Cooperative Fish and Wildlife Research Units Program: California
Education, Research and Technical Assistance for Managing Our Natural Resources

California Staff Member


Mark J. Henderson

Mark Henderson in Alaska

Assistant Unit Leader
Phone: (707) 826 - 5644
Email: mark.henderson@humboldt.edu
Personal website

Education

  • Ph D College of William and Mary 2012
  • MS University of Washington 2005
  • BS SUNY Geneseo 2000

Research Interest

My current research focuses on the interactions between Pacific salmon and the environment. My approach is to use data collected in the field to develop and inform ecological models. Modeling techniques I have used include statistical analyses, mark-recapture, growth models, bioenergetics, and individual-based models. These models can then be used to study how environmental changes affect fish behavior and population dynamics.

Research Publications Publication Date
Winship A.J., Thorson J., Clarke E., Coleman H., Costa B., Georgian S., Gillett D., Grüss A., Henderson M., Hourigan T.F., Huff D., Kreidler N., Pirtle J., Olson J.V., Poti M., Rooper C.N., Sigler M.F., Viehman S., and Whitmire C.E. in review . Good practices for species distribution modeling of deep-sea corals and sponges: data collection, analysis, validation, and communication. Submitted to Frontiers in Marine Science. | Abstract May 2020
Rub, A.M., Som, N.A., Henderson, M.J., Sandford, B.P., Van Doornik, D.M., Teel, D.J., Tennis, M, Langness, O., van der Leeuw, B., Huff, D.D. 2019. Changes in adult Chinook salmon (Oncorhynchus tshawytscha) survival with the lower Columbia River amid increasing pinniped abundance. Canadian Journal of Fisheries and Aquatic Sciences 76: 1862-1873. dx.doi.org/10.1139/cjfas-2018-0290 | Abstract September 2019
Robinson, H.E., Strickler, J.R., Henderson, M.J., Hartline, D.K., Lenz, P.H. 2019. Predation strategies of larval clownfish capturing evasive copepod prey. Marine Ecology Progress Series, 614: 125-146. DOI: 10.3354/meps12888 | Abstract April 2019
Notch J.J., McHuron A.S., Michel C.J., Cordoleani F., Johnson M., Henderson M.J., and Ammann A.J. (in press) Outmigration survival of wild Chinook salmon smolts through the Sacramento River during historic drought and high water conditions. environmental biology of fishes. | Abstract May 2020
Michel, CJ, Henderson, MJ, Loomis, CM, Smith, JM, Demetras, NJ, Iglesias, IS, Lehman, BM, Huff, DD. Fish Predation on a Landscape Scale. Submitted to Ecological Applications. | Abstract June 2020
Henderson, M.J., Iglesias, I.S., Michel, C.J., Ammann, A.J., Huff, D.D. 2019. Estimating spatial-temporal differences in Chinook salmon outmigration survival with habitat and predation related covariates. Canadian Journal of Fisheries and Aquatic Sciences, 76: 1549-1561. dx.doi.org/10.1139/cjfas-2018-0212 September 2019
Henderson, M.J., Fiechter, J., Huff, D.D., and Wells, B. 2019. Spatial Variability in ocean-mediated growth potential is linked to Chinook salmon survival. Fisheries Oceanography, 3: 334-344. DOI: 10.1111/fog.12415 May 2019
Hassrick, J. L., Henderson, M. J., Huff, D. D., Sydeman, W. J., Sabal, M. C., Harding, J. A., Ammann, A. J., Crandall, E. D., Bjorkstedt, E. P., Garza, J. C., Hayes, S. A. Early ocean distribution of juvenile Chinook salmon in an upwelling ecosystem. Fisheries Oceanography, March 2016, Volume 25, Issue 2, pp. 133-146. | Abstract | Publisher Website March 2016
Project Completion Date
Klamath Basin S3 Model September 2019
Phase II: Monitoring the endangered Tidewater Goby using environmental DNA in water samples: Field tests June 2019
Using genomics to elucidate local adaptation among isolated populations of the endangered tidewater goby December 2022
Development of environmental DNA assays for Central Valley Chinook salmon ecotypes December 2020
Integration of molecular methods into predator diet analysis to advance understanding of juvenile Chinook salmon predation mortality in the Delta December 2022
Standardizing Environmental DNA methodologies for Coho Salmon December 2023
Modeling the density of a parasite impacting salmonids in the Klamath River November 2023
Large wood restoration effectiveness for salmonids in Pudding Creek, California: A before-after-control-impact experiment June 2021
Research and development of a predictive model for Ceratonova shasta waterborne parasites in support of Klamath River water management decisions and the Klamath Basin Stream Salmonid Simulator (S3 Model) September 2023
Juvenile rearing distribution of threatened coho salmon at habitat restoration sites on the Hoopa reservation August 2022
Comparison of standard and eDNA methods for estimating Chinook Salmon smolt abundance in the Klamath River (CA) April 2020
Tracking Coho Salmon using eDNA December 2019
Basal Hollow Roost Selection June 2019
Prairie Creek Coho Salmon Life Cycle Monitoring March 2020
Monitoring threatened Coho Salmon populations in Humboldt Bay tributaries September 2020
Monitoring Chinook Salmon in Redwood Creek to assess the impacts of a modified estuary June 2020
Linking predation mortality to predator density and survival for out-migrating Chinook Salmon and steelhead in the lower San Joaquin and South Delta December 2018
How many cooks in the kitchen? Evaluating the potential of DNA mixture models to infer counts from fish and wildlife genetic samples October 2016
Humboldt Bay Invertebrate August 2019
Tidewater Goby Survey September 2018
Habitat selection in an Arctic Seabird: Implications for Climate Change December 2019
Kreidler, Nissa
Master's
ndk14@humboldt.edu

Okun, Natalie
Master's
nbo3@humboldt.edu

Presentations Presentation Date
Winship, Thorson, Henderson et. al (2019) Best practices for spatial predictive modeling to support effective management of deep-sea corals and sponges. 7th International Symposium on Deep-Sea Corals. July 29-August 2, 2019, Cartagena, Colombia. July 2019
Van Vleet, Nicholas and Henderson, Mark. A novel approach to estimate winter movement and survival of juvenile Coho Salmon. 37th Annual Salmonid Restoration Conference. April 23-26, 2019. Santa Rosa, CA. April 2019
Van Vleet N., Henderson M.J., Ward, D. 2018. Winter movement and survival of juvenile Coho Salmon in Freshwater Creek, California. Oregon Chapter of the American Fisheries Society 54nd Annual Meeting, Eugene, OR. March 13-16, 2018. March 2018
Van Vleet N., Henderson M.J., Ward, D. 2018. Winter movement and survival of juvenile Coho Salmon in Freshwater Creek, California. 52nd Annual California-Nevada American Fisheries Society meeting, San Luis Obispo, CA. Feb 28 - March 2, 2018. March 2018
Solinger L., Bjorkstedt E., Buchheister A., Henderson M., and Field J. 2018. Developing spatially-explicit stock assessment models to explore spatial variability in recruitment of Chilipepper Rockfish (Sebastes goodei). 13th National Stock Assessment Workshop. Irvine, CA. May 22-24, 2018. May 2018
Okun, N. and Henderson, M. Large wood restoration effectiveness for salmonids in Pudding Creek, CA: a before-after-control-impact experiment. 37th Annual Salmonid Restoration Conference. April 23-26, 2019. Santa Rosa, CA. April 2019
Okun, N. and Henderson, M. Large Wood Restoration Effectiveness for Salmonids in Pudding Creek, CA: A before-after-Control-Impact Experiment. 149th annual meeting of the American Fisheries Society. Reno, NV. September 29 - October 3, 2019. September 2019
Michel C., Smith, J., Demetras N., Iglesias I., Lehman B., Loomis C., Henderson M., Huff D. 2018. Spatial patterns and environmental associations of piscivorous predation throughout the south Sacramento-San Joaquin River Delta in 2017. 10th biennial Bay-Delta Science Conference, Sacramento, CA. September 10-12, 2018. September 2018
Michel C., Loomis C., Henderson M., Smith J., Demetras N., Iglesias I., Lehman B., Huff D., and Hayes S. Fish predation on a landscape scale. OneNOAA Science Seminar Series. August 2020
Loomis, C. and Henderson, M. Estimating predator fish density and abundance in the Sacramento-San Joaquin Delta using DIDSON Acoustic cameras. 37th Annual Salmonid Restoration Conference. April 23-26, 2019. Santa Rosa, CA. April 2019
Loomis, C and Henderson, M. Density and Distribution of Piscivorous Fishes in the Sacramento-San Joaquin Delta. 149th annual meeting of the American Fisheries Society. Reno, NV. September 29 - October 3, 2019. October 2019
Loomis C. and Henderson M., 2018. Estimating Delta predatory fish abundance with DIDSON acoustic cameras. 10th biennial Bay-Delta Science Conference, Sacramento, CA. September 10-12, 2018. September 2018
Kreidler, Buchheister, and Mark Henderson (2019) Habitat Suitability Mapping for Fish Indicative Deep Sea Corals and Sponges in the Southern California Bight. International deep sea coral symposium. July 2019
Kreidler N., Buchheister A., and Henderson M. 2018. Habitat Suitability Mapping for Southern California Bight Deep Sea Corals and Sponges. 15th Deep-Sea Biology symposium. Monterey, CA. Sept 9-14, 2018 September 2018
Kanawi, E., Kinziger, A., and Henderson, M. Using environmental DNA water samples to determine the timing and abundance of outmigrating Coho Salmon. 55th Annual Meeting of the Oregon Chapter of the American Fisheries Society. March 4-8, 2019. Bend, OR. March 2019
Kanawi, E., Kinziger, A., and Henderson, M. Using environmental DNA water samples to determine the timing and abundance of outmigrating Coho Salmon. 37th Annual Salmonid Restoration Conference. April 23-26, 2019. Santa Rosa, CA. April 2019
Henderson, M.J., Kreidler, N, Yoklavich, M., Buchheister, A., Fiechter J., Huff, D. 2021. The importance of accounting for spatial autocorrelation in habitat analyses. 151st meeting of the American Fisheries Society, Baltimore, MD, USA, November 6-10, 2021. November 2021
Henderson, M.J., I. Iglesias, C. Michel, D. Huff, E. Danner, and S. Hayes. 2018. Processes influencing outmigrating Chinook Salmon survival in the Sacramento River. 148th Annual Meeting, American Fisheries Society, Atlantic City, NJ, 19-23 August 2018. August 2018
Henderson, M.J., Huff, D.D., and Yoklavich, M. 2018. Associations between deep-sea coral and sponge assemblages and demersal fishes in the Southern California Bight. 2018 Ocean Sciences Meeting, Portland OR, 11-16 September 2018. February 2018
Henderson, M., Iglesias, I., Michel, C., Huff, D., Pike, A., Danner, E., and Hayes, S. 2017. Mortality of Central Valley Chinook Salmon smolts relative to physical habitat features. 51st Annual meeting, Cal-Neva Chapter of the American Fisheries Society, Eureka, California, April 5-7, 2017. April 2017
H. Eve Robinson, J. Rudi Strickler, Mark J. Henderson, Daniel K. Hartline, Petra H. Lenz June 2018
Dick, C., Larson, W., and Henderson, M. How many salmon smolts are consumed in the Sacramento-San Joaquin Delta: quantifying predation with molecular methods. 151st annual meeting of the American Fisheries Society, Baltimore, MD, USA. November 6-10, 2021 November 2021
Chen, Emily and Henderson, Mark. Contribution of estuarine rearing in a bar-built estuary to recruitment of Chinook salmon using a hierarchical life cycle model. 55th Annual Meeting of the Oregon Chapter of the American Fisheries Society. March 4-8, 2019. Bend, OR. March 2019
Chen, Emily and Henderson, Mark. Barred from the Ocean: Consequences of a Unique Estuary Phenomenon on Juvenile Growth and Population Recruitment of Chinook Salmon in Redwood Creek. 37th Annual Salmonid Restoration Conference. April 23-26, 2019. Santa Rosa, CA. April 2019
Chen, E. and Henderson, M. Barred from the Ocean: Consequences of a Unique Estuary Phenomenon on Recruitment of Chinook Salmon. 149th annual meeting of the American Fisheries Society. Reno, NV. September 29 - October 3, 2019. October 2019
Chen E. K., Henderson M.J. 2018 Contribution of juvenile estuarine residency to Chinook Salmon recruitment in Redwood Creek, California. Oregon Chapter of the American Fisheries Society 54nd Annual Meeting, Eugene, OR. March 13-16, 2018. March 2018
Chen E. K., Henderson M.J. 2018 Contribution of juvenile estuarine residency to Chinook Salmon recruitment in Redwood Creek, California. Cal-Neva Chapter of the American Fisheries Society 52nd Annual Meeting, San Luis Obispo, CA. Feb 28-March 2, 2018. March 2018
Caught in the middle: Top-down impact of seabirds on Chinook Salmon (Oncorhynchus tshawytscha) is dependent on bottom-up mechanisms November 2016
Associations between deep-sea coral/sponge assemblages and demersal fishes in the Southern California Bight September 2016
Technical Publications Publication Date
Limberg, K., Gibson, J., Haskill, C., Henderson, M., Huynh, Q. 2020. American Shad Benchmark Stock Assessment Peer Review Report. Stock Assessment Report of the Atlantic States Marine Fisheries Commission. | Download August 2020
Iglesias I.S., Henderson M.J., Michel C.J., Ammann A.J., and Huff D.D. 2017. Chinook salmon smolt mortality zones and the influence of environmental factors on out-migration success in the Sacramento River Basin. Final report to USFWS - Agreement Number F15PG00146. 30 pgs. | Download April 2017