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Evolutionary Ecology Software

 

Publications
 

2017

O'Donnell, M.J. and B.H. Letcher. 2017. Implanting 8-mm passive integrated transponder tags into small Brook Trout: Effects on growth and survival in the laboratory. North American Journal of Fisheries Management. doi: 10.1080/02755947.2017.1307291

Whiteley, A.R., J.A. Coombs, M.J. O'Donnell, K.H. Nislow, and B.H. Letcher. 2017. Keeping things local: subpopulation Nb and Ne in a stream network with partial barriers to fish migration. Evolutionary Applications. doi: 10.1111/eva.12454

 

2016

Bassar, R.D., B.H. Letcher, K.H. Nislow, and A.R. Whiteley. 2016. Changes in seasonal climate outpace compensatory density-dependence in eastern brook trout. Global Change Biology 22:577-593. doi: 10.1111/gcb.13135

Kanno, Y., K.C. Pregler, N.P. Hitt, B.H. Letcher, D.J. Hocking, and J.E.B. Wofford. 2016. Seasonal temperature and precipitation regulate brook trout young-of-the-year abundance and population dynamics. Freshwater Biology 61, 88–99. doi: 10.1111/fwb.12682

Kovach, R.P., C.C. Muhlfeld, R. Al-Chokhachy, J.B. Dunham, B.H. Letcher, and J.L. Hershner. 2016. Impacts of climatic variation on trout: a global synthesis and path forward. Rev Fish Biol Fisheries. doi:10.1007/s11160-015-9414-x

Letcher, B.H., Hocking, D.J., O’Neil, K., Whiteley, A.R., Nislow, K.H., and M.J. O’Donnell. 2016. A hierarchical model of daily stream temperature using air-water temperature synchronization, autocorrelation, and time lags.PeerJ 4:e1727. doi.org/10.7717/peerj.1727

 

2015

Jane, S.F., T.M. Wilcox, K.S. McKelvey, M.K. Young, K. Schwartz, W.H. Lowe, B.H. Letcher, and A.R. Whiteley. 2015. Distance, flow and PCR inhibition: eDNA dynamics in two headwater streams. Molecular Ecology Resources 15:216-227. doi: 10.1111/1755-0998.12285.12216

Letcher, BH., P. Schueller, R. Bassar, K.H. Nislow, J.A. Coombs, K. Sakrejda, M. Morrissey, D. Sigourney, A.R. Whiteley, M. O'Donnell, and T. Dubreuil. 2015. Robust estimates of environmental effects on population vital rates: an integrated capture-recapture model of seasonal brook trout growth, survival and movement in a stream network. Journal of Animal Ecology 84:337-352. doi:10.1111/1365-2656.12308

Kanno, Y., B.H. Letcher, N.P. Hitt, D.A. Boughton, J.E.B. Wofford, and E.F. Zipkin. 2015. Seasonal weather patterns drive population vital ratesand persistence in a stream fish. Global Change Biology 21:1856-1870. doi: 10.1111/gcb.12837

Kanno, Y., B.H. Letcher, A.L. Rosner, K.P. O’Neil, and K.H. Nislow. 2015. Environmental Factors Affecting Brook Trout Occurrence in Headwater Stream Segments. Transactions of the American Fisheries Society 144:373-382. doi: 10.1080/00028487.2014.991446

Snook, E.L., B.H. Letcher, T.L. Dubreuil, J. Zydlewski, M.J. O'Donnell, A.R. Whiteley, S.T. Hurley, and A.J. Danylchuk. 2015. Movement patterns of brook trout in a restored coastal stream system in southern Massachusetts. Ecology of Freshwater Fish. doi: 10.1111/eff.12216

Whiteley, A.R., J.A. Coombs, M. Cembrola, M.J. O'Donnell, M. Hudy, K.H. Nislow, and B.H. Letcher. 2015. Effective number of breeders provides a link between interannual variation in stream flow and individual reproductive contribution in a stream salmonid. Molecular Ecology 24: 3585-3602. doi: 10.1111/mec.13273

 

2014

Kanno, Y., B.H. Letcher, J.A. Coombs, K.H. Nislow, and A.R. Whiteley. 2014. Linking movement and reproductive history of brook trout to assess habitat connectivity in a heterogeneous stream network. Freshwater Biology 59(1): 142-154. doi: 10.1111/fwb.12254

Kanno, Y, J.C. Vokoun, and B. H. Letcher, 2014. Paired stream-air temperature measurements reveal fine-scale thermal heterogeneity within headwater brook trout stream networks. River Research and Applications 30(6):745-755. doi:10.1002/rra.2677

Kazyak, D., B.H. Letcher, J. Zydlewski, and M.J. O’Donnell. 2014. Growth variability of Brook Charr(Salvelinus fontinalis) in coastal Maine. Ecology of Freshwater Fish 23(4)516-526. doi:10.1111/eff.12105

Otero, J., et al., 2014. Basin-scale phenology and effects of climate variability on global timing of initial seaward migration of Atlantic salmon (Salmo salar). Global Change Biology 20:61-75. doi:10.1111/gcb.12363

Rudershausen, P.J., J.A. Buckel, T. Dubreuil, M.J. O'Donnell, J.E. Hightower, S.J. Poland, and B.H. Letcher. 2014. Estimating movement and survival rates of a small saltwater fish using autonomous antenna receiver arrays and passive integrated transponder tags. Marine Ecology Progress Series 499:177-192. doi:10.3354/meps10656

Zipkin,E., J. Thorson, K. See, H. Lynch, E. Grant, Y. Kanno, R. Chandler, B.H. Letcher, and J. Royle. 2014. Modeling structured population dynamics using data from unmarked individuals. Ecology. doi:10.1890/13-1131.1

 

2013

Sigourney, D.B., B.H. Letcher, M. Obedzinsk, and R.A. Cunjak. 2013. Interactive effects of life history and season on size-dependent growth in juvenile Atlantic salmon. Ecology of Freshwater Fish 22(4):495-507. doi:10.1111/eff.12042

Whiteley, A.R., J.A. Coombs, M. Hudy, Z. Robinson, A.R. Colton, K.H. Nislow, and B.H. Letcher. 2013. Fragmentation and patch size shape genetic structure of brook trout populations. Canadian Journal of Fisheries and Aquatic Sciences 7(5):678-688. doi:10.1139/cjfas-2012-0493

 

2012

Coombs, J.A., B.H. Letcher, and K.H. Nislow. 2012. GONe: Software for estimating effective population size in species with generational overlap. Molecular Ecology Resources 12(1):160-163. doi:10.1111/j.1755-0998.2011.03057.x

Kanno, Y., J.C. Vokoun, K.E. Holsinger and B.H. Letcher. 2012. Estimating size-specific brook trout abundance in continuously sampled headwater streams using Bayesian mixed models with zero inflation and overdispersion. Ecology of Freshwater Fish 21(3):404-419. doi:10.1111/j.1600-0633.2012.00560.x

Sigourney, D.B., S.B. Munch and B.H. Letcher. 2012. Combining a Bayesian nonparametric method with a hierarchical framework to estimate individual and temporal variation in growth. Ecological Modelling 247:125-134. doi: 10.1016/j.ecolmodel.2012.08.009

Steinschneider, S. A. Polebitski, C. Brown and B.H. Letcher. 2012. Toward a statistical framework to quantify the uncertainties of hydrologic response under climate change. Water Resources Research 48: doi:10.1029/2011WR011318

Whitely, A.R., J.A. Coombs, M. Hudy, Z. Robinson, K.H. Nislow, and B.H. Letcher. 2012. Sampling strategies for estimating brook trout effective population size. Conservation Genetics 13:625-637.

 

2011

Horton, G.E., B.H. Letcher, and W.L. Kendall. 2011. A multistate capture-recapture modeling strategy to separate true survival from permanent emigration for a passive integrated transponder tagged population of stream fish. Transactions of the American Fisheries Society 140:320-333. doi:10.1080/00028487.2011.567861.

Kanno, Y., Vokoun, J.,and B.H. Letcher. 2011. Fine-scale population structure and riverscape genetics of brook trout (Salvelinus fontinalis) distributed continuously along headwater channel networks. Molecular Ecology 20(18):3711-3729. doi:10.1111/j.1365-294X.2011.05210.x.

Kanno, Y., Vokoun, J.,and B.H. Letcher. 2011. Sibship reconstruction for inferring mating systems, dispersal and effective population size in headwater brook trout (Salvelinus fontinalis) populations. Conservation Genetics 12(2):619-628. doi:10.1007/s10592-010-0166-9.

Letcher, B.H., Coombs, J.A., and K.H. Nislow. 2011. Maintenance of phenotypic variation: repeatability, heritability and size-dependent processes in a wild brook trout population. Evolutionary Applications 4(4):602-615. doi:10.1111/j.1752-4571.2011.00184.x

Nislow, K,H., Hudy, M., Coombs, J.A., Letcher, B.H., and E.P. Smith. 2011. Variation in local abundance and species richness of stream fishes in relation to dispersal barriers: implications for management and conservation .Freshwater Ecology 56(10):2135-2144. doi:10.1111/j.1365-2427.2011.02634.x.

 

2010

Castro-Santos, T. and B.H. Letcher. 2010. Modeling migratory energetics of American shad (Alosa sapidissima), implications for the conservation of an iteroparous anadromous fish. Canadian Journal of Fisheries and Aquatic Sciences 67:806-830.  doi:10.1139/F10-026.

Coombs, J.A., B.H. Letcher, and K.H. Nislow. 2010. PedAgree: Software to quantify error and assess accuracy and congruence for genetically reconstructed pedigree relationships. Conservation Genetics Resources 2:147-150. doi: 10.1007/s12686-010-9202-9

Coombs, J.A., B.H. Letcher, and K.H. Nislow. 2010. PEDAGOG: Software for simulating eco-evolutionary, population dynamics. Molecular Ecology Resources 10(3):558-563. doi: 10.1111/j.1755-0998.2009.02803.x

Davidson, R.S., B.H. Letcher, and K.H. Nislow. 2010. Drivers of growth variation in juvenile Atlantic salmon (Salmo salar): an elasticity analysis approach. Journal of Animal Ecology 79:1113-1121. doi: 10.1111/j.1365-2656.2010.01708.x

Hudy, M., J. Coombs, K. Nislow, and B.H. Letcher. 2010. Dispersal and within-stream spatial population structure of brook trout revealed by pedigree reconstruction analysis. Transactions of the American Fisheries Society 139:1276-1287. doi: 10.1577/T10-027.1.

O'Donnell, M.J., G.E. Horton, and B.H. Letcher. 2010. Use of portable antennas to estimate population abundance of PIT tagged fish in small streams: factors affecting detection efficiency. North American Journal of Fisheries Management 30(2):323-336.

Xu, C., B.H. Letcher, and K.H. Nislow. 2010. Size-dependent survival of brook trout Salvelinus fontinalis in summer: effects of water temperature and stream flow. Journal of Fish Biology 76:2342-2369. doi:10.1111/j.1095-8649.2010.02619.x

Xu, C., B.H. Letcher, and K.H. Nislow. 2010. Context-specific influence of water temperature on brook trout growth rates in the field. Freshwater Biology 55:2253-2264.

Zimmerman, J.K.H., B.H. Letcher, K.H. Nislow, K.A. Lutz, and F.J. Magilligan. 2010. Determining the effects of dams on subdaily variation in river flows at a whole-basin scale. River Research and Applications 26:1246-1260.

 

2009

Aubin-Horth N., B.H. Letcher, and H.A. Hofmann. 2009. Gene-expression signatures of Atlantic salmon's plastic life cycle. General and Comparative Endocrinology 163(3):278-284.

Charney, N.D., B.H. Letcher, A. Haro, P.S. Warren. 2009. Terrestrial passive integrated transponder antennae for tracking small animal movements. Journal of Wildlife Management 73(7):1245-1250.

Davidsen, J.G., A.H. Rikardsen, E. Halttunen, E.B. Thorstad, F.Økland, B.H. Letcher, J. Skarðhamar and T.F. Næsje. 2009. Migratory behavior and survival rates of wild northern Atlantic salmon Salmo salar post-smolts: effects of environmental factors. Journal of Fish Biology 75:1700-1718.

Horton, G E., B.H. Letcher, M.M. Bailey, M.T. Kinnison. 2009. Atlantic salmon (Salmo salar) smolt production: the relative importance of survival and body growth. Canadian Journal of Fisheries and Aquatic Sciences 66(3):471-483.

 

2008

Coombs, J.A., B.H. Letcher and K.H. Nislow. 2008. CREATE: a software to create input files from diploid genotypic data for 52 genetic software programs. Molecular Ecology Resources 8:578-580.

Horton, G.E., and B.H. Letcher. 2008. Movement patterns and study area boundaries: influences on survival estimation in capture–mark–recapture studies. Oikos 117(8):1131-1142.

Letcher, B.H., G.E. Horton. 2008. Seasonal variation in size-dependent survival of juvenile Atlantic salmon (Salmo salar): performance of multistate capture-mark-recapture models. Canadian Journal of Fisheries and Aquatic Sciences 65:1649-1666.

O’Donnell, M.J. and B.H. Letcher. 2008. Size and age distributions of juvenile Connecticut River American shad above Hadley Falls: influence on outmigration representation and timing. River Research and Applications 24:929-940.

Sigourney, D.B., B.H. Letcher, M. Obedzinski, and R.A. Cunjak. 2008. Size-independent growth in fish: patterns, models and metrics. Journal of Fish Biology 72(10):2435-2455.

 

2007

Carlson, S.M., A.P. Hendry, and B.H. Letcher. 2007. Growth rate differences between resident native brook trout and non-native brown trout. Journal of Fish Biology 71:1430-1447.

Garcia de Leaniz, C., I.A. Fleming, S. Einum, E. Verspoor, W.C. Jordan, S. Consuegra, N. Aubin-Horth, D. Lajus, B.H. Letcher, A.F. Youngson, J.H. Webb, L.A. Vollestad, B. Villanueva, A. Ferguson, and T.P. Quinn. 2007. A critical review of adaptive genetic variation in Atlantic salmon: implications for conservation. Biological Reviews 82(2):173-211.

Horton, G.E., T.L. Dubreuil, and B.H. Letcher. 2007. A model for estimating passive integrated transponder (PIT) tag antenna efficiencies for interval-specific emigration rates. Transactions of the American Fisheries Society 136:1165-1176.

Letcher B.H., K.H. Nislow, J.A. Coombs, M.J. O’Donnell, T.L. Dubreuil. 2007. Population response to habitat fragmentation in a stream-dwelling brook trout population. PLoS ONE 2(11):e1139. doi:10.1371/journal.pone.0001139.

Pearlstein, J.H., B.H. Letcher, and M. Obedzinski. 2007. Early discrimination of Atlantic salmon smolt age: Time course of the relative effectiveness of body size and shape. Transactions of the American Fisheries Society 136:1622-1632.

Scace, J.G., B.H. Letcher, and J. Noreika. 2007. An efficient smolt trap for sandy and debris-laden streams. North American Journal of Fisheries Management 27:1276-1286.

 

2006

Grader, M. and B.H. Letcher. 2006. Diel and seasonal variation in food habits of Atlantic salmon parr in a small stream. Journal of Freshwater Ecology 21(3):503-517.

Sigourney, D.B., B.H. Letcher, and R.A. Cunjak. 2006. Influence of beaver activity on summer growth and condition of age-2 Atlantic salmon parr. Transactions of the American Fisheries Society 135(4):1068-1075.

Zydlewski, G.B., G. Horton, T. Dubreuil, B. Letcher, S. Casey, and J. Zydlewski. 2006. Remote monitoring of fish in small streams: a unified approach using PIT tags. Fisheries 31(10):492-502.

  

2005:

Aubin-Horth, N., B. H. Letcher, and H. A. Hofmann. 2005. Interaction of rearing environment and reproductive tactic on gene expression profiles in Atlantic salmon. Journal of Heredity 96(3): 261-278.

Aubin-Horth, N., C. R. Landry, B. H. Letcher, and H. A. Hofmann. 2005. Alternative life histories shape brain gene expression profiles in males of the same population. Proceedings of the Royal Society B-Biological Sciences 272(1573):1655-1662.

King, T. L., M. S. Eackles, and B. H. Letcher. 2005. Microsatellite DNA markers for the study of Atlantic salmon (Salmo salar) kinship, population structure, and mixed-fishery analyses. Molecular Ecology Notes 5(1): 130-132.

Letcher, B. H., G. E. Horton, T. L. Dubreuil, and M. J. O'Donnell. 2005. A field test of the extent of bias in selection estimates after accounting for emigration. Evolutionary Ecology Research 7(4):643-650.

Sigourney, D. B., G. E. Horton, T. L. Dubreuil, A. M. Varaday, and B. H. Letcher. 2005. Electroshocking and PIT tagging of juvenile Atlantic salmon: Are there interactive effects on growth and survival? North American Journal of Fisheries Management 25(3):1016-1021.

 

2004:

Carlson, S. M., A. P. Hendry, and B. H. Letcher. 2004. Natural selection acting on body size, growth rate and compensatory growth: an empirical test in a wild trout population. Evolutionary Ecology Research 6(7):955-973.

Letcher, B. H., T. Dubreuil, M. J. O'Donnell, M. Obedzinski, K. Griswold, and K. H. Nislow. 2004. Long-term consequences of variation in timing and manner of fry introduction on juvenile Atlantic salmon (Salmo salar) growth, survival, and life-history expression. Canadian Journal of Fisheries and Aquatic Sciences 61(12):2288-2301.

Obedzinski, M. and B. H. Letcher. 2004. Variation in freshwater growth and development among five New England Atlantic salmon (Salmo salar) populations reared in a common environment. Canadian Journal of Fisheries and Aquatic Sciences 61(12):2314-2328.

Spidle, A. P., T. L. King, and B. H. Letcher. 2004. Comparison of genetic diversity in the recently founded Connecticut River Atlantic salmon population to that of its primary donor stock, Maine's Penobscot River. Aquaculture 236(1-4):253-265.

 

2003:

Carlson, S. M. and B. H. Letcher. 2003. Variation in brook and brown trout survival within and among seasons, species, and age classes. Journal of Fish Biology 63(3):780-794.

Henderson, J. N. and B. H. Letcher. 2003. Predation on stocked Atlantic salmon (Salmo salar) fry. Canadian Journal of Fisheries and Aquatic Sciences 60(1):32-42.

Hendry, A. P., B. H. Letcher, and G. Gries. 2003. Estimating natural selection acting on stream-dwelling Atlantic salmon: Implications for the restoration of extirpated populations. Conservation Biology 17(3):795-805.

Letcher, B. H. and G. Gries. 2003. Effects of life history variation on size and growth in stream-dwelling Atlantic salmon. Journal of Fish Biology 62(1):97-114.

Letcher, B. H. 2003. Life history dependent morphometric variation in stream-dwelling Atlantic salmon. Oecologia 137(4):533-540.

 

2002:

Gries, G. and B. H. Letcher. 2002. Tag retention and survival of age-0 Atlantic salmon following surgical implantation with passive integrated transponder tags. North American Journal of Fisheries Management 22(1):219-222.

Gries, G. and B. H. Letcher. 2002. A night seining technique for sampling juvenile Atlantic salmon in streams. North American Journal of Fisheries Management 22(2):595-601.

Gries, G. and B. H. Letcher. 2002. Tag retention and survival of age-0 Atlantic salmon following surgical implantation with passive integrated transponder tags (vol 22, pg 214, 2002). North American Journal of Fisheries Management 22(2):702.

Letcher, B. H., G. Gries, and F. Juanes. 2002. Survival of stream-dwelling Atlantic salmon: Effects of life history variation, season, and age. Transactions of the American Fisheries Society 131(5):838-854.

 

2001:

Letcher, B. H. and T. D. Terrick. 2001. Effects of developmental stage at stocking on growth and survival of Atlantic salmon fry. North American Journal of Fisheries Management 21(1):102-110.

Letcher, B. H. and T. L. King. 2001. Parentage and grandparentage assignment with known and unknown matings: application to Connecticut River Atlantic salmon restoration. Canadian Journal of Fisheries and Aquatic Sciences 58(9):1812-1821.

Mayo, C.A., B.H. Letcher, and S. Scott. 2001. Zooplankton filtering efficiency of the baleen of a North Atlantic right whale, Eubalaena glacialis. Journal of Cetacean Research and Management, special issue, vol. 2:225-230.

 

2000:

Juanes, F., B. H. Letcher, and G. Gries. 2000. Ecology of stream fish: insights gained from an individual-based approach to juvenile Atlantic salmon. Ecology of Freshwater Fish 9(1-2):65-73.

 

1999:

Letcher, B. H. and T. L. King. 1999. Targeted stock identification using multilocus genotype 'familyprinting'. Fisheries Research 43(1-3):99-111.

 

1998:

Buckel, J. A., B. H. Letcher, and D. O. Conover. 1998. Effects of a delayed onset of piscivory on the size of age-0 bluefish. Transactions of the American Fisheries Society 127(4):576-587.

Letcher, B. H., J. A. Priddy, J. R. Walters, and L. B. Crowder. 1998. An individual-based, spatially-explicit simulation model of the population dynamics of the endangered red-cockaded woodpecker, Picoides borealis. Biological Conservation 86(1):1-14.

Letcher, B. H. and T. D. Terrick. 1998. Maturation of male age-0 Atlantic salmon following a massive, localized flood. Journal of Fish Biology 53(6):1243-1252.

Letcher, B. H. and T. D. Terrick. 1998. Thermal marking of Atlantic salmon otoliths. N. Amer. J. Fish. Manag., 18:406-410.

 

1997:

Letcher, B. H. and J. A. Rice. 1997. Prey patchiness and larval fish growth and survival: Inferences from an individual-based model. Ecological Modelling 95(1):29-43.

Letcher, B. H., J. A. Rice, L. B. Crowder, and F. P. Binkowski. 1997. Size- and species dependent variability in consumption and growth rates of larvae and juveniles of three freshwater fishes. Canadian Journal of Fisheries and Aquatic Sciences 54(2):405-414.

 

1996:

Letcher, B. H., J. A. Rice, L. B. Crowder, and F. P. Binkowski. 1996. Size-dependent effects of continuous and intermittent feeding on starvation time and mass loss in starving yellow perch larvae and juveniles. Transactions of the American Fisheries Society 125(1):14-26.

Letcher, B. H., J. A. Rice, L. B. Crowder, and K. A. Rose. 1996. Variability in survival of larval fish: Disentangling components with a generalized individual-based model. Canadian Journal of Fisheries and Aquatic Sciences 53(4): 787-801.

 

1993:

Letcher, B. H. and D. A. Bengtson. 1993. Effects of Food Density on Growth and on Patterns of Prey Depletion by Larval Silverside Fish, Menidia-Beryllina (Cope) - A Laboratory Investigation with Image-Analysis. Journal of Experimental Marine Biology and Ecology 167(2):197-213.

Letcher, B. H. and D. A. Bengtson. 1993. Effects of Food Density and Temperature on Feeding and Growth of Young Inland Silversides (Menidia-Beryllina). Journal of Fish Biology 43(5):671-686.

 

 

 

 

 

 

 

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