, GA.

O'Donnell, J. and Schalles, J.F. 2015. Poster: 28 Years of Landsat5 TM and external forcing data for analysis of Spartina biomass on the Central Georgia coast. Coastal and Estuarine Research Federation Biennial Meeting., November 2015, Portland, OR.

Schalles, J.F., Hart, A.C., Altrichter, A.E., Carpenter, E.J. and Vichienwanitchkul, P. 2015. Poster: Coastal systems in a time of climate change: The mangroves are coming. Climate Change Actions – Sustainable Solutions for a Living Earth., March, 2015, Loyola University – Chicago, IL.

Schalles, J.F., Smith, E., Chaves-Rameriz, F., Davis, N., Altrichter, A.E., Hart, A.C., Carpenter, E.J., Seminara, D. and Vichienwanitchkul, P. 2015. Poster: Replacement of marsh with mangrove communities in Coastal Texas and potential impact to Whooping Cranes. Coastal & Estuarine Research Federation Meetings, November, 2015, Portland, OR.

Schalles, J.F., O'Donnell, J. and Olley, J. 2014. Poster: Remote sensing and geospatial analysis of material gradients and fronts within the Inner Shelf of the Central South Atlantic Bight. 42. Optical Remote Sensing of Freshwater, Estuarine, and Coastal Environments: Water Quality and Other Applications. Ocean Sciences Meeting, February, 2014, Honolulu, Hawaii.

Cherrier, J., Kelly, B., Abazinge, M., Jagoe, C., Callender, R., Schalles, J.F. and Tunnell, W. 2013. Presentation: Promoting a balance between societal demands and coastal ecosystem sustainability. ASLO Aquatic Sciences Meeting, February, 2013, New Orleans, Louisiana.

Gilson, G.F., Schalles, J.F. and O'Donnell, J. 2013. Poster: Quantifying spatial variability of microbenthic algae using optical reflectance measurements. SCI-068P Estuarine Shallows : Biophysical Interactions. Coastal and Estuarine Research Federation Biennial Meeting, November, 2012, San Diego, CA.

Schalles, J.F., Alberts, J.J., Takacs, M. and Fichot, C. 2013. Presentation: Sources and dynamics of dissolved organic carbon outwelling on the Georgia coast into the South Atlantic Bight: Research and Student Training. ASLO 2013 Aquatic Sciences Meeting, Feburary, 2013, New Orleans, Louisiana.

Schalles, J.F., Carpenter, E.J., Hart, A.C., Altrichter, A.E. and Vichienwanitchkul, P. 2013. Presentation: Invasive mangroves in Texas: Surveys and high resolution imagery to map distribution, canopy height and cover, and response to a severe freeze. SCI 072 - Mangrove Expansion into Salt Marsh Habitats: Causes and Consequences. Coastal and Estuarine Research Federation Biennial Meeting, November, 2012, San Diego, CA.

Olley, J., O'Donnell, J. and Schalles, J.F. 2012. Presentation: Boat-borne remote sensing and HPLC analysis of coastal phytoplankton populations along the Atlantic and Gulf Coasts. Biological oceanography - aquatic biology. TOS/ASLO/AGU 2012 Ocean Sciences Meeting, February 20 - 24, 2012, Salt Lake City, Utah.

Schalles, J.F. and Gilerson, A. 2012. Presentation: Assessment and mapping phytoplankton chlorophyll patterns in inland and coastal habitats. The 1st Globolakes Scientific Workshop, 2012, University of Stirling, Stirling, Scotland, UK.

Schalles, J.F., Hladik, C.M. and Seminara, D. 2012. Presentation: Cranes, Planes, and Planktonic Meals: Habitat Characterizations in Gulf and East Coast NOAA National Estuarine Research Reserves. 2012 NOAA EPP Cooperative Science Center Seminar Series, November 08, 2012, Silver Springs, Maryland.

Schalles, J.F., Olley, J., O'Donnell, J. and Hladik, C.M. 2012. Presentation: Assessing chlorophyll patterns in tidal tributary streams and rivers and in estuary to near shore transition zones. FR4.5.5: Invited Session - Hyperspectral remote sensing in shallow waters. IEEE International Geoscience and Remote Sensing Symposium, July 22 - 27, 2012, Munich, Germany.

Hladik, C.M., Alber, M. and Schalles, J.F. 2011. Poster: Fusing hyperspectral airborne imagery and LIDAR-derived digital elevation models for the correction of salt marsh elevations. Coastal and Estuarine Research Federation, November 6-10, 2011, Daytona Beach, FL.

Schalles, J.F. 2011. Presentation: Student training and habitat monitoring in coastal systems . Teacher and Student Training. Western Region Space Grant Director’s Meeting, August 26, 2011, Fairbanks, AK.

Schalles, J.F., Hladik, C.M., Seminara, D. and O'Donnell, J. 2011. Presentation: Mapping Coastal and Estuarine Chlorophyll Concentrations. S05: Ocean Color Radiometry of Coastal and Inland Water. 2011 ASLO Aquatic Sciences Meeting, February 16, 2011, San Juan, Puerto Rico.

Schalles, J.F., Olley, J., Hladik, C.M. and O'Donnell, J. 2011. Presentation: Comparing algal chlorophyll spatial patterns within and between Gulf and East Coast National Estuarine Research Reserves. SCI-106, Comparative Studies of Estuarine and Coastal System Properties. Coastal and Estuarine Research Federation, November 9. 2011, Daytona Beach, Florida.

Schutte, C., Meile, C., Di Iorio, D., McKay, P., Joye, S.B., Blanton, J.O. and Schalles, J.F. 2011. Poster: Physical and biogeochemical patterns in the Duplin saltmarsh river system: preliminary results. LTER Science Council Meeting, Jekyll Island, GA.

Seminara, D. and Schalles, J.F. 2011. Presentation: Intersite comparison of marsh spatial patterns using hyperspectral imagery at NERR sites along the Gulf and Atlantic coasts. SCI-106, Comparative Studies of Estuarine and Coastal System Properties. Coastal and Estuarine Research Federation, November 9, 2011.

Hladik, C.M., Alber, M., Schalles, J.F. and Pennings, S.C. 2010. Poster: Salt marsh habitat mapping on Sapelo Island, GA using LIDAR and hyperspectralimagery. National Estuarine Research Reserve Annual Meeting, October 11-15, 2010, National Conservation Training Center, Shepherdstown, WV.

Schalles, J.F., Hladik, C.M., Seminara, D.N., Altrichter, A.E. and Steele, M.M. 2010. Poster: Extracting habitat features from hyperspectral coastal wetland imagery in Georgia and Texas. Coastal Habitats. ESA Annual Meeting, August 1-6, 2010, Pittsburgh, PA.

Seminara, D.N. and Schalles, J.F. 2010. Poster: Vegetation indices to compare salt marsh spatial structure at NOAA estuarine reserves. PS 39 - Coastal Habitats. Ecological Society 2010 Annual Meeting, August 3, 2010, Pittsburgh, PA.

Hladik, C.M., Alber, M., Schalles, J.F., Lynes, A.R. and Pennings, S.C. 2009. Poster: Salt marsh habitat mapping on Sapelo Island, GA using LIDAR and hyperspectral imagery. Coastal and Estuarine Research Federation meeting, November 2009, Portland, Oregon.

Schalles, J.F., Hladik, C.M., Altrichter, A.E., Seminara, D.N. and Merani, P.B. 2009. Poster: Geospatial partitioning of ecosystem components in coastal wetlands using masking and classification techniques with high resolution imagery. SCI-210 Marsh - general. Coastal and Estuarine Research Federation 2009 Biennial Conference, November 5, 2009, Portland, OR.

Schalles, J.F., Hladik, C.M., Pennings, S.C., Steele, M.M. and Lynes, A.R. 2009. Presentation: Extracting habitat features from hyperspectral wetland imagery at NOAA’s Sapelo Island and Mission-Aransas National Estuarine Research Reserves. NOAA – Educational Partnership Program Fifth Education and Science Forum, November 13, 2009, Howard University, Washington, D.C.

Schalles, J.F., Hladik, C.M., Volkmer, M. and Saucedo, D.F. 2007. Presentation: Geospatial mapping of species and biomass in Georgia salt marshes using AISA airborne hyperspectral imagery. Estuarine Research Federation 2007 Annual Meeting, 4-8 November 2007, Providence, Rhode Island.

Volkmer, M., Schalles, J.F., Hladik, C.M. and Pennings, S.C. 2007. Presentation: Coastal wetland and surface water classifications using hyperspectral aerial imagery. CS23 Remote Sensing and Emerging Technologies. American Society of Limnology and Oceanography 2007 Aquatic Science Meetings, February 5, 2007, Sante Fe, N.M.

Schalles, J., Hladik, C., Whitehurst, L. and Merani, P. 2006. Poster: Hyperspectral imaging of wetlands and estuarine waters of National Estuarine Research Reserves in the Southeastern and Mid-Atlantic Regions of the United States. Shallow Water Optics. Ocean Optics XVIII, The Oceanographic Society, October 9-13, 2006, Montreal, Quebec, Canada.

Reports

Danczak, R., Goldman, A., Meile, C., Schalles, J.F., Thomle, J. and Stegen, J. 2019. WHONDRS 48 Hour Diel Cycling Study at the Altamaha River in Georgia, USA. Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS). In: . (DOI: 10.15485/1577263)

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Schalles Department of Biology Creighton University Omaha, Nebraska 68178-0103 Office Phone: (402) 280-2811 Other Phone: (402) 981-3901 FAX Number: (402) 280-5595 E-Mail: JohnSchalles@creighton.edu Web Page: https://biology.creighton.edu/faculty/schalles Other Identity Systems: ORCID: orcid.org/0000-0003-4228-1288 GCE Data Sets: PLT-GCED-2203 (Lower Altamaha River Spartna alterniflora aboveground biomass estimates from Landsat 5 TM imagery) ANT-GCED-2005 (Oyster Paleobiology along the South Atlantic Coast of the United States) GIS-GCEL-1812a (May to July 2018 regions of interest (ROIs) of tidal marsh and tidal forest plant species to be used as ground reference data in habitat mapping) GIS-GCEL-1812 (May to July 2018 ground control points GPS coordinates of tidal marsh and tidal forest plant species to be used as ground control points in habitat mapping) PLT-GCET-1801 (Spartina alterniflora aboveground biomass patterns from Landsat 5 TM imagery (1984-2011) and external driver data used in multivariate analysis.) (most recent displayed - view all) GCE Publications and Presentations: (custom bibliography) Journal Articles Bice, K., Sheldon, J.E., Schalles, J.F., Alber, M. and Meile, C. 2023. Temporal patterns and causal drivers of aboveground plant biomass in a coastal wetland: insights from time-series analyses . Frontiers of Marine Sciences. 10(1130958). (DOI: 10.3389/fmars.2023.1130958) Lehmann, M.K., Gurlin, D., Pahlevan, N., Binding, C., Fichot, C., Gitelson, A., Mishra, D., Schalles, J.F., Simis, S., Smith, B. and Spyrakos, E. 2023. GLORIA - A globally representative hyperspectral in situ dataset for optical sensing of water quality. Nature - Scientific Data. 10:1130958, 6 April 2023(100 (2023)):13 p. (DOI: doi.org/10.1038/s41597-023-01973-y) Schaeffer, B., Neely, M., Spinosa, A., Serafy, E., Odermatt, D., Weathers, K., Barracchini, T., Bouffard, D., Carvalho, L., Comny, R., De Keukelaere, P., Hunter, P., Jamet, C., Joehnk, K., Johnston, J., Knudby, A., Minaudo, C., Pahlevan, N., Rose, K., Schalles, J.F. and Tzortziou, M. 2021. Integrating inland and coastal water quality data for actionable knowledge. Special Issue: Big Earth Data and Remote Sensing in Coastal Environments. Remote Sensing. 13; 23 July 2021(15):24 p. (DOI: doi.org/10 Zinnert, J.C., Nippert, J.B., Rudgers, J.A., Pennings, S.C., Gonzalez, G., Alber, M., Baer, S.G., Blair, J.M., Burd, A.B., Collins, S.L., Craft, C.B., Di Iorio, D., Dodds, W.K., Groffman, P.M., Herbert, E., Hladik, C.M., Li, F., Litvak, M., Newsome, S., O'Donnell, J., Pockman, W.T., Schalles, J.F. and Young, D.R. 2021. State Changes: Insights from the U.S. Long Term Ecological Research Network. Ecosphere. (DOI: 10.1002/ecs2.3433) Pahlevan, N., Smith, B., Schalles, J.F., Binding, C., Cao, Z., Ma, R., Alikas, K., Kangro, K., Gurlin, D., Ha, N., Matsushita, B., Moses, W., Greb, S., Lehmann, M.K., Ondrusek, M., Oppelt, N. and Stumpf, R. 2020. Seamless retrievals of chlorophyll-a from Sentinel-2 (MSI) and Sentinel-3(OLCI) in inland and coastal waters: A machine-learning approach. Remote Sensing of Environment. 240:111604. (DOI: https://doi.org/10.1016/j.rse.2019.111604) Thompson, V.D., Rick, T., Garland, C.J., Thomas, D.H., Smith, K.Y., Bergh, S., Sanger, M., Tucker, B., Lulewicz, I.H., Semon, A.M., Schalles, J.F., Hladik, C.M., Alexander, C.R. Jr. and Ritchison, B.T. 2020. Ecosystem stability and Native American oyster harvesting along the Atlantic Coast of the United States. Science Advances. 6. (DOI: 10.1126/sciadv.aba9652) Cao, F., Mishra, D., Schalles, J.F. and Miller, W. 2018. Evaluating ultraviolet (UV) based photochemistry in optically complex coastal waters using the Hyperspectral Imager for the Coastal Ocean (HICO). Estuarine, Coastal and Shelf Science. 215:199-206. (DOI: 10.1016/j.ecss.2018.10.013) Spyrakos, E., O'Donnell, R., Hunter, P., Miller, C., Scott, M., Simis, S., Neil, C., Barbarosa, C., Binding, C., Bradt, S., Bresciani, M., Dall'Olmo, G., Giardino, C., Gitelson, A., Kutser, T., Li, L., Matsusguta, B., Martinez-Vicente, V., Matthews, M., Ogashawara, I., Ruiz-Verdu, A., Schalles, J.F., Tebbs, E., Zhang, Y. and Tyler, A. 2017. Optical types of inland and coastal waters. Limnology and Oceanography. (DOI: 10.1002/lno.10674) O'Donnell, J. and Schalles, J.F. 2016. Examination of Abiotic Drivers and Their Influence on Spartina alterniflora Biomass over a Twenty-Eight Year Period Using Landsat 5 TM Satellite Imagery of the Central Georgia Coast. Special Issue: Remote Sensing in Coastal Environments. Remote Sensing. 8(6):22. (DOI: 10.3390/rs8060477) Hladik, C.M., Schalles, J.F. and Alber, M. 2013. Salt marsh elevation and habitat mapping using hyperspectral and LIDAR data. Remote Sensing of the Environment. 139:318 - 330. (DOI: 10.1016/j.rse.2013.08.003) Schalles, J.F., Hladik, C.M., Lynes, A.R. and Pennings, S.C. 2013. Landscape estimates of habitat types, plant biomass, and invertebrate densities in a Georgia salt marsh. Special Issue: Coastal Long Term Ecological Research. Oceanography. 26:88-97. (DOI: 10.5670/oceanog.2013.50) Schalles, J.F. and Hladik, C.M. 2012. Mapping phytoplankton chlorophyll in turbid, Case 2 estuarine and coastal waters. Special Issue: VIS-NIR Spectroscopy in Plant Sciences. Israel Journal of Plant Science. 60(1-2):169-192. (DOI: 10.1560/IJPS.60.1-2.169) Bhatti, A., Rundquist, D., Schalles, J.F., Ramirez, L. and Nasu, S. 2009. A comparision between above-water surface and subsurface spectral reflectances collected over inland waters. GeoCarto International. 24(2):133-141. (DOI: 10.1080/10106040802460707) Zhou, J., Gilerson, A., Ioannou, S., Schalles, J.F., Gross, B., Moshary, F. and Ahmed, S. 2008. Retrieving quantum yield of sun-induced chlorophyll fluorescence near surface from hyperspectral in-situ measurement in productive water. Optics Express. 16(22):17468 - 17483. (DOI: dx.doi.org/10.1364/OE.16.017468) Alberts, J.J., Takacs, M. and Schalles, J.F. 2004. Ultraviolet-Visible and Fluorescence Spectral Evidence of Natural Organic Matter (NOM) Changes along an Estuarine Salinity Gradient. Estuaries. 27(2):296-310. (DOI: 10.1007/BF02803386) Books and Book Sections Schalles, J.F. 2006. Optical remote sensing techniques to estimate phytoplankton chlorophyll a concentrations in coastal waters with varying suspended matter and CDOM concentrations. Pages 27 - 79 in: Richardson, L. and Ledrew, E. (editors). Remote Sensing of Aquatic Coastal Ecosystem Processes: Science and Management Applications. Springer, Netherlands. (DOI: ISBN-10 1402039670) Conference Posters and Presentations Schalles, J.F. and Peffer, C. Presentation: Regulatory, Legal, and Ethical Considerations for Drone Operations - The view from coastal Georgia . Regulatory Legal and Ethical Considerations for Drone Operations. Drones in the Coastal Zone - U.S. Southeast and Caribbean Regional Workshop, October 22, 2020, Virtual (web-based). Schalles, J.F. Presentation: High resolution salt marsh vegetation biomass mapping with an Altum 6 band camera and Matrice 210 drone. Introduction to Using Drones in the Coastal Zone. Drones in the Coastal Zone - U.S. Southeast and Caribbean Regional Workshop, October 14, 2020, Virtual (web-based). Schalles, J.F. Presentation: Using satellite, airborne, and drone remote sensing to study spatial-temporal patterns and responses to stressors in coastal wetlands. Lamar University Biology Department Invited Speakers Program, March 11, 2020, Beaumont, Texas. Schalles, J.F. Presentation: Using Spectral Library Derived Cluster Analysis for Satellite Classification and Mapping of Central South Atlantic Bight (SAB) Waters. SS054 Remote Sensing of Water Quality and Quantity. ASLO 2019 Aquatic Sciences Meeting, March 1, 2019, San Juan, Puerto Rico. Schalles, J.F., Hladik, C.M., Nealy, N., Miklesh, D.M., Meile, C., Lynn, T. and O'Donnell, J. Presentation: A 35 year spatial-temporal analysis of serious Spartina alterniflora biomass declines in coastal Georgia. Impact of multiple disturbances on coastal ecosystem structure and function. Coastal and Estuarine Research Federation Biennial Meeting, November 4, 2019, Mobile, Alabama. Bice, K., Sheldon, J.E., Alber, M., Schalles, J.F. and Meile, C. 2022. Poster: Potential drivers of saltmarsh dynamics in the Altamaha River Estuary. LTER All Scientists' Meeting. Bice, K., Sheldon, J.E., Alber, M., Schalles, J.F. and Meile, C. 2022. Presentation: Hydrodynamic forcings and causal drivers of saltmarsh biomass in the Altamaha River estuary. Graduate Climate Conference, Oct 28-30, Eastonville WA. Schalles, J.F. 2022. Presentation: Drone imagery for Vegetation and Habitat Studies. LTER All Scientist Meeting, September 22, 2022. Schalles, J.F., Hladik, C.M., O'Donnell, J., Miklesh, D.M., Pudil, T. and Nealy, N. 2021. Presentation: Satellite and drone remote sensing to study decadal scale and high resolution spatial-temporal patterns and declines of Spartina alterniflora above-ground biomass in Georgia, USA salt marshes. Session 2. 1st International Symposium on Coastal Ecosystems and Global Change (CoEco1), April 18, 2021, Xiamen University, Xiamen, China. Schalles, J.F., Hladik, C.M., O'Donnell, J., Miklesh, D.M., Pudil, T., Nealy, N. and Currin, H. 2021. Presentation: Serious multidecadal declines in aboveground biomass of the keystone salt marsh species, Spartina alterniflora, are related to climate change in coastal Georgia, USA. Wetlandscapes: Understanding the Large-scale Wetland Functions in the Landscape Symposium. 11th INTECOL International Wetlands Conference, October 14, 2021, Christchurch, New Zealand (virtual, prerecorded). Bice, K., Schalles, J.F. and Meile, C. 2020. Poster: Factors determining GA salt marsh biomass: A dynamical systems approach. 7th Annual Southeastern Biogeochemistry Symposium, March 14-15, Atlanta (online due to COVID-19). Bice, K., Wrighton, K., Daly, R., Schopflin, L., Danczak, R., Song, H.-S., Schalles, J.F. and Meile, C. 2020. Poster: Investigating subsurface biogeochemistry in tide-impacted Altamaha River sediment using microbial metagenomics and metabolomics. AGU Fall meeting, December 1-17, 2020, San Francisco (online due to COVID-19). Meile, C., Schalles, J.F., Peterson, R.N., O'Donnell, J., Bice, K., Medeiros, P.M., Di Iorio, D., Hopkinson, C.S., Joye, S.B., Stegen, J., Goldman, A., Thomle, J. and Danczak, R. 2019. Presentation: Flow and short- and long-term carbon dynamics at tidally impacted coastal interfaces in the SE USA. Goldschmidt Conference, August 18-23, 2019, Barcelona. Bell, T., Castorani, M. and Schalles, J.F. 2018. Presentation: Using drones for high spatial and temporal resolution - Long term observations. NSF LTER All Scientists Meeting, Wednesday, October 3, 2018, Asilomar Conference Center, Pacific Grove, CA. Miklesh, D.M., O'Donnell, J., Schalles, J.F. and Meile, C. 2018. Poster: Analysis of decadal-scale patterns of Spartina biomass in Georgia marshes using soil modeling and satellite imagery. Ocean Sciences Meeting, Feb 11-16, 2018, Portland OR. Schalles, J.F. 2018. Presentation: Spatial and temporal perpectives on multiple stressor impacts spanning inland to coastal ecosystems. Agency & International Program Lightning Talks. GLOBOLakes and GEO Aquawatch Joint Workshop, August 30, 2018, University of Stirling, Stirling, Scotland, UK. Schalles, J.F., O'Donnell, J., Hladik, C.M., Ponzi, S., Cao, F. and Miller, W. 2018. Poster: The dynamic littoral fringe – Spatial and temporal patterns in community structureand productivity in North American coastal ecosystems. Poster Session - Tuesday. GLOBOLakes and GEO Aquawatch Joint Workshop, Wednesday, August 29, 2018, University of Stirling, Stirling, Scotland, UK. Schalles, J.F., O'Donnell, J., Nealy, N., Mizoguchi, T. and Hladik, C.M. 2018. Presentation: Multidecadal biomass declines and controlling variables for the keystone salt marsh species, Spartina alterniflora, in coastal Georgia . SS86: Connecting the Dots – Signals of Global Change Effects in Freshwater and Marine Ecosystems. ASLO 2018 Summer Meeting, June 15, 2018, Victoria, British Columbia, BC. O'Donnell, J. and Schalles, J.F. 2017. Poster: Serious declines in Georgia salt marsh plant biomass are linked to climate variables. Poster Session. Climate Justice: The Struggle for Our Common Home. Loyola University 4th Annual Climate Change Conference, March 17, 2017, Chicago, IL. O'Donnell, J., Schalles, J.F. and Hladik, C.M. 2017. Presentation: Serious declines in a large area of Georgia Salt marsh plant biomass are linked to climate variables. Collaborating across geographic scales: integrating estuarine and coastal ocean information. Coastal and Estuarine Research Federation Biennial Meeting, November 9, 2017, Providence, Rhode Island. Schalles, J.F., Hladik, C.M., Yacobi, Y., Olley, J. and O'Donnell, J. 2017. Presentation: Chlorophyll retrieval Algorithms and effects of highly variable TSS and CDOM using a large spectral library of inland and coastal observations. #031 Global Remote Sensing of Inland Waters. Association for the Sciences of Limnology and Oceanography Annual Meeting, February 28, 2017, Honolulu, HI. O'Donnell, J., Schalles, J.F. and Hladik, C.M. 2016. Poster: Recent declines in Georgia salt marsh plant biomass and health are linked to climate and hydrologic variables. Poster Session. Georgia Department of Natural Resources Coastal Climate Change Conference: Prepare, Respond, and Adapt, November 2, 2016, Jekyll Island, GA. O'Donnell, J. and Schalles, J.F. 2015. Poster: 28 Years of Landsat5 TM and external forcing data for analysis of Spartina biomass on the Central Georgia coast. Coastal and Estuarine Research Federation Biennial Meeting., November 2015, Portland, OR. Schalles, J.F., Hart, A.C., Altrichter, A.E., Carpenter, E.J. and Vichienwanitchkul, P. 2015. Poster: Coastal systems in a time of climate change: The mangroves are coming. Climate Change Actions – Sustainable Solutions for a Living Earth., March, 2015, Loyola University – Chicago, IL. Schalles, J.F., Smith, E., Chaves-Rameriz, F., Davis, N., Altrichter, A.E., Hart, A.C., Carpenter, E.J., Seminara, D. and Vichienwanitchkul, P. 2015. Poster: Replacement of marsh with mangrove communities in Coastal Texas and potential impact to Whooping Cranes. Coastal & Estuarine Research Federation Meetings, November, 2015, Portland, OR. Schalles, J.F., O'Donnell, J. and Olley, J. 2014. Poster: Remote sensing and geospatial analysis of material gradients and fronts within the Inner Shelf of the Central South Atlantic Bight. 42. Optical Remote Sensing of Freshwater, Estuarine, and Coastal Environments: Water Quality and Other Applications. Ocean Sciences Meeting, February, 2014, Honolulu, Hawaii. Cherrier, J., Kelly, B., Abazinge, M., Jagoe, C., Callender, R., Schalles, J.F. and Tunnell, W. 2013. Presentation: Promoting a balance between societal demands and coastal ecosystem sustainability. ASLO Aquatic Sciences Meeting, February, 2013, New Orleans, Louisiana. Gilson, G.F., Schalles, J.F. and O'Donnell, J. 2013. Poster: Quantifying spatial variability of microbenthic algae using optical reflectance measurements. SCI-068P Estuarine Shallows : Biophysical Interactions. Coastal and Estuarine Research Federation Biennial Meeting, November, 2012, San Diego, CA. Schalles, J.F., Alberts, J.J., Takacs, M. and Fichot, C. 2013. Presentation: Sources and dynamics of dissolved organic carbon outwelling on the Georgia coast into the South Atlantic Bight: Research and Student Training. ASLO 2013 Aquatic Sciences Meeting, Feburary, 2013, New Orleans, Louisiana. Schalles, J.F., Carpenter, E.J., Hart, A.C., Altrichter, A.E. and Vichienwanitchkul, P. 2013. Presentation: Invasive mangroves in Texas: Surveys and high resolution imagery to map distribution, canopy height and cover, and response to a severe freeze. SCI 072 - Mangrove Expansion into Salt Marsh Habitats: Causes and Consequences. Coastal and Estuarine Research Federation Biennial Meeting, November, 2012, San Diego, CA. Olley, J., O'Donnell, J. and Schalles, J.F. 2012. Presentation: Boat-borne remote sensing and HPLC analysis of coastal phytoplankton populations along the Atlantic and Gulf Coasts. Biological oceanography - aquatic biology. TOS/ASLO/AGU 2012 Ocean Sciences Meeting, February 20 - 24, 2012, Salt Lake City, Utah. Schalles, J.F. and Gilerson, A. 2012. Presentation: Assessment and mapping phytoplankton chlorophyll patterns in inland and coastal habitats. The 1st Globolakes Scientific Workshop, 2012, University of Stirling, Stirling, Scotland, UK. Schalles, J.F., Hladik, C.M. and Seminara, D. 2012. Presentation: Cranes, Planes, and Planktonic Meals: Habitat Characterizations in Gulf and East Coast NOAA National Estuarine Research Reserves. 2012 NOAA EPP Cooperative Science Center Seminar Series, November 08, 2012, Silver Springs, Maryland. Schalles, J.F., Olley, J., O'Donnell, J. and Hladik, C.M. 2012. Presentation: Assessing chlorophyll patterns in tidal tributary streams and rivers and in estuary to near shore transition zones. FR4.5.5: Invited Session - Hyperspectral remote sensing in shallow waters. IEEE International Geoscience and Remote Sensing Symposium, July 22 - 27, 2012, Munich, Germany. Hladik, C.M., Alber, M. and Schalles, J.F. 2011. Poster: Fusing hyperspectral airborne imagery and LIDAR-derived digital elevation models for the correction of salt marsh elevations. Coastal and Estuarine Research Federation, November 6-10, 2011, Daytona Beach, FL. Schalles, J.F. 2011. Presentation: Student training and habitat monitoring in coastal systems . Teacher and Student Training. Western Region Space Grant Director’s Meeting, August 26, 2011, Fairbanks, AK. Schalles, J.F., Hladik, C.M., Seminara, D. and O'Donnell, J. 2011. Presentation: Mapping Coastal and Estuarine Chlorophyll Concentrations. S05: Ocean Color Radiometry of Coastal and Inland Water. 2011 ASLO Aquatic Sciences Meeting, February 16, 2011, San Juan, Puerto Rico. Schalles, J.F., Olley, J., Hladik, C.M. and O'Donnell, J. 2011. Presentation: Comparing algal chlorophyll spatial patterns within and between Gulf and East Coast National Estuarine Research Reserves. SCI-106, Comparative Studies of Estuarine and Coastal System Properties. Coastal and Estuarine Research Federation, November 9. 2011, Daytona Beach, Florida. Schutte, C., Meile, C., Di Iorio, D., McKay, P., Joye, S.B., Blanton, J.O. and Schalles, J.F. 2011. Poster: Physical and biogeochemical patterns in the Duplin saltmarsh river system: preliminary results. LTER Science Council Meeting, Jekyll Island, GA. Seminara, D. and Schalles, J.F. 2011. Presentation: Intersite comparison of marsh spatial patterns using hyperspectral imagery at NERR sites along the Gulf and Atlantic coasts. SCI-106, Comparative Studies of Estuarine and Coastal System Properties. Coastal and Estuarine Research Federation, November 9, 2011. Hladik, C.M., Alber, M., Schalles, J.F. and Pennings, S.C. 2010. Poster: Salt marsh habitat mapping on Sapelo Island, GA using LIDAR and hyperspectralimagery. National Estuarine Research Reserve Annual Meeting, October 11-15, 2010, National Conservation Training Center, Shepherdstown, WV. Schalles, J.F., Hladik, C.M., Seminara, D.N., Altrichter, A.E. and Steele, M.M. 2010. Poster: Extracting habitat features from hyperspectral coastal wetland imagery in Georgia and Texas. Coastal Habitats. ESA Annual Meeting, August 1-6, 2010, Pittsburgh, PA. Seminara, D.N. and Schalles, J.F. 2010. Poster: Vegetation indices to compare salt marsh spatial structure at NOAA estuarine reserves. PS 39 - Coastal Habitats. Ecological Society 2010 Annual Meeting, August 3, 2010, Pittsburgh, PA. Hladik, C.M., Alber, M., Schalles, J.F., Lynes, A.R. and Pennings, S.C. 2009. Poster: Salt marsh habitat mapping on Sapelo Island, GA using LIDAR and hyperspectral imagery. Coastal and Estuarine Research Federation meeting, November 2009, Portland, Oregon. Schalles, J.F., Hladik, C.M., Altrichter, A.E., Seminara, D.N. and Merani, P.B. 2009. Poster: Geospatial partitioning of ecosystem components in coastal wetlands using masking and classification techniques with high resolution imagery. SCI-210 Marsh - general. Coastal and Estuarine Research Federation 2009 Biennial Conference, November 5, 2009, Portland, OR. Schalles, J.F., Hladik, C.M., Pennings, S.C., Steele, M.M. and Lynes, A.R. 2009. Presentation: Extracting habitat features from hyperspectral wetland imagery at NOAA’s Sapelo Island and Mission-Aransas National Estuarine Research Reserves. NOAA – Educational Partnership Program Fifth Education and Science Forum, November 13, 2009, Howard University, Washington, D.C. Schalles, J.F., Hladik, C.M., Volkmer, M. and Saucedo, D.F. 2007. Presentation: Geospatial mapping of species and biomass in Georgia salt marshes using AISA airborne hyperspectral imagery. Estuarine Research Federation 2007 Annual Meeting, 4-8 November 2007, Providence, Rhode Island. Volkmer, M., Schalles, J.F., Hladik, C.M. and Pennings, S.C. 2007. Presentation: Coastal wetland and surface water classifications using hyperspectral aerial imagery. CS23 Remote Sensing and Emerging Technologies. American Society of Limnology and Oceanography 2007 Aquatic Science Meetings, February 5, 2007, Sante Fe, N.M. Schalles, J., Hladik, C., Whitehurst, L. and Merani, P. 2006. Poster: Hyperspectral imaging of wetlands and estuarine waters of National Estuarine Research Reserves in the Southeastern and Mid-Atlantic Regions of the United States. Shallow Water Optics. Ocean Optics XVIII, The Oceanographic Society, October 9-13, 2006, Montreal, Quebec, Canada. Reports Danczak, R., Goldman, A., Meile, C., Schalles, J.F., Thomle, J. and Stegen, J. 2019. WHONDRS 48 Hour Diel Cycling Study at the Altamaha River in Georgia, USA. Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS). In: . (DOI: 10.15485/1577263)
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