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Introduction
Primary Publications
Secondary Publications
Abstracts

Northeast Fisheries Science Center Reference Document 13-25

Northeast Fisheries Science Center Publications, Reports, and Abstracts for Calendar Year 2012

compiled by Laura Garner
NOAA Fisheries, Northeast Fisheries Science Center, 166 Water Street, Woods Hole MA 02543

Web version posted November 22, 2013

Citation: Garner L. 2013. Northeast Fisheries Science Center Publications, Reports, and Abstracts for Calendar Year 2012. NEFSC Ref Doc 13-25; 26 p. Available from: National Marine Fisheries Service, 166 Water Street, Woods Hole, MA 02543-1026, or online at http://nefsc.noaa.gov/publications/

Information Quality Act Compliance: In accordance with section 515 of Public Law 106-554, the Northeast Fisheries Science Center completed both technical and policy reviews for this report. These predissemination reviews are on file at the NEFSC Editorial Office.

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Introduction

The following bibliography consists of three sections: (1) anonymously peer-reviewed publications ("publications"); (2) transparently peer-reviewed and non-peer reviewed publications ("reports"); and (3) abstracts for oral presentations and poster displays.

The bibliography covers works prepared by Northeast Fisheries Science Center (NEFSC) employees which have a 2012 publication or presentation date.

Publications appearing “online first” in 2012 but with a 2013 publication date are not included in this list.

Editorial treatment of bibliographic entries is based on the Council of Science Editors style manual, seventh edition.[1]

Availability varies for each work. Any request for a reprint or photocopy should be directed to the sole/senior NEFSC author of the work. Web links to online publications and email links for NEFSC authors are provided when possible.

Bibliographies of publications, reports, and abstracts for earlier years are available online at: http://nefsc.noaa.gov/publications/lists/.

Primary Publications

Able KW, Wuenschel M, Grothues TM, Vasslides JM, Rowe P. 2012. Do surf zones in New Jersey provide "nursery" habitat for southern fishes? Environ Biol Fishes. 96:661-675. http://dx.doi.org/10.1007/s10641-012-0056-8

Andris M, Arias MC, Barthel BL, Bluhm BH, Bried J, Canal D, Chen XM, Cheng P, Chiappero MB, Coelho MM, Collins AB, Dash M, Davis MC, Duarte M, Dubois M-P, Françoso E, Galmes MA, Gopal K, Jarne P, Kalbe M, Karczmarski L, Kim H, Martella MB, McBride RS, Negri V, Negro J, Newell AD, Piedade AF, Puchulutegui C, Raggi L, Samonte IE, Sarasola JH, See DR, Seyoum S, Silva MC, Solaro C, Olley KA, Tringali MD, Vasemägi A, Xu LS, Zanón-Martínez JI. 2012. Permanent genetic resources added to molecular ecology resources database 1 February 2012 - 31 March 2012. Mol Ecol Resour. 12:779-781. http://dx.doi.org/10.1111/j.1755-0998.2012.03155.x

Appeltans W, Ahyong ST, Anderson G, Angel MV, Artois T, Bailly N, Bamber R, Barber A, Bartsch I, Berta A,Blazewicz-Paszkowycz M, Bock P, Boxshall G, Boyko CB, Nunes Brandao S, Bray RA, Bruce NL, Cairns SD, Chan T-Y, Cheng L, Collins AG, Cribb T, Curini-Galletti M, Dahdouh-Guebas F, Davie PJF, Dawson MN, De Clerck O, Decock W, De Grave S, de Voogd NJ, Domning DP, Emig CC, Erseus C, Eschmeyer W, Fauchald K, Fautin DG, Feist SW, Fransen CHJM, Furuya H, Garcia-Alvarez O, Gerken S, Gibson D, Gittenberger A, Gofas S, Gomez-Daglio L, Gordon DP, Guiry MD, Hernandez F, Hoeksema BW, Hopcroft RR, Jaume D, Kirk P, Koedam N, Koenemann S, Kolb JB, Kristensen RM, Kroh A, Lambert G, Lazarus DB, Lemaitre R, Longshaw M, Lowry J, Macpherson E, Madin LP, Mah C, Mapstone G, McLaughlin PA, Mees J, Meland K, Messing CG, Mills CE, Molodtsova TN, Mooi R, Neuhaus B, Ng PKL, Nielsen C, Norenburg J, Opresko DM, Osawa M, Paulay G, Perrin W, Pilger JF, Poore GCB, Pugh P, Read GB, Reimer JD, Rius M, Rocha RM, Saiz-Salinas JI, Scarabino V, Schierwater B, Schmidt-Rhaesa A, Schnabel KE, Schotte M, Schuchert P, Schwabe E, Segers H, Self-Sullivan C, Shenkar N, Siegel V, Sterrer W, Stohr S, Swalla B, Tasker ML, Thuesen EV, Timm T, Todaro MA, Turon X, Tyler S, Uetz P, van der Land J, Vanhoorne B, van Ofwegen LP, van Soest RWM, Vanaverbeke J, Walker-Smith G, Walter TC, Warren A, Williams GC, Wilson SP, Costello MJ. 2012. The magnitude of global marine species diversity. Current Biol. 22:2189-2202. http://dx.doi.org/10.1016/j.cub.2012.09.036

Bergstad OA, Menezes G, Hoines A, Gordon J, Galbraith J. 2012. Patterns of distribution of deepwater demersal fishes of the North Atlantic mid-ocean ridge, continental slopes, islands and seamounts. Deep-Sea Res I. 61:74-83. http://dx.doi.org/10.1016/j.dsr.2011.12.002

Best BD, Halpin PN, Read AJ, Fujioka E, Good CP, LaBrecque EA, Schick RS, Roberts JJ, Hazen LJ, Qian SS, Palka DL, Garrison LP, McLellan WA. 2012. Online cetacean habitat modeling system for the US east coast and Gulf of Mexico. Endang Species Res. 18:1-15. http://dx.doi.org/10.3354/esr00430

Brown CL, Vera Cruz EM, Bolivar RB, Borski RJ. 2012. Production, growth, and Insulin-Like Growth Factor-1 (IGF-I) gene expression as an instantaneous growth indicator in Nile Tilapia Oreochromis niloticus (L.). In: Marco S, Liu Z, eds. Functional Genomics in Aquaculture. Ames (IA): Wiley-Blackwell Inc; p 79-90.

Bundy A, Bohaboy EC, Hjermann DO, Mueter FJ, Fu C, Link JS. 2012. Common patterns, common drivers: comparative analysis of aggregate surplus production across ecosystems. Mar Ecol Prog Ser. 459:203-218. http://dx.doi.org/10.3354/meps09787

Caldarone EM, MacLean SA, Sharack B. 2012. Evaluation of bioelectrical impedance analysis and Fulton’s condition factor as nonlethal techniques for estimating short-term responses in postsmolt Atlantic salmon (Salmo salar) to food availability. Fish Bull. 110: 257-270. http://fishbull.noaa.gov/1102/caldarone.pdf

Chen L, Meseck SL, Roy SJ, Grieb T, Baginska B. 2012. Modeling fate, transport, and biological uptake of selenium in north San Francisco Bay. Estuar Coast. 35(6):1551-1570. http://dx.doi.org/10.1007/s12237-012-9530-y

Cholewiak DM, Sousa-Lima RS, Cerchio S. 2012. Humpback whale song hierarchical structure: Historical context and discussion of current classification issues. Mar Mamm Sci. http://dx.doi.org/10.1111/mms.12005

Churnside J, Jech M, Tenningen E, editors. 2012. Fishery applications of optical technologies. ICES Coop Res Rep. 312; 91 p.

Chute AS, Wainright SC, Hart DR. 2012. Timing of shell ring formation and patterns of shell growth in the sea scallop Placopecten magellanicus based on stable oxygen isotopes. J Shellfish Res. 31(3):649-662. http://dx.doi.org/10.2983/035.031.0308

Colburn LL, Clay PM. 2012. The role of oral histories in the conduct of fisheries social impact assessment in the northeastern U.S. J Ecol Anthro. 15:74-80.

Colburn LL, Jepson M. 2012. Social indicators of gentrification pressure in fishing communities: a context for social impact assessment. Coast Manage. 40(3):289-300. http://dx.doi.org/10.1080/08920753.2012.677635

Cortes E, Brooks EN, Gedamke T. 2012. Population dynamics, demography, and stock assessment. In: Carrier JC, Musick JA, Heithaus MR, eds. Biology of Sharks and Their Relatives, Second Edition. Boca Raton (FL): CRC Press; p 453-486. http://dx.doi.org/10.1201/b11867-19

Croxton AN, Wikfors GH, Shulterbrandt-Gragg RD. 2012. Immunomodulation in eastern oysters, Crassostrea virginica, exposed to a PAH-contaminated, microphytobenthic diatom. Aquat Toxicol. 118-119:27-36. http://dx.doi.org/10.1016/j.aquatox.2012.02.023

Deroba JJ, Bence JR. 2012. Evaluating harvest control rules for lake whitefish in the Great Lakes: accounting for variable life-history traits. Fish Res. 121-122:88-103. http://dx.doi.org/10.1016/j.fishres.2012.01.015

Dixon H, Power M, Dempson JB, Sheehan TF, Chaput G. 2012. Characterizing the trophic position and shift in Atlantic salmon (Salmo salar) from freshwater to marine life-cycle phases using stable isotopes. ICES J Mar Sci. 69 (9): 1646-1655. http://dx.doi.org/10.1093/icesjms/fss122

Duffy WJ, McBride RS, Hendricks ML, Oliveria K. 2012. Otolith age validation and growth estimation from oxytetracycline-marked and recaptured American shad. Trans Am Fish Soc. 141(6):1664-1671. http://dx.doi.org/10.1080/00028487.2012.720631

Duplain RR, Chapleau F, Munroe TA. 2012. A new species of Trinectes (Pleuronectiformes: Achiridae) from the Upper Río San Juan and Río Condoto, Colombia. Copeia. 2012(3):541-546. http://dx.doi.org/10.1643/CI-11-155

Essington TE, Melnychuk MC, Branch TA, Heppel S, Jensen OP, Link JS, Martell SJD, Parma AM, Pope JG, Smith ADM. 2012. Catch shares, fisheries, and ecological stewardship: a comparative analysis of resource responses to a rights-based policy instrument. Conserv Lett. 5:186-195. http://dx.doi.org/10.1111/j.1755-263X.2012.00226.x

Fey DP, Hare JA. 2012. Temperature and somatic growth effects on otolith growth of larval Atlantic menhaden, Brevoortia tyrannus (Actinopterygii: Clupeiformes: Clupeidae). Acta Ichthyol Pisca. 42(3):215-222. http://dx.doi.org/10.3750/AIP2011.42.3.05

Flores HS, Wikfors GH, Dam HG. 2012. Reactive oxygen species are linked to the toxicity of the dinoflagellate Alexandrium spp. to protists. Aquat Microb Biol. 66:199-209. http://dx.doi.org/10.3354/ame01570

Fogarty MJ, Friedland K, Col L, Gamble R, Hare J, Hyde K, Link J, Lucey S, Liu H, Nye J, Overholtz W, Richardson D, Rountree B,Taylor M. 2012. Assessment of the Northeast U.S. Continental Shelf Large Marine Ecosystem: an indicator-based approach. In: Stephenson R, Annala J, Runge J, Hall-Arber M, eds. Advancing an Ecosystem Approach in the Gulf of Maine. American Fisheries Society Symposium 79; pnk.

Fogarty MJ, Overholtz WJ, Link JS. 2012. Aggregate surplus production models for demersal fishery resources of the Gulf of Maine. Mar Ecol Prog Ser. 459:247-258. http://dx.doi.org/10.3354/meps09789

Friedland KD, Manning JP, Link JS. 2012. Thermal phenological factors affecting the survival of Atlantic salmon, Salmo salar, in the Gulf of Maine. In: Stephenson RL, Annala JH, Runge JA, Hall-Arber M, eds. Advancing an ecosystem approach in the Gulf of Maine. Bethesda (MD): American Fisheries Society, Symposium 79:393-407.

Friedland KD, Manning JP, Link JS, Gilbert JR, Gilbert AT, O’Connell AF Jr. 2012. Variation in wind and piscivorous predator fields affecting the survival of Atlantic salmon, Salmo salar L., in the Gulf of Maine. Fish Manage Ecol. 19:22-35. http://dx.doi.org/10.1111/j.1365-2400.2011.00814.x

Friedland KD, Stock C, Drinkwater KF, Link JS, Leaf R, Shank B, Rose J, Pilskaln CH, Fogarty MJ. 2012. Pathways between primary production and fisheries yields of large marine ecosystems. PLoS ONE. 7(1): e28945. http://dx.doi.org/10.1371/journal.pone.0028945

Friedland KD, Todd CD. 2012. Changes in northwest Atlantic arctic and subarctic conditions and the growth response of Atlantic salmon. Polar Biol. 35:593-609. http://dx.doi.org/10.1007/s00300-011-1105-z

Fu C, Gaichas S, Link JS, Bundy A, Boldt J, Cook AM, Gamble R, Utne KR, Liu H, Friedland KD. 2012. Relative importance of fisheries, trophodynamic and environmental drivers in a series of marine ecosystems. Mar Ecol Prog Ser. 459:169-184. http://dx.doi.org/10.3354/meps09805

Gaichas SK, Bundy A, Miller TJ, Moksness E, Stergiou KI. 2012. Introduction: What drives marine fisheries production? Mar Ecol Prog Ser. 459:159-163. http://dx.doi.org/10.3354/meps09841

Gaichas SK, Gamble R, Fogarty M, Benoit H, Essington T, Fu C, Koen-Alonso M, Link JS. 2012. Assembly rules for aggregate-species production models: simulations in support of management strategy evaluation. Mar Ecol Prog Ser. 459:275-292. http://dx.doi.org/10.3354/meps09650

Galimany E, Alix JH, Dixon MS, Wikfors GH. 2012. Short communication: Adaptability of the feeding behavior of intertidal ribbed mussels (Geukensia demissa) to constant submersion. Aquacult Internat. 10.1007/s10499-012-9608-3. http://dx.doi.org/10.1007/s10499-012-9608-3

Gamble RJ, Link JS. 2012. Using an aggregate production simulation model with ecological interactions to explore effects of fishing and climate on a fish community. Mar Ecol Prog Ser. 459:259-274. http://dx.doi.org/10.3354/meps09745

Gawarkiewicz GG, Todd RE, Plueddemann AJ, Andres M, Manning JP. 2012. Direct interaction between the Gulf Stream and the shelfbreak south of New England. Sci Rep. 2:553. http://dx.doi.org/10.1038/srep00553

Goldberg R, Mercaldo-Allen R, Rose JM, Clark P, Kuropat C, Meseck C, Pereira J. 2012. Effects of hydraulic shellfish dredging on the ecology of a cultivated clam bed. Aquat Environ Interact.3:11-21. http://dx.doi.org/10.3354/aei00045

Guerra A, Portela JM, Roura Á, Vecchione M. 2012. Morphological variability of the rare brush-club squid Batoteuthis (Cephalopoda, Batoteuthidae). N Jb Geol Palaont Abh. 266(1):77-83. http://dx.doi.org/10.1127/0077-7749/2012/0267

Halpern BS, Longo C, Hardy D, McLeod KL, Samhouri JF, Katona SK, Kleisner K, Lester SE, O’Leary J, Ranelletti M, Rosenberg AA, Scarborough C, Selig ER, Best BD, Brumbaugh DR, Chapin FS, Crowder LB, Daly KL, Doney SC, Elfes C, Fogarty MJ, Gaines SD, Jacobsen KI, Karrer LB, Leslie HM, Neeley E, Pauly D, Polasky S, Ris B, St. Martin K, Stone GS, Sumaila UR, Zeller D. 2012. An index to assess the health and benefits of the global ocean. Nature. 488:615-620. http://dx.doi.org/10.1038/nature11397

Hare JA, Kane J. 2012. Zooplankton of the Gulf of Maine -- a changing perspective. In: Stephenson R, Annala J, Runge J, Hall-Arber M, editors. Advancing an Ecosystem Approach in the Gulf of Maine. American Fisheries Society Symposium; 415 p.

Hare JA, Manderson JP, Nye JA, Alexander MA, Auster PJ, Borggarad DL, Capotondi AM, Damon-Randall KB, Heupel E, Mateo I, O'Brien L, Richardson DE, Stock CA, Biegel ST. 2012. Cusk (Brosme brosme) and climate change: assessing the threat to a candidate marine fish species under the US Endangered Species Act. ICES J Mar Sci. 69(10): 1753-1768. http://dx.doi.org/10.1093/icesjms/fss160

Hare JA, Wuenschel MJ, Kimball ME. 2012. Projecting range limits with coupled thermal tolerance - climate change models: an example based on gray snapper (Lutjanus griseus) along the U.S. east coast. PLoS ONE. 7(12): e52294. http://dx.doi.org/10.1371/journal.pone.0052294

Hatch LT, Clark CS, Van Parijs SM, Frankel AS, Ponirakis DW. 2012. Quantifying loss of acoustic communication space for right whales in and around a U.S. national marine sanctuary. Conserv Biol. 26(6):983-994. http://dx.doi.org/10.1111/j.1523-1739.2012.01908.x

Hawn DR, Collette BB. 2012. What are the maximum size and live body coloration of opah (Teleostei: Lampridae: Lampris species)? Ichthyol Res. 59:272–275. http://dx.doi.org/10.1007/s10228-012-0277-z

Hennen DR, Hart DR. 2012. Shell height-to-weight relationships for Atlantic sea scallops (Placopecten magellanicus) in offshore U.S. waters. J Shellfish Res. 31(4):1133-1144. http://dx.doi.org/10.2983/035.031.0424

Hennen DR, Jacobson L, Tang J. 2012. Accuracy of the Patch model used to estimate density and capture efficiency in depletion experiments for sessile invertebrates and fish. ICES J Mar Sci. 69:240-249. http://dx.doi.org/10.1093/icesjms/fsr212

Hoving HJT, Vecchione M. 2012. Mating behavior of a deep-sea squid revealed by in-situ videography and the study of archived specimens. Biol Bull (Woods Hole). 223:263-267.

Jech JM, Stroman F. 2012. Aggregative patterns of pre-spawning Atlantic herring on Georges Bank from 1999-2010. Aquat Living Resour. 25:1-14. http://dx.doi.org/10.1051/alr/2012003

Jensen AJ, Ó Maoiléidigh N, Thomas K, Einarsson SM, Haugland M, Erkinaro J, Fiske P, Friedland KD, Gudmundsdottir AK, Haantie J, Holm M, Holst J, Jacobsen JA, Jensås JG, Kuusela J, Melle W, Mork JA, Wennevik V, Østborg GM. 2012. Age and fine scale marine growth of Atlantic salmon post-smolts in the Northeast Atlantic. ICES J Mar Sci. 69(9):1668-1677. http://dx.doi.org/10.1093/icesjms/fss086

Jin D, Hoagland P, Dalton TM, Thunberg EM. 2012. Development of an integrated economic and ecological framework for ecosystem-based fisheries management in New England. Progr Oceanogr. 102:93-101. http://dx.doi.org/10.1016/j.pocean.2012.03.007

Klaer NL, Wayte SE, Fay G. 2012. An evaluation of the performance of a harvest strategy that uses an average-length-based assessment method. Fish Res. 134-136: 42-51. http://dx.doi.org/10.1016/j.fishres.2012.08.010

Lacroix GL, Knox D, Sheehan TF, Renkawitz MD, Bartron ML. 2012. Distribution of U.S. Atlantic salmon postsmolts in the Gulf of Maine. Trans Am Fish Soc. 141:934-942. http://dx.doi.org/10.1080/00028487.2012.675915

Lee M-Y. 2012. Examining bargaining power in the Northeast multispecies days-at-sea market. N Am J Fish Manage. 32(5):1017-1031. http://dx.doi.org/10.1080/02755947.2012.707633

Lewis C, Migita M, Hashimoto H, Collins AG. 2012. On the occurrence of freshwater jellyfish in Japan 1928-2008: eighty years of records of mamizu kurage (Limnomedusae, Olindiasidae). Proc Biol Soc Wash. 125:165-179. http://dx.doi.org/10.2988/11-31.1

Li Y, Meseck S, Dixon MS, Rivara K, Wikfors GH, Luther GI III. 2012. Effects of a commercial, suspended eastern oyster nursery upon nutrient and sediment chemistry in a temperate, coastal embayment. Aquat Environ Interact. 3:65-79.

Link JS, Bundy A. 2012. Ecosystem modeling in the Gulf of Maine region: Towards an ecosystem approach to fisheries. In: Stephenson R, Annala J, Runge J, Hall-Arber M, eds. Advancing an Ecosystem Approach in the Gulf of Maine. American Fisheries Society Symposium 79; p 281-310.

Link JS, Gaichas S, Miller TJ, Essington T, Bundy A, Boldt J, Drinkwater KF, Moksness E. 2012. Synthesizing lessons learned from comparing fisheries production in 13 northern hemisphere ecosystems: emergent fundamental features. Mar Ecol Prog Ser. 459:293-302. http://dx.doi.org/10.3354/meps09829

Link JS, Ihde TF, Harvey CJ, Gaichas SK, Field JC, Brodziak JKT, Townsend HM, Peterman RM. 2012. Dealing with uncertainty in ecosystem models: The paradox of use for living marine resource management. Prog Oceanogr. 102:102-114. http://dx.doi.org/10.1016/j.pocean.2012.03.008

Link JS, Lucey SM, Melgey JH. 2012. Examining cannibalism in relation to recruitment of silver hake Merluccius bilinearis in the U.S. northwest Atlantic. Fish Res. 114:31-41. http://dx.doi.org/10.1016/j.fishres.2011.04.022

Lipsky C, Hastings E, Brown R, Dill R. 2012. Correcting visual implant elastomer tag identification to better evaluate adult Atlantic salmon returns from multiple stocking sites in the Penobscot River, Maine, USA. In: McKenzie J, Parsons B, Seitz A, Kopf RK, Mesa M, Phelps Q, editors. Advances in Fish Tagging and Marking Technology. Am Fish Soc Symp. 76:63-75.

Liu H, Fogarty MJ, Glaser SM, Altman I, Rosenberg AA, Sugihara G. 2012. Nonlinear dynamics and co-predictability in the Georges Bank fish community. Mar Ecol Prog Ser. 464:195-207. http://dx.doi.org/10.3354/meps09868

Lough RG, O'Brien L. 2012. Life-stage recruitment models for Atlantic cod (Gadus morhua) and haddock (Melanogrammus aeglefinus) on Georges Bank. Fish Bull. 110:123-140. http://fishbull.noaa.gov/1101/lough.pdf

Lucey SM, Cook AM, Boldt J, Link JS, Essington T, Miller TJ. 2012. Comparative analyses of surplus production dynamics of functional feeding groups across 12 northern hemisphere marine ecosystems. Mar Ecol Prog Ser. 459:219-229. http://dx.doi.org/10.3354/meps09825

Marancik KE, Richardson DE, Lyczkowski-Shultz J, Cowen R, Konieczna M. 2012. Spatial and temporal distribution of grouper larvae (Serranidae: Epinephelinae: Epinephelini) in the Gulf of Mexico and Straits of Florida. Fish Bull. 110:1-20. http://fishbull.noaa.gov/1101/marancik.pdf

Marine Ecosystem Responses to Climate In the North Atlantic (MERCINA) Working Group: Greene CH, Monger BC, McGarry LP, Connelly MD, Schnepf NR, Pershing AJ, Belkin IM, Fratantoni PS, Mountain DG, Pickart RS, Ji R, Bisagni JJ, Chen C, Hakkinen SMA, Haidvogel DB, Wang J, Head E, Smith P, Conversi A. 2012. Recent Arctic climate change and its remote forcing of Northwest Atlantic Shelf ecosystems. Oceanography. 25(3):208-213. http://dx.doi.org/10.5670/oceanog.2012.64

McBride RS, Snodgrass DJG, Adams DH, Rider SJ, Colvocoresses JA. 2012. An indeterminate model to estimate egg production of the highly iteroparous and fecund fish, dolphinfish (Coryphaena hippurus). Bull Mar Sci. 88(2):283-303. http://dx.doi.org/10.5343/bms.2011.1096

Meseck SL, Li Y, Dixon MS, Rivara K, Wikfors GH. 2012. Temporal variability in phytoplankton removal by a commercial, suspended eastern oyster nursery and effects upon local plankton dynamics. J Shellfish Res. 31(4):1077-1089.

Methratta ET, Link JS. 2012. Feeding hotspots for four northwest Atlantic groundfish species. ICES J Mar Sci. 69:1710-1721. http://dx.doi.org/10.1093/icesjms/fss124

Meyer S, Caldarone EM, Chicharo MA, Clemmesen C, Folkvord A, Holt GJ, Hoie H, Malzahn A, Moran D, Petereit C, Stottrup JG, Peck MA. 2012. On the edge of death: Rates of decline and lower thresholds of biochemical condition in food-deprived fish larvae and juveniles. J Mar Syst. 93:11-24. http://dx.doi.org/10.1016/j.jmarsys.2011.09.010

Milke LM, Bricelj VM, Ross NW. 2012. Changes in enzymatic activity during early development of bay scallops Argopecten irradians and sea scallops Placopecten magellanicus. Aquat Biol. 2:207-216. http://dx.doi.org/10.3354/ab00398

Miller AS, Sheehan TF, Spencer RC, Renkawitz MD, Meister AL, Miller TJ. 2012. Revisiting the marine migration of US Atlantic salmon using historical Carlin tag data. ICES J Mar Sci. 69:1609-1615. http://dx.doi.org/10.1093/icesjms/fss039

Moksness E, Link JS, Drinkwater K, Gaichas S. 2012. Bernard Megrey: pioneer of Comparative Marine Ecosystem analyses. Mar Ecol Prog Ser. 459:165-167. http://dx.doi.org/10.3354/meps09582

Mulholland MR, Bernhardt PW, Blanco-Garcia JL, Mannino A, Hyde K, Mondragon E, Turk K, Moisander PH, Zehr JP. 2012. Rates of dinitrogen fixation and the abundance of diazotrophs in North American coastal waters between Cape Hatteras and Georges Bank. Limnol Oceanogr. 57(4):1067-1083. http://dx.doi.org/10.4319/lo.2012.57.4.1067

Munroe TA. 2012. The spotted flounder, Azygopus flemingi Nielsen 1961 (Pisces: Pleuronectiformes: Rhombosoleidae), from deep waters off New Zealand: a second valid species of Azygopus Norman 1926, with notes on distribution, size, maturity, and ecology. Zootaxa. 3297:1-33.

Mussoline SE, Risch D, Clark CW, Hatch L, Weinrich MT, Wiley DN, Thompson MA, Corkeron PJ, Van Parijs SM. 2012. Seasonal and diel variation in North Atlantic right whale up-calls: implications for management and conservation in the northwestern Atlantic Ocean. Endang Species Res. 17:17-26. http://dx.doi.org/10.3354/esr00411

Nutters H, Pinto da Silva P. 2012. Fishery stakeholder engagement and marine spatial planning: Lessons from the Rhode Island Ocean SAMP and the Massachusetts Ocean Management Plan. Ocean Coast Manage. 67:9-18. http://dx.doi.org/10.1016/j.ocecoaman.2012.05.020

Palamara L, Manderson J, Kohut J, Oliver MJ, Gray S, Goff J. 2012. Improving habitat models by incorporating pelagic measurements from coastal ocean observatories. Mar Ecol Prog Ser. 447:15-30. http://dx.doi.org/10.3354/meps09496

Pendleton DE, Sullivan PJ, Brown MW, Cole TVN, Good CP, Mayo CA, Monger BC, Phillips S, Record NR, Pershing AJ. 2012. Weekly predictions of North Atlantic right whale Eubalaena glacialis habitat reveal influence of prey abundance and seasonality of habitat preferences. Endang Species Res. 18:147-161. http://dx.doi.org/10.3354/esr00433

Pereira JJ, Schultz ET, Auster PJ. 2012. Geospatial analysis of habitat use in yellowtail flounder Limanda ferruginea on Georges Bank. Mar Ecol Prog Ser. 468:279-290. http://dx.doi.org/10.3354/meps10035

Persson A, Smith BC, Alix JH, Senft C, Wikfors GH. 2012. Toxin content differs between life stages of Alexandrium fundyense (Dinophyceae). Harmful Algae. 19:101-107. http://dx.doi.org/10.1016/j.hal.2012.06.006

Pinsky ML, Fogarty M. 2012. Lagged social-ecological responses to climate and range shifts in fisheries. Climatic Change. 115(3-4):883-891. http://dx.doi.org/10.1007/s10584-012-0599-x

Pranovi F, Link JS, Fu C, Cook AM, Liu H, Gaichas S, Friedland KD, Utne KR, Benoit HP. 2012. Trophic-level determinants of biomass accumulation in marine ecosystems. Mar Ecol Prog Ser. 459:185-201. http://dx.doi.org/10.3354/meps09738

Quattrini AM, Ross SW, Carlson MCT, Nizinski MS. 2012. Megafaunal-habitat associations at a deep-sea coral mound off North Carolina, USA. Mar Biol (Berl). 159(5):1079-1094. http://dx.doi.org/10.1007/s00227-012-1888-7

Reddin DG, Hansen LP, Bakkestuen V, Russell I, White J, Potter ECE, Sheehan TF, Ó Maoiléidigh N, Dempson JB, Smith GW, Isaksson A, Fowler M, Jacobsen JA, Mork KA, Amiro P. 2012. Distribution and biological characteristics of Atlantic salmon (Salmo salar) at Greenland based on the analysis of historical tag recoveries. ICES J Mar Sci. 69(9):1589-1597. http://dx.doi.org/10.1093/icesjms/fss087

Renkawitz MD, Sheehan TF, Goulette GS. 2012. Swimming depth, behavior, and survival of Atlantic salmon postsmolts in Penobscot Bay, Maine. Trans Am Fish Soc. 141(5):1219-1229. http://dx.doi.org/10.1080/00028487.2012.688916

Richards RA. 2012. Phenological shifts in hatch timing of northern shrimp Pandalus borealis. Mar Ecol Prog Ser. 456:149-158. http://dx.doi.org/10.3354/meps09717

Richards RA, Fogarty MJ, Mountain DG, Taylor MH. 2012. Climate change and northern shrimp recruitment variability in the Gulf of Maine. Mar Ecol Prog Ser. 464:167-178. http://dx.doi.org/10.3354/meps09869

Risch D, Corkeron P, Ellison W, Van Parijs S. 2012. Changes in humpback whale song occurrence in response to an acoustic source 200 km away. PLoS One.7(1): e29741. http://dx.doi.org/10.1371/journal.pone.0029741

Roberts S, Sunila I, Wikfors GH. 2012. Immune response and mechanical stress susceptibility in diseased oysters, Crassostrea virginica. J Comp Physiol B. 182(1):41-48. http://dx.doi.org/10.1007/s00360-011-0605-z

Rolland RM, Parks SE, Hunt KE, Castellote M, Corkeron PJ, Nowacek DP, Wasser SK, Kraus SD. 2012. Evidence that ship noise increases stress in right whales. Proc Royal Soc B. 279(1737):2363-2368. http://dx.doi.org/10.1098/rspb.2011.2429

Rone BK, Pace RM III. 2012. A simple photograph‐based approach for discriminating between free‐ranging long‐finned (Globicephala melas) and short‐finned (G. macrorhynchus) pilot whales off the east coast of the United States. Mar Mamm Sci. 28(2):254-275. http://dx.doi.org/10.1111/j.1748-7692.2011.00488.x

Rose JM, Ferreira JG, Stephenson K, Bricker SB,Tedesco M,Wikfors GH. 2012. Comment on Stadmark and Conley (2011) “Mussel farming as a nutrient reduction measure in the Baltic Sea: Consideration of nutrient biogeochemical cycles.” Mar Poll Bull. 64(2):449-451. http://dx.doi.org/10.1016/j.marpolbul.2011.11.024

Saba VS, Stock CA, Spotila JR, Paladino FP, Santidrian-Tomillo P. 2012. Projected response of an endangered marine turtle population to climate change. Nature Climate Change. 2:814-820. http://dx.doi.org/10.1038/nclimate1582

Samhouri JF, Lester SE, Selig ER, Halpern BS, Fogarty MJ, Longo C, McLeod KL. 2012. Sea sick? Setting targets to assess ocean health and ecosystem services. Ecosphere. 3:41. http://dx.doi.org/10.1890/ES11-00366.1

Saul S, Die D, Brooks E, Burns K. 2012. An individual-based model of ontogenetic migration in reef fish using a biased random walk. Trans Am Fish Soc. 141(6):1439-1452. http://dx.doi.org/10.1080/00028487.2012.697091

Shackell NL, Bundy A, Nye JA, Link JS. 2012. Common large-scale responses to climate and fishing across Northwest Atlantic ecosystems. ICES J Mar Sci. 69(2):151-162. http://dx.doi.org/10.1093/icesjms/fsr195

Shank BV, Hart DR, Friedland KD. 2012. Post-settlement predation by sea stars and crabs on the sea scallop in the Mid-Atlantic Bight. Mar Ecol Prog Ser. 468:161-177. http://dx.doi.org/10.3354/meps09974

Shaw PW, Hendrickson L, McKeown NJ, Stonier T, Naud M-J, Sauer WHH. 2012. Population structure of the squid Doryteuthis (Loligo) pealeii on the eastern coast of the USA: Reply to Gerlach et al. (2012). Mar Ecol Prog Ser. 450:285-287. http://dx.doi.org/10.3354/meps09652

Sheehan TF, Reddin DG, Chaput G, Renkawitz MD. 2012. SALSEA North America: a pelagic ecosystem survey targeting Atlantic salmon in the Northwest Atlantic. ICES J Mar Sci. 69(9):1580-1588. http://dx.doi.org/10.1093/icesjms/fss052

Smolowitz R, Milliken HO III, Weeks M. 2012. Design, evolution, and assessment of a sea turtle deflector dredge for the U.S. northwest Atlantic sea scallop fishery: Impacts on fish bycatch. N Am J Fish Manage. 32(1):65-76. http://dx.doi.org/10.1080/02755947.2012.661386

Stanton TK, Sellers CJ, Jech JM. 2012. Resonance classification of mixed assemblages of fish with swimbladders using a modified commercial broadband acoustic echosounder at 1-6 kHz. Can J Fish Aquat Sci. 69(5):854-868. http://dx.doi.org/10.1139/f2012-013

Sugihara G, May R, Ye H, Hsieh C-h, Deyle E, Fogarty M, Munch S. 2012. Detecting causality in complex ecosystems. Science. 338(6106): 496-500. http://dx.doi.org/10.1126/science.1227079

Todd CD, Friedland KD, MacLean JC, Whyte BD, Russell IC, Lonergan ME, Morrisey MB. 2012. Phenological and phenotypic changes in Atlantic salmon populations in response to a changing climate. ICES J Mar Sci. 69(9):1686-1698. http://dx.doi.org/10.1093/icesjms/fss151

Traver ML, Alade LA, Sosebee KA. 2012. Population biology of a data poor species, offshore hake (Merluccius albidus) in the northwest Atlantic, United States. Fish Res. 114:42-51. http://dx.doi.org/10.1016/j.fishres.2011.08.004

van der Hoop J, Moore M, Barco S, Cole TVN, Daoust P-Y, Henry A, McAlpine A, McLellan W, Wimmer T, Solow A. 2012. Assessment of management to mitigate anthropogenic effects on large whales. Conserv Biol. 27(1):121-133. http://dx.doi.org/10.1111/j.1523-1739.2012.01934.x

Van Opzeeland IC, Van Parijs SM, Frickenhaus S, Kreiss CM, Boebel O. 2012. Individual variation in pup vocalizations and absence of behavioral signs of maternal vocal recognition in Weddell seals (Leptonychotes weddellii). Mar Mamm Sci. 28(2):E158–E172. http://dx.doi.org/10.1111/j.1748-7692.2011.00505.x

Vu ET, Risch D, Clark CW, Gaylord S, Hatch L, Merrick R, Thompson M, Tougaard J, Wiley D, Van Parijs S. 2012. Humpback whale song occurs extensively on feeding grounds in the western North Atlantic Ocean. Aquat Biol. 14:175-183. http://dx.doi.org/10.3354/ab00390

Walden JB, Kirkley JE, Färe R, Logan P. 2012. Productivity change under an individual transferable quota management system. Am J Agric Eon. 94(4):913-928. http://dx.doi.org/10.1093/ajae/aas025

Weigt LA, Driskell A, Ormos A, Meyer C, Collins AG. 2012. Introduction to animal DNA barcoding protocols. Methods Mol Biol. 858:11-6. http://dx.doi.org/10.1007/978-1-61779-591-6_2

Wenzel FW, Suárez PL. 2012. What is known about cookiecutter shark (Isistius spp.) interactions with cetaceans in Cape Verde seas? Zoologia Caboverdiana. 3(2):57-66.

Wuenschel MJ, Able KW, Buckel JA, Morley JW, Lankford T, Branson AC, Conover DO, Drisco D, Jordaan A, Dunton K, Secor DH, Woodland RJ, Juanes F, Stormer D. 2012. Recruitment patterns and habitat use of young-of-the-year bluefish along the United States east coast: insights from coordinated coastwide sampling. Rev Fish Sci. 20(2):80-102. http://dx.doi.org/10.1080/10641262.2012.660999

Wuenschel MJ, Hare JA, Kimball ME, Able KW. 2012. Evaluating juvenile thermal tolerance as a constraint on adult range of gray snapper (Lutjanus griseus): A combined laboratory, field and modeling approach. J Exp Mar Biol Ecol. 436-437:19-27. http://dx.doi.org/10.1016/j.jembe.2012.08.012

Zecchini F, Vecchione M, Belcari P, Roper CFE. 2012. Development of the hectocotylus in Illex coindetii (Verany 1837) (Cephalopoda: Ommastrephidae). Sci Mar. 76(3):463-472. http://dx.doi.org/10.3989/scimar.03305.07D

Secondary Publications

Ball M, compiler; Buchan N, Conboy I, Gervelis B, Jackson K, Mataronas S, Sarro C, editors. 2012. Commercial fishery species guide: a photo guide to commercially encountered marine fishes of the Northwest Atlantic. NEFSC Ref Doc. 12-10; 171 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1210/

Col LA, Link JS, Cadrin SX, Palka DL. 2012. Marine mammal consumption on the Northeast US continental shelf. IWC Science Committee Doc. SC/64/EM/2; 52 p.

Ecosystem Assessment Program. 2012. Ecosystem status report for the Northeast Shelf Large Marine Ecosystem - 2011. NEFSC Ref Doc. 12-07; 32 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1207/

Ecosystems Surveys Branch. 2012. Resource survey report: Atlantic surfclam/ocean quahog 2011. Informal report; 20 p. Available online at: http://nefsc.noaa.gov/femad/ecosurvey/mainpage/rsr/clam/clam_2011/large_file.pdf

Fox DA, Armstrong JL, Brown LM, Wark K. 2012. The influence of sink gillnet profile on bycatch of Atlantic sturgeon in the mid-Atlantic monkfish fishery. NOAA NMFS Contract No. EA133F-10-SE-3358 final report; 31 p. Available online at: http://nefsc.noaa.gov/publications/reports/EA133F-10-SE-3358.pdf

Fratantoni PS, Holzwarth-Davis T, Bascunan C, Taylor MH. 2012. Description of the 2010 oceanographic conditions on the Northeast U.S. continental shelf. NEFSC Ref Doc. 12-16; 32 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1216/

Fratantoni PS, Holzwarth-Davis T, Bascunan C, Taylor MH. 2012. Description of the 2011 oceanographic conditions on the Northeast U.S. continental shelf. NEFSC Ref Doc. 12-20; 35 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1220/

Garner L. 2012. Northeast Fisheries Science Center publications, reports, and abstracts for calendar year 2011. NEFSC Ref Doc. 12-23; 21 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1223/

Hart DR, Legault CM. 2012. An alternative stratification to estimate yellowtail flounder discards  in the US scallop fishery. TRAC Ref Doc. 2012/04; 10 p.

Henry AG, Cole TVN, Garron M, Hall L, Ledwell W, Reid A. 2012. Mortality and serious injury determinations for baleen whale stocks along the Gulf of Mexico, United States east coast and Atlantic Canadian provinces, 2006-2010. NEFSC Ref Doc. 12-11; 24 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1211/

Jacobson LD, Miller TJ. 2012. Albatross-Bigelow survey data calibration for American lobsters. NEFSC Ref Doc. 12-04; 12 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1204/

Jech JM, Boswell KM, Barao T, Condiotty J, Melvin GD, Taylor JC, Wakefield WW, Weber TC. 2012. Calibration of two orthogonal dual-frequency identification sonars (DIDSONs). In: 11th European Conference on Underwater Acoustics (Proceedings). Edinburgh (Scotland): Curran Associates; Vol 34 Pt 3; p 480-487.

Khan C, Cole T, Duley P, Henry A, Gatzke J, Corkeron P. 2012. North Atlantic Right Whale Sighting Survey (NARWSS) and Right Whale Sighting Advisory System (RWSAS) 2011 results summary. NEFSC Ref Doc. 12-09; 6 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1209/

Legault CM, Alade L, Stone HH, Gross WE. 2012. Stock assessment of Georges Bank yellowtail flounder for 2012. TRAC Ref Doc. 2012/02; 133 p.

Legault CM, Emery S. 2012. Examination of yellowtail flounder ages in NEFSC scallop survey: can age-length keys be borrowed from other surveys? TRAC Ref Doc. 2012/03; 12 p.

Link JS. 2012. An overview of ecosystem models germane to whale population issues. IWC Science Committee Doc. SC/64/EM/1; 10 p.

Link JS, Bell RJ, Auster PJ, Smith BE, Overholtz WJ, Methratta ET, Pranovi F, Stockhausen WT. 2012. Food web and community dynamics of the Northeast U.S. large marine ecosystem. NEFSC Ref Doc. 12-15; 96 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1215/

MacLean SA. 2012. Programs and abstracts of the Maine Atlantic Salmon Forums. NEFSC Ref Doc. 12-12; 171 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1212/

Magnusson GM, Bisack KD, Milliken HO III. 2012. The cost-effectiveness of gear research relative to a closure: pound nets and sea turtles as an example. NEFSC Ref Doc. 12-01; 25 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1201/

Mercaldo-Allen R, Calabrese A, Danila D, Dixon M, Fairchild E, Jearld A, Munroe T, Pacileo D, Powell C, Sutherland S. 2012. 13th Flatfish Biology Conference 2012 program and abstracts, December 4-5 2012, Water’s Edge Resort and Spa, Westbrook, CT. NEFSC Ref Doc. 12-28; 71 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1228/

Miller AS, Sheehan TF, Spencer RC, Renkawitz MD, Friedland KD, Meister AL. 2012. Description of the historic US Atlantic salmon (Salmo salar L.) tagging programs and subsequent databases. NEFSC Ref Doc. 12-13; 49 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1213/

Murphy T, Kitts A, Records D, Demarest C, McPherson M, Walden J, Caless D, Bing-Sawyer E, Steinback S, Olson J. 2012. Final report on the performance of the Northeast multispecies (groundfish) fishery (May 2011-April 2012). NEFSC Ref Doc. 12-30; 111 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1230/

Murray KT. 2012. Estimating observer sea day requirements in the mid-Atlantic region to monitor loggerhead sea turtle (Caretta caretta) onteractions. NEFSC Ref Doc. 12-26; 10 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1226/

Northeast Fisheries Science Center. 2012. 53rd Northeast Regional Stock Assessment Workshop (53rd SAW) assessment summary report. NEFSC Ref Doc. 12-03; 33 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1203/

Northeast Fisheries Science Center. 2012. Northeast Regional Stock Assessment Workshop (54th SAW) assessment summary report. NEFSC Ref Doc. 12-14; 40 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1214/

Northeast Fisheries Science Center. 2012. 53rd Northeast Regional Stock Assessment Workshop (53rd SAW) assessment report. NEFSC Ref Doc. 12-05; 559 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1205/

Northeast Fisheries Science Center. 2012. 54th Northeast Regional Stock Assessment Workshop (54th SAW) assessment report. NEFSC Ref Doc. 12-18; 600 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1218/

Northeast Fisheries Science Center. 2012. Assessment or data updates of 13 Northeast groundfish stocks through 2010. NEFSC Ref Doc. 12-06; 789 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1206/

O'Brien A, Garner L. 2012. Northeast Fisheries Science Center publications, reports and abstracts for calendar year 2010. NEFSC Ref Doc. 12-02; 28 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1202/

Orphanides CD. 2012. Update on harbor porpoise take reduction plan monitoring initiatives: compliance and consequential bycatch rates from June 2009 through May 2010. NEFSC Ref Doc. 12-22; 21 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1222/

Orphanides CD. 2012. New England harbor porpoise bycatch rates during 2010-2012 associated with consequence closure areas. NEFSC Ref Doc. 12-19; 15 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1219/

Orphanides CD, Palka D. 2012. 2010-2011 HPTRP consequential bycatch and compliance rates. NEFSC Ref Doc. 12-08; 25 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1208/

Packer DB, Dorfmann DS. 2012. Chapter 5: Deep sea corals. In: Menza C, Kinlan BP, Dorfman DS, Poti M, Caldow C, editors. A biogeographic assessment of seabirds, deep sea corals and ocean habitats of the New York Bight: Science to support offshore spatial planning. NOAA Tech Memo NOS NCCOS. 141; p. 69-86.

Palka DL. 2012. Cetacean abundance estimates in US Northwestern Atlantic Ocean waters from summer 2011 line transect survey. NEFSC Ref Doc. 12-29; 37 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1229/

Sheehan TF, Assunção MGL, Chisholm N, Deschamps D, Dixon H, Renkawitz M, Rogan G, Nygaard R, King TL, Robertson MJ, O' Maoiléidigh N. 2012. The International Sampling Program, continent of origin and biological characteristics of Atlantic salmon (Salmo salar) collected at West Greenland in 2011. NEFSC Ref Doc. 12-24; 27 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1224/

Sosebee KA. 2012. United States Research Report for 2011. NAFO Sci Counc Res Doc. 12/07; 32 p.

Stevens JR, O’Malley MB, Saunders RC, Lipsky CA, Kocik JF, Shaw LR. 2012. The Penobscot Estuarine Fish Community Survey: An overview with rainbow smelt (Osmerus mordax) monitoring components. In: Fourth North American Workshop on Rainbow Smelt: Extended Abstract Proceedings. Massachusetts Division of Marine Fisheries Technical Report TR-51; p 69-73.

Terceiro M. 2012. Stock assessment of scup (Stenotomus chrysops) for 2012. NEFSC Ref Doc. 12-25; 104 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1225/

Terceiro M. 2012. Stock assessment of summer flounder for 2012. NEFSC Ref Doc. 12-21; 148 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1221/

Van Eeckhaute L, Brooks EN, Hansen SC. 2012. Assessment of Eastern Georges Bank haddock for 2012. TRAC Status Rep. 2012/03; 6 p.

Van Patten M, Li Y, Wikfors GH. 2012. A student's guide to the common phytoplankton of Long Island Sound. CT Sea Grant.12-03; 59 p.

Waring GT, Josephson E, Maze-Foley K, Rosel P, editors. 2012. U.S. Atlantic and Gulf of Mexico marine mammal stock assessments -- 2011. NOAA Tech Memo NMFS NE. 221; 319 p. Available online at: http://nefsc.noaa.gov/publications/tm/tm221/

Wigley SE, Blaylock J, Rago PJ, Murray KT, Nies TA, Seagraves RJ, Potts D, Drew K. 2012. Standardized Bycatch Reporting Methodology 3-year Review Report 2011 - Part 2. NEFSC Ref Doc. 12-27; 226 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1227/

Wigley SE, Blaylock J, Rago PJ, Shield G. 2012. 2012 discard estimation, precision, and sample size analyses for 14 federally managed species groups in the Northeast region. NEFSC Ref Doc. 12-17; 146 p. Available online at: http://nefsc.noaa.gov/publications/crd/crd1217/

Abstracts

Amarante M, Stiles S, Choromanski J, Jeffress D. 2012. Survival of bay scallops (Argopecten irradians) after mantle tissue sampling for DNA analysis [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):207.

Brulle F, Sunila I, Wikfors GH. 2012. "Clinton line" oysters have an overall low and narrow range of expression of stress-and-immunity related genes compared to "EGP line" oysters [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):208.

Caron DA, Fitzpatrick E, Rose JM, Gast RJ. 2012. Low temperature constrains growth rate but not growth efficiency or instantaneous grazing rate of Antarctic microzooplankton [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 64.

Chambers RC, Habeck EA, Candelmo AC, Poach ME, Wieczorek D, Phelan BA, Caldarone EM, Cooper KR. 2012. The effects of ocean acidification on the early life-stages of commercially important flatfish of the Northeast USA [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 38.

Chambers RC, Habeck EA, Davis DD. 2012. Inter-female differences in offspring quality in summer flounder, Paralichthys dentatus [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 26.

Choromanski J, Stiles S, Jeffress D. 2012. Comparison of genetic lines of bay scallops for survival and growth in field trials [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):212.

Choromanski J, Stiles S, Jeffress D, Ladeau H, Schreiner W. 2012. Evaluation of bay scallops from genetic lines of two geographic populations for growth and survival in the Niantic River, Connecticut [abstract]. Presented at: Joint meeting of  Milford Aquaculture Seminar (MAS), Northeast Aquaculture Conference and Exposition (NACE) and International Conference on Shellfish Restoration (ICSR); Mystic CT; 12-15 Dec 2012; np.

Col LA, Gamble R, Gaichas S, Link J. 2012. Trade-offs between commercial fishing fleets, marine mammals and finfish biomass [abstract]. Presented at: ICES Annual Science Conference; 17-21 Sep 2012; Bergen, Norway; np.

Col LA, Gamble R, Link J, Palka D, Cadrin S. 2012. Indirect effects of commercial fishing on marine mammal and prey populations in Northeast US waters [abstract]. Presented at: 2nd ICES/PICES Conference for Early Career Scientists; Majorca Island, Spain; 24-27 Apr 2012; np.

Col LA, Link JS, Cadrin SX, Palka DL. 2012. Marine mammal consumption on the Northeast US continental shelf [abstract]. Presented at: International Whaling Commission Annual Meeting; Panama City, Panama; 2-6 Jul 2012; np.

Colburn LL, Jepson M, Pollnac RB. 2012. Geographic dimensions of measuring fishing community vulnerability and resilience in the United States [abstract]. Presented at: Society for Applied Anthropology 72nd Annual Meeting; Baltimore MD; 27-31 Mar 2012; p 88.

Croxton AN, Wikfors GH. 2012. Intracellular pH recovery rates in bivalve hemocytes following exposure to acidic environmental conditions [abstract]. Presented at: American Geophysical Union Fall Meeting; San Francisco CA; 3-7 Dec 2012; np

Demko A, Milke L. 2012. Effect of diet on digestive enzymes in larval eastern oysters, crassostrea virginica [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):213.

Demko A, Milke L. 2012. Impact of diet on digestive enzyme activity in larval Eastern oysters, Crassostrea virginica [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; 24-29 Mar 2012; Seattle WA. J Shellfish Res. 31(1):275.

Deroba JJ, Schueller AM. 2012. An evaluation of natural mortality assumptions in stock assessments [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Fay G, Large SI, Link JS, Gamble RJ. 2012. Indicator-based control rules for ecosystem-based fisheries management: evaluating practical approaches for synthesizing the effects of fishing and the environment [abstract]. Presented at: ICES Annual Science Conference; Bergren, Norway; 17-21 Sep 2012; np.

Fay G, Large SI, Link JS, Gamble RJ. 2012. Management strategy evaluation of ecological indicators for ecosystem-based fisheries management. [abstract]. Presented at: 2nd ICES/PICES Conference for Early Career Scientists; Majorca Island, Spain; 24-27 Apr 2012; np.

Fay G, Large SI, Link JS, Gamble RJ. 2012. Management strategy evaluation of ecological indicators for ecosystem-based fisheries management [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 38.

Fay G, Link JS, Gamble RJ, Large SI. 2012. Testing thresholds in ecological indicators as tools for ecosystem-based fisheries management using multispecies production models [abstract]. Presented at: 2012 Winter Meeting of the Southern New England Chapter of the American Fisheries Society; Narragansett RI; 26 Jan 2012; np.

Fay G, Little LR, Tuck GN, Haddon M, Klaer NL. 2012. Maintaining risk equivalency among fishery harvest control rules: testing methods for precautionary fisheries management in Southeast Australia [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 26.

Gaichas SK, Fogarty MJ, Col L, Fay G, Gamble R, Large SI, Link JS, Lucey S, Miller TJ. 2012. Developing a multispecies model for ecosystem based management on the Northeast U.S. continental shelf [abstract]. Presented at: 97th Annual Meeting of the Ecological Society of America; Portland OR; 5-10 Aug 2012; np.

Gaichas SK, Link JS, Miller TJ, Essington T, Bundy A, Boldt J. Drinkwater KF, Moksness E. 2012. What drives marine fisheries production? Emergent features from comparisons across 13 northern hemisphere ecosystems [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 20.

Galimany E, Dixon MS, Belfodil D, Wikfors GH. 2012. Quantifying the feeding behavior of ribbed mussels in Long Island Sound for potential nutrient bioextraction use [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):287.

Galimany E, Dixon MS, Rose JM, Wikfors GH. 2012. Filter-feeding field studies of ribbed mussels in Long Island Sound for bioextraction purposes [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):214.

Gamble RJ, Link JS. 2012. Examining trophodynamic, climate, and exploitation effects with a multispecies production model [abstract]. Presented at: AFS Southern New England Chapter Meeting; Narragansett RI; 26 Jan 2012; np.

Gamble RJ, Link JS, Buchheister A, Martinez CM, Collie JS, Frisk MG, Miller TJ, Townsend HM, LaTour R. 2012. Multivariate analysis of features and patterns across estuarine, coastal, and oceanic ecosystems in the northeast US [abstract]. Presented at: ICES Annual Science Conference; Bergren, Norway; 17-21 Sep 2012; np.

Gamble RJ, Link JS, Collie J, Miller T, Townsend H, LaTour R, Martinez CM, Buchheister A. 2012. Features and patterns within and across northeast US estuarine, coastal, and oceanic ecosystems: an empirical analysis [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Gamble RJ, Link JS, Gaichas S, Bundy A, Fu C, Koen-Alonso M, Lucey S, Boldt J, Bohaboy E. 2012. Commonalities and differences in fisheries production between northern hemisphere oceanic ecosystems [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Goldberg R, Mercaldo-Allen R, Clark P, Kuropat C, Rose J. 2012. Ecology of clam beds with different hydraulic dredging histories [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):290.

Goldberg R, Mercaldo-Allen R, Clark P, Kuropat C, Rose J. 2012. Ecology of clam beds with different hydraulic dredging histories [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):217.

Goulette GS, Hawkes JP. 2012. Altering vertical placement of hydroacoustic receivers for improved efficiencies [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. p 47

Goulette GS, Hawkes JP, O’Malley MB, Kocik JF, Music PM Stevens JR, Lipsky CA. 2012.    Predation and prey buffer potential for Atlantic salmon smolts emigrating the Penobscot Estuary, Maine [abstract]. Presented at: 38th Annual Meeting of the Atlantic International Chapter of the American Fisheries Society,  Averill VT; 23-25 Sep 2012; np.

Goulette GS, Hawkes JP, O’Malley MB, Music PM, Stevens JR, Stich DS, Lipsky CA. 2012. Estuarine community and emigration ecology of Atlantic salmon in the Penobscot Estuary, Maine [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society, Minneapolis-St. Paul MN; 19-23 Aug 2012; np.

Grassmann M, Natanson LJ, Slager C, Herbert K. 2012. Observations of growth and demography in captive-born Pacific angel sharks (Squatina californica) at Aquarium of the Bay [abstract]. Presented at: American Elasmobranch Society Meeting; Vancouver BC; 8-14 Aug 2012; p 265.

Hamady LL, Natanson LJ, Skomal GB, Thorrold SR. 2012. Testing white shark, basking shark, and dusky shark age estimation techniques using bomb radiocarbon validation [abstract]. Presented at: American Elasmobranch Society Meeting; Vancouver BC; 8-14 Aug 2012; p 284.

Hanif A, Mensinger M, McIntosh D, Estrella B, Goldberg R, Schott E. 2012. Assembling a program to monitor the prevalence of pathogens of the blue crab (Callinectes sapidus) in the northern limit of its range [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res 31(1):293.

Hare JA, Brown R, Fratantoni P. 2012. Coordinated fisheries and ecosystem observations in the Northwest Atlantic Ocean [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 17.

Hawkes JP, Sheehan T, Music P, Stich D, Atkinson E. 2012. Assessing estuarine and coastal migration performance of Age-1 hatchery reared Atlantic salmon smolts from the Dennys River, Maine (USA) [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 184.

Hawkes JP, Zydlewski G, Zydlewski J, Goulette G, Kocik J. 2012. Telemetry: An established monitoring tool for assessing pre-dam removal conditions for diadromous fishes of the Penobscot River [abstract]. Presented at:  2012 Maine Water Conference; Augusta ME; 14 Mar 2012; np.

Hennen DR, Jacobson L, Tang J. 2012. Testing the accuracy of the Patch model used to estimate density and capture efficiency in depletion experiments for sessile invertebrates and fish [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):296.

Hyde KJW, Fogarty MJ, Melrose DC, Hare JA. 2012. Analyzing satellite derived phytoplankton functional group estimates for use in fishery production models [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 209.

Hyde KJW, Pan X, Mannino A, Mulholland M, Fogarty M, Melrose C, Hare J. 2012. Satellite derived phytoplankton functional group estimates in the northeast us continental shelf large marine ecosystem [abstract]. Presented at: ICES Annual Science Conference; Bergren, Norway; 17-21 Sep 2012; np.

Jepson M, Colburn LL. 2012. Application of social indicators to fishing communities of the southeastern and northeastern United States [abstract]. Presented at: Society for Applied Anthropology 72nd Annual Meeting; Baltimore MD; 27-31 Mar 2012; p 115.

Kapareiko D, Alix JH, Jeffress D, Wikfors GH. 2012. Are probiotic bacteria species specific? In vitro effects of two probiotic candidates upon oyster (Crassostrea virginica) and bay scallop (Argopecten irradians irradians) hemocytes and their immune functions: mortality, phagocytosis, adhesion and oxidative burst [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res 31(1):219.

Kapareiko D, Alix JH, Jeffress D, Wikfors GH. 2012. Evaluation of a Bacillus sp. probiotic candidate upon survival of oyster larvae (Crassostrea virginica) during pilot-scale trials and its effects upon oyster hemocyte immune functions [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):303.

King AL, Wikfors GH, Meseck SL. 2012. Potential effects of ocean acidification on fishery-based foodwebs [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):220.

Kocik JF, Goulette GS, Hawkes JP, Sheehan TF. 2012. Telemetry-based estimates of Atlantic salmon survival in estuaries and bays of Maine [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 187.

Kocik JF, Hawkes JP, Stich D, Zydlewski J, Dever M, Byron C, Lamont A. 2012. Blue highways: the migration ecology of Atlantic salmon from Maine estuaries to the Scotian Shelf [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Large SI, Fay G, Friedland KD, Link JS. 2012. Defining trends and thresholds in ecological indicator responses to fishing pressure and the environment [abstract]. Presented at: American Institute of Fishery Research Biologists, The Relative Importance of Fishing and the Environment in the Regulation of Fish Population Abundance; New Bedford MA; 26-28 Jun 2012; np.

Large SI, Fay G, Friedland KD, Link JS. 2012. Delineating ecosystem overfishing: analysis of fishing pressure and environmental thresholds for ecological indicators [abstract]. Presented at: ICES Annual Science Conference; Bergren, Norway; 17-21 Sep 2012; np.

Large SI, Fay G, Friedland KD, Link JS. 2012. Delineating ecosystem overfishing via analysis of ecosystem indicator inflection points [abstract]. Presented at: 2nd ICES/PICES Conference for Early Career Scientists; Majorca Island, Spain; 24-27 Apr 2012; np.

Large SI, Fay G, Friedland KD, Link JS. 2012. Delineating ecosystem overfishing via analysis of ecosystem indicator inflection points [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 39.

Large SI, Fay G, Friedland KD, Link JS. 2012. When is a system overfished? Establishing ecological indicator thresholds in response to fishing pressure [abstract]. Presented at: 2012 Winter Meeting of the Southern New England Chapter of the American Fisheries Society; Narragansett RI; 26 Jan 2012; np.

Large SI, Fay G, Link JS. 2012. Ecological indicator thresholds respond to both fishing pressure and environmental forcing [abstract]. Presented at: AFS Southern New England Chapter Meeting; Narragansett RI; 26 Jan 2012; np.

Lee MY, Munroe TA, Shao KT. 2012. Elucidating the taxonomic status of tonguefishes presently identified as Symphurus microhynchus: Discovery of a species complex [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 62.

Legaspi A, Shadle K, Kapareiko D. 2012. Extraction of possible probiotic candidates from the digestive tract of Crassostrea virginica for use as a food supplement for oyster larvae.  32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res 31(1):222.

Li Y, Hégaret H, Wikfors GH. 2012. Protein profiles of parasite infected Manila clams Ruditapes philippinarum exposed to the harmful alga Karenia selliformis as revealed by ProteinChipand SELDI-TOF-MS proteomic technology [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):312.

Li Y, Meseck S, Dixon MS, Rose J, Smith B, Croxton A, Rivara K, Wikfors GH. 2012. Temporal variability of in situ oyster feeding and its effect on local plankton dynamics [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):223.

Link JS. 2012. An overview of ecosystem models germane to whale population issues [abstract]. Presented at: 64th Annual Meeting of the International Whaling Commmission; Panama City, Panama; 11 Jun - 6 Jul 2012; np.

Link JS. 2012. Integrating, and then disentangling, multiple drivers impacting living marine resources [abstract]. Presented at: American Institute of Fishery Research Biologists, The Relative Importance of Fishing and the Environment in the Regulation of Fish Population Abundance; New Bedford MA; 26-28 Jun 2012; np.

Link JS, Pranovi F, Libralato S, Coll M, Christensen V, Legault CM. 2012. Delineating marine ecosystem perturbation and recovery: Theory and application of a trophic approach [abstract]. Presented at: ICES Annual Science Conference; Bergren, Norway; 17-21 Sep 2012; np.           

Lipsky C, O’Malley M, Stevens J, Saunders R, Kocik J. 2012. The Penobscot estuarine fish community and ecosystem survey [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. p 189.

Liu H, Link JS, Fogarty MJ, Fu C, Sugihara G. 2012. Exploring dynamic variability and interactions of marine fish populations [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Lockhart GG, Haas H, Barco SG, Smolowitz R, Bort J, DiGiovanni R, Swingle M. 2012. Sharing a limited space: the importance of including biological monitoring results in marine spatial planning [abstract]. Presented at: 2012 Statewide Wind Energy Symposium; Harrisonburg VA; 20-21 Jun 2012; np.

Lough RG, Kristiansen T, Ji R. 2012. Do warm years promote greater growth and survival of larval cod on George's Bank? [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 171.

Lucey SM, Cook AM, Boldt JL, Link JS, Essington TE, Miller TJ. 2012. Comparative analyses of surplus production dynamics of functional feeding groups  across 12 northern hemisphere marine ecosystems [abstract]. Presented at: Souther New England Chapter, American Fisheries Society, 2012 Summer Meeting; Leominster MA; 20 June 2012; p 9.

Lucey SM, Gaichas SK. 2012. Linking ecological production units: connectivity across multiple mass balance models within the Northeast US Large Marine Ecosystem (NEUS LME) [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

McBride RS. 2012. Parametric model selection of fish age and size at sexual maturity: an application with different stocks of winter flounder [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 64.

McCarthy M, Haas-Castro R, Renkawitz M. 2012. Intra-fish variability in Atlantic salmon (Salmo salar) smolt scales from the Sheepscot River, ME [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 180.

McElroy WD, Towle EK, Press YK, Wuenschel MJ, McBride RS. 2012. Comparison of fecundity and down-regulation among stocks and years for female yellowtail flounder, Limanda ferruginea [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 24

Meseck SL, Alix JH, Wikfors GH. 2012. The response of blue crab, Calinectes sapidus, hemocyctes to ocean acidification [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 314.

Meseck SL, Li Y, Dixon MS, Rivara K, Wifkors GH, Luther GW. 2012. Sedimentary and water chemistry effects of a floating-upwelling-system (FLUPSY) Oyster nursery on a small embayment in South Jamesport, New York, New York, USA [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):224.

Moustahfid H, Col LA, Fogarty M, Lucey S, Gamble R, Fay G, Large S, Link JS. 2012. Detecting trajectories of change in marine ecosystems: biotic indicators for observing systems [abstract]. Presented at: Oceans '12 MTS/IEEE; Hampton Roads VA; 14-19 Oct 2012; np.

Moustahfid H, Link JS. 2012. Biotic indicators for observing systems [abstract]. Presented at: Integrated Ocean Observing System (IOOS) Summit 2012; Herndon VA; 13-16 Nov 2012; np.

Munroe TA. 2012. New Western Pacific species of Bothid flatfishes (Lophonectes: Pleuronectiformes: Bothidae) [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 43.

Murray K, Warden M. 2012. Estimating unobservable interactions between protected species and modified fishing gear [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 54.

Music P, Kocik J. 2012. Avian and marine mammal census of the Penobscot River estuary [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 190

Nieland JL, Sheehan TF, Saunders R, Murphy JS, Trinko Lake T. 2012. Dam impact analysis on Atlantic salmon recovery in the Penobscot River, Maine [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 172.

Nieland JL, Sheehan TF, Saunders R, Murphy JS, Trinko Lake T. 2012. Dam impact analysis on Atlantic salmon recovery in the Penobscot River, Maine [abstract]. Presented at: 2012 National Conference on Engineering and Ecohydrology for Fish Passage; Amherst MA; 5-7 Jun 2012; np.

O’Connor MP, Richardson DE, Hare JA. 2012. Regional spatial dynamics of yellowtail flounder on the Northeast US shelf [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 42.

O’Malley M, Stevens J, Saunders R, Lipsky C, Kocik J. 2012. Pre-dam removal monitoring of Penobscot estuarine fish and zooplankton using mobile split-beam hydroacoustic methods [abstract]. Presented at:  2012 Maine Water Conference; Augusta ME; 14 Mar 2012; np.

O’Malley M, Saunders R, Stevens J, Lipsky C, Kocik J. 2012. Using hydroacoustics to investigate prey buffering during Atlantic salmon smolt migration in the Penobscot Estuary, Maine, USA [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Passerotti MS, Andrews AH, Carlson JK, Wintner SP, Natanson LJ. 2012. Age validation in sand tiger shark, Carcharias taurus, using bomb radiocarbon analysis [abstract]. Presented at: American Elasmobranch Society Meeting; Vancouver BC; 8-14 Aug 2012; p 542.

Pereira JJ, Schultz ET, Auster PJ. 2012. Site dependence or density dependence: using geospatial analysis to test models of habitat use and inform conservation and management. I. Yellowtail flounder (Limanda ferruginea) on Georges Bank [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 66.

Pitchford S, Smith BE, Stiles S, Brown C, McBride RS. 2012. Using molecular techniques to identify Atlantic cod (Gadus morhua) remains in spiny dogfish (Squalus acanthias) stomach contents [abstract]. Presented at: 2012 Winter Meeting of the Southern New England Chapter of the American Fisheries Society; Narragansett RI; 26 Jan 2012; np.

Renkawitz M, Sheehan T, Reddin D, Chaput G, Saunders R. 2012. Trophic ecology of Atlantic salmon in the Northwest Atlantic [abstract]. Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-28; p 192.

Rhoads AC, Pereira J. 2012. Determining size ratios of Squilla empusa (mantis shrimp) to benefit food habit studies [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res 31(1):225.

Rosa M, Shumway SE, Bullard S, Holohan BA, Wikfors GH, Getchis T. 2012. Biofouling tunicates on aquaculture gear as potential vectors of harmful algal introductions [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):341.

Rosa M, Ward JE, Shumway SS, Wikfors GH, Pales-Espinosa E, Allam B. 2012. The roles of particle surface characteristics in particle capture in bivalve mollusks [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res 31(1):342.

Rose JM, Bricker SB, Tedesco M, Wikfors GH. 2012. Exploring the science and policy of using shellfish aquaculture for nutrient removal in the coastal environment [abstract]. Presented at: 2nd ICES/PICES Conference for Early Career Scientists; Majorca Island, Spain; 24-27 Apr 2012; np.

Rountree B. 2012. A case study in successful fishery management: The Atlantic deep sea red crab fishery [abstract]. Presented at: IIFET 2012 Tanzania, Visible Possibilities: The Economics of Sustainable Fisheries, Aquaculture and Seafood Trade; 16-20 Jul 2012; Dar es Salaam, Tanzania; np.

Rountree B, Kitts A, Christman P. 2012. Fishing vessel affiliations:where does one end and another begin? [abstract]. Presented at: IIFET 2012 Tanzania, Visible Possibilities: The Economics of Sustainable Fisheries, Aquaculture and Seafood Trade; 16-20 Jul 2012; Dar es Salaam, Tanzania; np.

Rowe S, Smith BE. 2012. Sea scallop (Placopecten magellanicus) predation on the northeast U.S. continental shelf: Trends in groundfish feeding habits [abstract]. Presented at: American Institute of Fishery Research Biologists: The Relative Importance of Fishing and the Environment in the Regulation of Fish Population Abundance Symposium; New Bedford MA; 26-28 Jun 2012; np.

Scranton MI, Guida V, Gong D, Kessler J, Rona P. 2012. Methane venting in the Hudson Canyon: Hydrate destabilization or something else? [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 413.

Seagroves E, Horodysky AZ, Brill RW, Johnson AK. 2012. Visual ecophysiology of tautog (Tautoga onitis) [abstract]. Presented at: 2012 Ocean Sciences Meeting; Salt Lake City UT; 20-24 Feb 2012; p 414.

Sherement V, Brooks EN, Lough G O’Brien L, Legault C, Manning J, Wu X. 2012. Investigation of potential factors influencing the biological productivity on New England Shelf and Georges Bank [abstract]. Presented at: Fisheries and the Environment (FATE) Science Meeting; Santa Cruz CA; 1-2 Aug 2012; np.

Smith BE, Link JS. 2012. The presence of gelatinous zooplankton in the diets of fishes of the northeast U.S. continental shelf: Trends in shelf-wide feeding and consumptive removals [abstract]. Presented at: PICES 2012 Annual Meeting; Hiroshima, Japan; 12-21 Oct 2012; np.

Smith J, Fairchild E, Chambers RC, Habeck E, Rennels N, Clarke D. 2012. Laboratory investigations of winter flounder egg interactions with suspended and bed sediment [abstract]. Presented at:  13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 22.

St Martin K, Olson J. 2012. Enacting community in marine ecosystem-based management [abstract]. Presented at the 2012 Association of American Geographers annual meeting; New York NY; 24-28 Feb 2012; np.

Stevens J, Dill R, Borsky A. 2012. Evidence of the Penobscot Estuary providing river herring nursery habitat [poster]. Presented at: Diadromous Species Restoration Research Network Science Meeting; Orono ME; 10-11 Jan 2013; np.

Stevens J,  O’Malley M, Lipsky C, Saunders R, Kocik J. 2012. What's in the water? - Penobscot Estuary fish community survey preliminary results [abstract]. Presented at: 38th Annual Meeting of the Atlantic International Chapter of the American Fisheries Society,  Averill VT; 23-25 Sep 2012; np.

Stich DS, Bailey MM, Holbrook C, Kinnison MT, Kocik JF, Zydlewski GB, Zydlewski JD. 2012. Atlantic salmon smolt migration and survival prior to dam removal [abstract]. Presented at: 142nd Annual Meeting of the American Fisheries Society; Minneapolis-St Paul MN; 19-23 Aug 2012; np.

Stiles S, Choromanski J, Jeffress D. 2012. Genetic applications for shellfish restoration [abstract]. Presented at: Joint meeting of Milford Aquaculture Seminar (MAS), Northeast Aquaculture Conference and Exposition (NACE) and International Conference on Shellfish Restoration (ICSR); Mystic CT; 12-15 Dec 2012; np.

Stiles S, Choromanski J, Jeffress D. 2012. Studies on breeding and molecular genetics of the bay scallop, Argopecten irradians) [abstract]. Presented at:  84th Annual Meeting of the National Technical Association; Washington DC; 19-21 Sept 2012; np.

Stiles S, Choromanski J, Jeffress D, Amarante M. 2012. Continuing studies on selective breeding and population genetics for enhancement and restoration of a bivalve: the bay scallop, Argopecten irradians [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):227.

Thornton G, Robillard E. 2012. Comparing ages of winter flounder, Pseudopleuronectes americanus, between scales and otoliths: Is better accuracy really worth slowing down production processing? [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-18; p 17.

Towle EK, McElroy WD, Press YK, McBride RS. 2012. Spermatogenesis, reproductive maturation, and spawning seasonality of male winter flounder, Pseudopleuronectes americanus [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 67.

Tuckey TD, Brooks GH, Munroe TA. 2012. Long-term patterns of abundance of blackcheek tonguefish, Symphurus plagiusa Linnaeus (Pleuronectiformes: Cynoglossidae), in lower Chesapeake Bay and its major tributaries [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 28.

Valls A, Palomares D, Link JS, Christensen V. 2012. Predicting species diet composition in marine food web models [abstract]. Presented at: 6th World Fisheries Congress; Edinburgh, Scotland; 7-11 May 2012; p 34.

Walsh HJ, Richardson DE, O’Connor M, Hare JA. 2012. Changes in larval, juvenile, and adult yellowtail flounder distributions and habitat use on the Northeast US shelf over the last four decades [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 44.

Wenzel FW, Allen J, Berrow S, Hazevoet CJ, Jann B, Ryan C, Seton RE, Schmidt C, Steiner L, Stevick P, López Suárez P, Whooley P. 2012. Current knowledge on the distribution, migratory patterns and relative abundance of humpback whales (Megaptera novaeangliae) off the Cape Verde Islands, Eastern North Atlantic [abstract]. Presented at: 26th Annual Conference of the European Cetacean Society; Galway, Ireland; 26-28 Mar 2012; p 316.

Widman JC Jr. 2012. Is it time to expand bay scallop, Argopecten irradians irradians, culture in the united states? [abstract]. Presented at: Joint meeting of  Milford Aquaculture Seminar (MAS), Northeast Aquaculture Conference and Exposition (NACE) and International Conference on Shellfish Restoration (ICSR); Mystic CT; 12-15 Dec 2012; np.

Widman JC Jr, Milke L, Cohen A, McCorkle DC. 2012. Effects of elevated pCO2 on Atlantic surfclam, Spisula solidissma, larvae [abstract]. Presented at: 104th Annual Meeting, National Shellfisheries Association; Seattle WA; 24-29 Mar 2012. J Shellfish Res. 31(1):360.

Widman JC Jr, Veilleux DJ, Dixon MS. 2012. Growth of larval bay scallops, Argopecten irradians irradians, at high densities [abstract]. Presented at: 32nd Milford Aquaculture Seminar; Westbrook CT; 12-14 Mar 2012. J Shellfish Res. 31(1):229.

Wieczorek D, Samson J, Phelan BA, Chambers RC, Poach ME, Timmon D. 2012. The NOAA Ocean Acidification Plan: designing an experimental system to test the effects of water conditions specific to ocean acidification on the early life stages of flatfish [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc 12-28; p 37.

Winton M, McBride R, Wuenschel M, Nitschke P, Terceiro M. 2012. Detecting an environmental gradient in maturity of winter flounder (Pseudopleuronectes americanus) stocks: does thermal habitat create spatial heterogeneity of life history parameters within stock boundaries? [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 68.

Wuenschel MJ, Brooks EN, Friedland K, McBride R, Sutherland S. 2012. Evaluating environmental influence and maturity on growth and subsequent recruitment dynamics in Georges Bank haddock (Melanogrammus aeglefinus) [abstract]. Presented at: American Institute of Fishery Research Biologists, The Relative Importance of Fishing and the Environment in the Regulation of Fish Population Abundance; New Bedford MA; 26-28 Jun 2012; np.

Wuenschel MJ, Brooks EN, Trippel E, Van Eeckhaute L. 2012. Environmental effects on Georges Bank haddock productivity: evaluation of alternative [abstract]. Presented at: Fisheries and the Environment (FATE) Science Meeting; Santa Cruz CA; 1-2 Aug 2012; np.

Wuenschel MJ, McElroy WD, McBride RS. 2012. Can variation in fecundity of winter flounder (Pseudopleuronectes americanus) be explained by measures of condition? [abstract]. Presented at: 13th Flatfish Biology Conference 2012; Westbrook CT; 4-5 Dec 2012. NEFSC Ref Doc. 12-28; p 23.

Zydlewski J, Firmenich A, Santavy P, Lipsky C, Hawkes J, Kocik J. 2012. Assessing the direct stocking of imprinted smolts into the Penobscot River Estuary [abstract].  Presented at: 2012 Atlantic Salmon Forum; Maine Atlantic Salmon and their Ecosystems; Bangor ME; 10-11 Jan 2012. NEFSC Ref Doc. 12-12; p 178.

Endnote

[1] Council of Science Editors, Style Manual Committee. 2006. Scientific style and format: the CSE manual for authors, editors, and publishers. 7th ed. Reston, VA: The Council; 658 p.

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