@article {83182, title = {A doubled down invasion of the northeast Pacific by the Asian mud shrimp, Upogebia major, and its coevolved bopyrid isopod parasite, Orthione griffenis}, journal = {Aquatic Invasions}, volume = {16}, number = {4}, year = {2021}, note = {The blue mud shrimp, Upogebia pugettensis, is known to be an ecosystem engineer, turning over and re-suspending, and aerating sediments (bioturbation), burrowing, and deposit feeding. The mud shrimp affects organic structure, nutrients, and the grain size of sediments in mudflats. Some of this activity creates difficulties for oyster growers, causing the application of pesticides in oyster growing areas in the 1950s. It may be that the changes in the ecosystem caused by introduced oysters and pesticides opened the doors for subsequent invasions. In 1999, a parasitic isopod was discovered to be infecting the native mud shrimp, and effectively sterilizing the shrimp. A related species, the Asian mud shrimp. Upogebia major, is less susceptible to the parasite, and has begun to fill in spaces formerly occupied by the blue mud shrimp. While this article is concerned with mud shrimp populations in California, the dynamics discussed are relevant to Oregon estuaries. If the ways our estuaries are engineered changes thanks to the double invasion, the way we manage our estuaries will also have to change. This is an open-access article, and it has also been re-printed as no.21-021 in the ORESU-R series.}, month = {2021}, pages = {p.721{\textendash}749}, keywords = {Alsea Bay, Asian mud shrimp Upogebia major, bioturbation, community ecology, Coos Bay, depleted populations, Griffen{\textquoteright}s isopod = Orthione griffensis, introduced species, Mud shrimp = Upogebia pugettensis, natural resource management, Nestucca Bay, Netarts Bay, Upogebia macginitieorum, Yaquina Bay}, doi = {https://doi.org/10.3391/ai.2021.16.4.09}, url = {https://ir.library.oregonstate.edu/concern/articles/k643b826b }, author = {Chapman, John W. and Li, Jingchun and McGowan, Michael F. and Breitenstein, Ralph A. and Appy, Ralph and Hieb, Kathryn A. and Piotrowski, Christina N. and Elder, Leanne E.} } @article {34531, title = {An introduced Asian parasite threatens northeastern Pacific estuarine ecosystems}, journal = {Biological Invasions}, volume = {14}, year = {2012}, note = {The non-indigenous isopod Orthione griffenis effectively castrates the mud shrimp Upogebia. The spread of the invasive parasite has dramatically depleted mud shrimp populations along the northwestern coast of North America. "All previously known abundant Upogebia populations were either absent or at greatly reduced abundances in all California, Oregon and Washington estuaries examined." (p.1225) "[U]rgent, immediate responses, including captive breeding programs for the most impacted Upogebia populations and species are warranted." (p.1234)}, pages = {p.1221-1236}, keywords = {Alsea Bay, bioturbation, Coos Bay, depleted populations, invasive species, Mud shrimp = Upogebia pugettensis, Netarts Bay, Orthione griffenis, parasites, Sand Lake, Siletz Bay, Tillamook Bay, Yaquina Bay}, doi = {10.1007/s10530-011-0151-3}, url = {https://ir.library.oregonstate.edu/concern/articles/nc580n174}, author = {Chapman, John W. and Dumbauld, Brett R. and Itani, Gyo and Markham, John C.} } @article {13576, title = {Classification of Regional Patterns of Environmental Drivers and Benthic Habitats in Pacific Northwest Estuaries}, volume = {EPA 600/R-09/140}, year = {2009}, note = {"This report describes a pilot effort at classifying PNW estuaries with regards to landscape attributes and their susceptibility to nutrient enrichment." (p.247) Much data is presented. Although the report focuses on seven estuaries (Alsea, Coos Bay, Nestucca, Salmon River, Tillamook Bay, Umpqua and Yaquina), many other estuaries are mentioned, and basic statistical data is given for all PNW estuaries.}, keywords = {Alsea Bay, climate, Coos Bay, demographics, eelgrass = Zostera marina, Ghost shrimp = Neotrypaea californiensis (Callianassa californiensis), hydrography, hydrology, Japanese eelgrass = Zostera japonica, Mud shrimp = Upogebia pugettensis, Nestucca River estuary, nitrate-nitrite, nitrogen, phosphorus, phytoplankton, precipitation, salinity, Salmon River Estuary, sediment data, tidal currents, Tillamook Bay, turbidity, Umpqua River estuary, Yaquina Bay}, url = {https://tinyurl.com/386ba6jn}, author = {National Health and Environmental Effects Research Laboratory (U.S.). Western Ecology Division,}, editor = {Lee II, Henry and Brown, Cheryl A.} } @article {14046, title = {Shellfish and Marine Habitat Program annual report}, year = {1994}, note = { This report has a nice table of commercial bay clam statistics for 1970-1994. Netarts Bay was once again the major producer of mudshrimp for the baitfish industry in 1994, with 24,956 lbs. for 99\% of the total harvest. Native oysters were planted in Netarts Bay in 1993 and were doing well in test plots in 1994. The hope is that they will start producing naturally. }, month = {1996, Apr.}, keywords = {catch statistics, Cockle clam = Clinocardium nuttallii, commercial fisheries - shellfish, Mud shrimp = Upogebia pugettensis, Netarts Bay, Olympia oyster = Ostrea conchaphila (Ostrea lurida)}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish and Marine Habitat Program,} } @article {14071, title = {Shellfish and Marine Habitat Program Annual Report}, year = {1993}, note = { This report has a nice table of commercial bay clam statistics for 1970-1993. Netarts Bay was once again the major producer of mudshrimp for the baitfish industry in 1993, with 47,929 lbs. for 99.3\% of the total harvest. }, month = {1995, Apr.}, keywords = {catch statistics, Cockle clam = Clinocardium nuttallii, commercial fisheries - shellfish, Mud shrimp = Upogebia pugettensis, Netarts Bay}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish and Marine Habitat Program,} } @article {14131, title = {Shellfish Program Annual Report}, year = {1991}, note = {This report was intended as an internal document for Shellfish Program staff. Once again, Netarts Bay produced most of the commercially caught mud shrimp for the Oregon baitfish industry, with 49,734 lbs. landed, for 95.2\% of the total catch. Recreational clamming may have gotten a break when "the main highway between Tillamook and Portland was blocked by a landslide for several months which may have reduced overall effort in Tillamook, Netarts, and Nehalem Bays." (p.3)}, month = {1992, Nov.}, keywords = {catch statistics, Cockle clam = Clinocardium nuttallii, commercial fisheries - shellfish, Gaper clam = Tresus capax, Littleneck clam = Leukoma staminea, Mud shrimp = Upogebia pugettensis, Netarts Bay}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish Program,} } @article {14186, title = {Shellfish Investigation Progress Report}, year = {1990}, note = {In 1990, Netarts Bay produced most of the mud shrimp landings in the commercial baitfish industry, with 46,240 lbs. (88.7\%) of the state harvest. "Intertidal recruitment of gaper clams in Netarts Bay was extremely poor with only 0.9 clams / sqare foot." (p.3)}, month = {1991, Jul.}, keywords = {commercial fisheries - shellfish, Gaper clam = Tresus capax, Mud shrimp = Upogebia pugettensis, Netarts Bay, statistics}, author = {Oregon. Dept. of Fish and Wildlife. Marine Region,} } @article {14196, title = {Status of Stocks : Bay Clams, Bait Shrimp}, year = {1990}, note = {Internal discussion paper. Numerous statistical tables and charts.}, month = {March, 1990}, pages = {20 p.}, keywords = {abundance, age composition, Alsea Bay, aquatic invertebrates, bivalves, Butter clam = Saxidomus giganteus, catch statistics, Cockle clam = Clinocardium nuttallii, commercial fisheries - shellfish, Coos Bay, Gaper clam = Tresus capax, ghost shrimp = Neotrypaea californiensis, Happy Camp, life history information, Littleneck clam = Leukoma staminea, Manila clam = Venerupis japonica, molluscs, Mud shrimp = Upogebia pugettensis, natural resource management, Netarts Bay, population biology, sediments, Siuslaw Bay, size composition, Softshell clam = Mya arenaria, statistical analysis, Tillamook Bay, Yaquina Bay}, url = {https://ir.library.oregonstate.edu/concern/technical_reports/3484zh72x}, author = {Oregon. Dept. of Fish and Wildlife. Marine Region,} } @article {14241, title = {Shellfish Program Annual Report}, year = {1989}, note = {This report was intended as an internal document for Shellfish Program staff. Netarts Bay produced the largest harvest of mud shrimp for the fishbait industry.}, month = {1990, Mar.}, keywords = {bivalves, catch statistics, commercial fisheries - shellfish, crustaceans, Gaper clam = Tresus capax, Geoduck clam = Panopea generosa, molluscs, Mud shrimp = Upogebia pugettensis, Netarts Bay, Pacific gaper clam = Tresus nuttallii, recreational fisheries - shellfish}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish Program,} } @article {14246, title = {Species profiles : life histories and environmental requirements of coastal fishes and invertebrates (Pacific Northwest) : ghost shrimp and blue mud shrimp}, volume = {no. 82-11.93}, year = {1989}, note = {This is a classic overview of the biology and life history of ghost shrimp and mud shrimp in the Pacific Northwest, although the heavily parasitized mud shrimp may soon become extinct in Oregon estuaries. Good bibliography, if a bit dated. Map, charts, line drawings.}, pages = {14 p.}, keywords = {Alsea Bay, Chetco River estuary, Columbia River estuary, commercial fisheries - shellfish, Coos Bay, Coquille Bay, crustaceans, fecundity, general, Ghost shrimp = Neotrypaea californiensis (Callianassa californiensis), growth, life history information, Mud shrimp = Upogebia pugettensis, Nehalem Bay, Nestucca Bay, Netarts Bay, recreational fisheries - shellfish, reproductive behavior, Rogue River estuary, Salmon River Estuary, Sand Lake, Siletz Bay, Siuslaw Bay, taxonomy, Tillamook Bay, Umpqua River estuary, Yaquina Bay}, url = {https://apps.dtic.mil/dtic/tr/fulltext/u2/a206132.pdf}, author = {Hornig, Susanna and Sterling, Anita and National Wetlands Research Center (U.S.), and Smith, Stanley DeWitt and U.S. Army Engineer Waterways Experiment Station. Coastal Ecology Group, and National Wetlands Research Center (U.S.),} } @article {14291, title = {Shellfish Program annual report}, year = {1988}, note = {This report was intended as an internal document for Shellfish Program staff. Netarts Bay produced the largest harvest of mud shrimp for the fishbait industry, with 46.6\% of the state total. "As in 1987, we saw several geoduck clams in the sport harvest in Netarts Bay. Also of interest was the increasing frequency ... [of] Tresus nuttallii in the sport harvest in Netarts and Coos Bays." (p.6) "Recruitment studies continue to reveal poor survival of juvenile gaper clams in both intertidal and subtidal stocks of Netarts and Yaquina Bays." (p.7)}, month = {1989, May}, keywords = {bivalves, catch statistics, commercial fisheries - shellfish, crustaceans, Gaper clam = Tresus capax, Geoduck clam = Panopea generosa, molluscs, Mud shrimp = Upogebia pugettensis, Netarts Bay, Pacific gaper clam = Tresus nuttallii, recreational fisheries - shellfish}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish Program,} } @article {14326, title = {Shellfish Program Annual Report}, year = {1987}, note = {This report was intended as an internal document for Shellfish Program staff. "Of particular interest was the first verified harvest of geoduck clams in Netarts Bay. The 1984 brood year clam could possibly be progency from 32 adult Puget Sound clams planted in the bay in 1972." (p.3). Netarts Bay led the state in mud shrimp harvested for the baitfish industry, provinding nearly 50\% of the state harvest. 60,000 gallons of sewage were spilled into Netarts Bay in 1987.}, month = {1988, Nov.}, keywords = {catch statistics, commercial fisheries - shellfish, Geoduck clam = Panopea generosa, Mud shrimp = Upogebia pugettensis, Netarts Bay, recreational fisheries - shellfish, waste disposal, water pollution}, author = {Oregon. Dept. of Fish and Wildlife. Shellfish Program,} } @article {14671, title = {Subtidal clam populations: Distribution, abundance, and ecology}, volume = {no.79-002}, year = {1979}, note = {Good maps}, month = {[1979]}, pages = {243 p.}, institution = {Oregon State University Sea Grant}, address = {Corvallis, OR}, keywords = {abundance, aquatic invertebrates, aquatic vegetation, biological, bivalves, brown algae, Butter clam = Saxidomus giganteus, Cockle clam = Clinocardium nuttallii, commercial fisheries, community ecology, crustaceans, decapods, developmental stages, economics, eelgrass = Zostera marina, Enteromorpha species, fat gaper clam = Tresus capax, Fucus species, general ecosystem description, geographical distribution, Ghost shrimp = Neotrypaea californiensis (Callianassa californiensis), grasses, green algae, historical, life history information, littleneck clam = Protothaca staminea, molluscs, Mud shrimp = Upogebia pugettensis, Netarts Bay, population biology, recreational fisheries - shellfish, reproductive behavior, sediments, Softshell clam = Mya arenaria, temporal distribution, Ulva species}, url = {https://repository.library.noaa.gov/view/noaa/39128}, author = {Hancock, D. R. and Gaumer, Thomas F. and Willeke, G. B. and Robart, G. P. and Flynn, J.} } @article {14701, title = {Oregon Bay Clam Distribution, Abundance, Planting Sites and Effects of Harvest. Annual Report. October 1, 1977 to September 30, 1978}, year = {1978}, note = {"Studies were continued on the distribution and abundance of bay clams in Oregon{\textquoteright}sestuaries. f4aps showing distribution of cl ams, substrate type and vegetation type in Tillamook, INetarts and Salmon River estuaries are presented." (from the Introduction) The report also covers attempts to artifiially enhance natural production of clams, and examines the commercial clam fisheries in Yaquina and Coos Bays. Good maps.}, month = {November_1978}, pages = {70 p.}, institution = {Oregon Department of Fish and Wildlife}, address = {[Portland, OR]}, keywords = {algae, aquaculture, Baltic clam = Macoma balthica, Bay shrimp = Crangon franciscorum, Butter clam = Saxidomus giganteus, California softshell clam = Cryptomya californica, Cockle clam = Clinocardium nuttallii, commercial fisheries - shellfish, Coos Bay, crustaceans, eelgrass = Zostera marina, Fucus species, Gaper clam = Tresus capax, Ghost shrimp = Neotrypaea californiensis (Callianassa californiensis), growth, Irus clam = Irus ishibashianus, Littleneck clam = Leukoma staminea, Manila clam = Venerupis japonica, molluscs, Mud shrimp = Upogebia pugettensis, Netarts Bay, Piddock clam = Penitella penita, recreational fisheries - shellfish, Salmon River Estuary, Sand clam = Macoma secta, sediments, Softshell clam = Mya arenaria, spatial distribution, Tillamook Bay, Ulva species: Enteromorpha species, Yaquina Bay}, url = {https://ir.library.oregonstate.edu/concern/technical_reports/6w924c49m}, author = {Gaumer, Thomas F. and Robart, Gregory P. and Geiger, Anne and Oregon Department of Fish and Wildlife, and U.S. National Marine Fisheries Service,} }