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PopTools in publications

I keep an eye on scientific papers that have used PopTools by searching for ‘poptools’ using Google Scholar. It’s not a perfect strategy but is quick and easy and gives some idea how the software has been used.

Here’s a recent one from me:

Hood, G. M., Barry, S. C., & Martin, P. A. J. (2009). Alternative Methods for Computing the Sensitivity of Complex Surveillance Systems. Risk Analysis, 29(12), 1686-1698. doi:10.1111/j.1539-6924.2009.01323.x

Papers published in 2010 are listed below; the full list is here.

  1. Allan, B. F., Goessling, L. S., Storch, G. A., & Thach, R. E. (2010). Blood Meal Analysis to Identify Reservoir Hosts for Amblyomma americanum Ticks. Emerging infectious diseases, 16(3), 433.  
  2. Amundson, C. L. (2010). The role of predator removal and density-dependence on mallard production in northeastern North Dakota. University of Minnesota.  
  3. Anderson, T. J. C., Williams, J. T., Nair, S., Sudimack, D., Barends, M., Jaidee, A., Price, R. N., et al. (2010). Inferred relatedness and heritability in malaria parasites. Proceedings of the Royal Society B, 277(1693), 2531-2540. doi:10.1098/rspb.2010.0196  
  4. Apte, D., Dutta, S., & Babu, I. (2010). Monitoring densities of the giant clam Tridacna maxima in the Lakshadweep Archipelago. Marine Biodiversity Records, 3, e78. doi:10.1017/S1755267210000680  
  5. Arango, D. A., Duque, ├ü., & Mu├▒oz, E. (2010). Din├ímica poblacional de la palma Euterpe oleracea (Arecaceae) en bosques inundables del Choc├│, Pac├¡fico colombiano. Rev. Biol. Trop, 58(1), 465-481.  
  6. Atterby, H., Aegerter, J. N., Smith, G. C., Conyers, C. M., Allnutt, T. R., Ruedi, M., & MacNicoll, A. D. (2010). Population genetic structure of the DaubentonÔÇÖs bat (Myotis daubentonii) in western Europe and the associated occurrence of rabies. European Journal of Wildlife Research, 56(1), 67-81.  
  7. Baab, K. L., Freidline, S. E., Wang, S. L., & Hanson, T. (2010). Relationship of cranial robusticity to cranial form, geography and climate in Homo sapiens. American journal of physical anthropology, 141(1), 97-115.  
  8. Bull, R. D., McCracken, A., Gaston, A. J., Birt, T. P., & Friesen, V. L. (2010). Evidence of Recent Population Differentiation in Orange-crowned Warblers (Vermivora celata) in Haida Gwaii. The Auk, 127(1), 23-34.  
  9. Caleiro, A. (2010). How can Evora be distinguished from the rest of Alentejo: A spatial statistics approach. Universidade de Evora, Departamento de Economia. Retrieved from http://mpra.ub.uni-muenchen.de/22057/
  10. CAPERS, R., SELSKY, R., & BUGBEE, G. (2010). The relative importance of local conditions and regional processes in structuring aquatic plant communities. Freshwater Biology, 55(5), 952-966.  
  11. Carvallo, G. O., & Medel, R. (2010). Effects of herkogamy and inbreeding on the mating system of Mimulus luteus in the absence of pollinators. Evolutionary Ecology, 24(2), 509-522.  
  12. Corti, P., Wittmer, H. U., & Festa-Bianchet, M. (2010). Dynamics of a small population of endangered huemul deer (Hippocamelus bisulcus) in Chilean Patagonia. Journal of Mammalogy, 91(3), 690-697.  
  13. Croteau, E. K., Heist, E. J., & Nielsen, C. K. (2010). Fine-scale population structure and sex-biased dispersal in bobcats (Lynx rufus) from southern Illinois. Canadian Journal of Zoology, 88(6), 536-545.  
  14. Cutull├®, C., Jonsson, N. N., & Seddon, J. M. (2010). Multiple paternity in Rhipicephalus (Boophilus) microplus confirmed by microsatellite analysis. Experimental and Applied Acarology, 50(1), 51-58.  
  15. Dapporto, L. (2010). Satyrinae butterflies from Sardinia and Corsica show a kaleidoscopic intraspecific biogeography (Lepidoptera, Nymphlidae). Biological Journal of the Linnean Society, 100(1), 195-212.  
  16. Darvill, B., O'Connor, S., Lye, G. C., Waters, J., Lepais, O., & Goulson, D. (2010). Cryptic differences in dispersal lead to differential sensitivity to habitat fragmentation in two bumblebee species. Molecular Ecology, 19(1), 53-63.  
  17. Duchet, C., Coutellec, M. A., Franquet, E., Lagneau, C., & Lagadic, L. (2010). Population-level effects of spinosad and Bacillus thuringiensisisraelensis in Daphnia pulex and Daphnia magna: comparison of laboratory and field microcosm exposure conditions. Ecotoxicology, 1-14.  
  18. Fitzpatrick, J. L., Garcia-Gonzalez, F., & Evans, J. P. (2010). Linking sperm length and velocity: the importance of intramale variation. Biology Letters. doi:10.1098/rsbl.2010.0231  
  19. Fr├¿re, C. H., Kr├╝tzen, M., Mann, J., Watson-Capps, J. J., Tsai, Y. J., Patterson, E. M., Connor, R., et al. (2010). Home range overlap, matrilineal and biparental kinship drive female associations in bottlenose dolphins. Animal Behaviour, 80(3), 481-486.  
  20. Furlan, E., Umina, P. A., Mitrovski, P. J., Gust, N., Griffiths, J., & Weeks, A. R. (2010). High levels of genetic divergence between Tasmanian and Victorian platypuses, Ornithorhynchus anatinus, as revealed by microsatellite loci. Conservation Genetics, 11(1), 319-323.  
  21. Gold, J. R., Jobity, A. M. C., Saillant, E., & Renshaw, M. A. (2010). Population structure of carite (Scomberomorus brasiliensis) in waters offshore of Trinidad and northern Venezuela. Fisheries Research.  
  22. Gonz├ílez-Oreja, J. A. (2010). Birds of different biogeographic origins respond in contrasting ways to urbanization. Biological Conservation. doi:10.1016/j.biocon.2010.08.021  
  23. Gunawardena, S., Karunaweera, N. D., Ferreira, M. U., Phone-Kyaw, M., Pollack, R. J., Alifrangis, M., Rajakaruna, R. S., et al. (2010). Geographic Structure of Plasmodium vivax: Microsatellite Analysis of Parasite Populations from Sri Lanka, Myanmar, and Ethiopia. The American Journal of Tropical Medicine and Hygiene, 82(2), 235.  
  24. Hagy, H. M., Linz, G. M., & Bleier, W. J. (2010). Wildlife Conservation Sunflower Plots and Croplands as Fall Habitat for Migratory Birds. The American Midland Naturalist, 164(1), 119-135.  
  25. Hazlitt, S. L., Eldridge, M. D. B., & Goldizen, A. W. (2010). Strong matrilineal structuring in the brush-tailed rock-wallaby confirmed by spatial patterns of mitochondrial DNA. In G. Coulson & M. Eldridge (Eds.), Macropods: The Biology of Kangaroos, Wallabies and Rat-Kangaroos (p. 87). Collingwood, Australia: CSIRO Publishing.  
  26. Homolka, A., Berenyi, M., Burg, K., Kopecky, D., & Fluch, S. (2010). Microsatellite markers in the tree peony, Paeonia suffruticosa (Paeoniaceae). American Journal of Botany, 97(6), e42.  
  27. Hua, X., & Wiens, J. J. (2010). Latitudinal variation in speciation mechanisms in frogs. Evolution, 64(2), 429-443.  
  28. Hugo, L. E., Cook, P. E., Johnson, P. H., Rapley, L. P., Kay, B. H., Ryan, P. A., Ritchie, S. A., et al. (2010). Field Validation of a Transcriptional Assay for the Prediction of Age of Uncaged Aedes aegypti Mosquitoes in Northern Australia.  
  29. Ikenaga, M., Guevara, R., Dean, A. L., Pisani, C., & Boyer, J. N. (2010). Changes in Community Structure of Sediment Bacteria Along the Florida Coastal Everglades MarshÔÇôMangroveÔÇôSeagrass Salinity Gradient. Microbial Ecology, 59(2), 284-295.  
  30. Jensen, L. T., Cockerell, F. E., Kristensen, T. N., Rako, L., Loeschcke, V., McKechnie, S. W., & Hoffmann, A. A. (2010). Adult heat tolerance variation in Drosophila melanogaster is not related to Hsp70 expression. Journal of Experimental Zoology Part A: Ecological Genetics and Physiology, 313(1), 35-44.  
  31. Karlsson, S., Moen, T., & Hindar, K. (2010). Contrasting patterns of gene diversity between microsatellites and mitochondrial SNPs in farm and wild Atlantic salmon. Conservation Genetics, 11(2), 571-582.  
  32. Katagiri, S., & Oliveira-Sequeira, T. (2010). Comparison of three concentration methods for the recovery of canine intestinal parasites from stool samples. Experimental Parasitology, 126(2), 214-216. doi:10.1016/j.exppara.2010.04.027  
  33. Kitcharoen, N., Koonawootrittiron, S., & Na-Nakorn, U. (2010). Selection of brooders from early maturing freshwater prawns (Macrobrachium rosenbergii) results in faster growth rates of offspring than in those selected from late maturing prawns. Aquaculture, 306(1-4), 362-364.  
  34. Lachish, S., Miller, K. J., Storfer, A., Goldizen, A. W., & Jones, M. E. (2010). Evidence that disease-induced population decline changes genetic structure and alters dispersal patterns in the Tasmanian devil. Heredity. Retrieved from http://dx.doi.org/10.1038/hdy.2010.17  
  35. Latta, S. C., & Ricklefs, R. E. (2010). Prevalence patterns of avian haemosporida on Hispaniola. Journal of Avian Biology, 41(1), 25-33.  
  36. Lebigre, C., Alatalo, R. V., & Siitari, H. (2010). Female-biased dispersal alone can reduce the occurrence of inbreeding in black grouse (Tetrao tetrix). Molecular Ecology, 19(9), 1929-1939.  
  37. Logue, D. M., Abiola, I. O., Rains, D., Bailey, N. W., Zuk, M., & Cade, W. H. (2010). Does signalling mitigate the cost of agonistic interactions? A test in a cricket that has lost its song. Proceedings of the Royal Society B, In press.  
  38. Luo, S. X., Chaw, S. M., Zhang, D., & Renner, S. S. (2010). Flower heating following anthesis and the evolution of gall midge pollination in Schisandraceae. American Journal of Botany, 97(7), 1220.  
  39. Maley, J. M., & Winker, K. (2010). Diversification at high latitudes: speciation of buntings in the genus Plectrophenax inferred from mitochondrial and nuclear markers. Molecular Ecology, 9999(9999).  
  40. Marino, I. A. M., Barbisan, F., Gennari, M., Giomi, F., Beltramini, M., Bisol, P. M., & Zane, L. (2010). Genetic heterogeneity in populations of the Mediterranean shore crab, Carcinus aestuarii (Decapoda, Portunidae), from the Venice Lagoon. Estuarine, Coastal and Shelf Science.  
  41. Martin, P., Stur, E., & Wiedenbrug, S. (2010). Larval parasitism of spring-dwelling alpine water mites (Hydrachnidia, Acari): a study with particular reference to chironomid hosts. Aquatic Ecology, 44(2), 431-448.  
  42. von May, R., Jacobs, J. M., Santa-Cruz, R., Valdivia, J., Huam├ín, J. M., & Donnelly, M. A. (2010). Amphibian community structure as a function of forest type in Amazonian Peru. Journal of Tropical Ecology, 26(05), 509-519.  
  43. Mazza, T., Iaccarino, G., & Priami, C. (2010). Snazer: the simulations and networks analyzer. BMC Systems Biology, 4(1), 1.  
  44. McGoey, B. (2010a). The Effects of Competitive Context on Shade Avoidance Syndrome Evolution in Impatiens Capensis.  
  45. McGoey, B. (2010b). The Effects of Competitive Context on Shade Avoidance Syndrome Evolution in Impatiens Capensis. University of Toronto, Ecology and Evolutionary Biology. Retrieved from http://hdl.handle.net/1807/18912  
  46. McMurray, S. E., Henkel, T. P., & Pawlik, J. R. (2010). Demographics of increasing populations of the giant barrel sponge Xestospongia muta in the Florida Keys. Ecology, 91(2), 560-570.  
  47. Mora, M., Mapelli, F., Gaggiotti, O., Kittlein, M., & Lessa, E. (2010). Dispersal and population structure at different spatial scales in the subterranean rodent Ctenomys australis. BMC genetics, 11(1), 9.  
  48. Mur├║a, M., Espinoza, C., Bustamante, R., Mar├¡n, V. H., & Medel, R. (2010). Does human-induced habitat transformation modify pollinator-mediated selection? A case study in Viola portalesia (Violaceae). Oecologia, 163(1), 153-162.  
  49. Orjuela-Sanchez, P., Karunaweera, N. D., da Silva-Nunes, M., da Silva, N. S., Scopel, K. K. G., Goncalves, R. M., Amaratunga, C., et al. (2010). Single-nucleotide polymorphism, linkage disequilibrium and geographic structure in the malaria parasite Plasmodium vivax: prospects for genome-wide association studies. BMC genetics, 11(1), 65.  
  50. P├®rez, C. A., Carmona, M. R., Fari a, J. M., & Armesto, J. J. (2010). Effects of nitrate and labile carbon on denitrification of southern temperate forest soils. Chilean Journal of Agricultural Research, 70(2), 251-258.  
  51. Peterson, D. P., Rieman, B. E., Young, M. K., & Brammer, J. A. (2010). Modeling predicts that redd trampling by cattle may contribute to population declines of native trout. Ecological Applications, 20(4), 954-966.  
  52. Polman, A. (2010). Dysfunctional beliefs in the understanding & treatment of obsessive- compulsive disorder. Rijksuniversiteit Groningen.  
  53. Presciuttini, S., Valbonesi, A., Apaza, N., Antonini, M., Huanca, T., & Renieri, C. (2010). Fleece variation in alpaca (Vicugna pacos): a two-locus model for the Suri/Huacaya phenotype. BMC genetics, 11(1), 70.  
  54. Punzalan, D., Rodd, F. H., & Rowe, L. (2010). Temporally variable multivariate sexual selection on sexually dimorphic traits in a wild insect population. American Naturalist, 175, 000.  
  55. Rees, S. D., Orledge, G. M., Bruford, M. W., & Bourke, A. F. G. (2010). Genetic structure of the Black Bog Ant (Formica picea Nylander) in the United Kingdom. Conservation Genetics, 11(3), 823-834.  
  56. Ricklefs, R. E. (2010). Colonization of the Lesser Antilles by land birds. Ecology, 91(6), 1811-1821.  
  57. Ricotta, C., Godefroid, S., & Rocchini, D. (2010). Patterns of native and exotic species richness in the urban flora of Brussels: rejecting the ÔÇÿrich get richerÔÇÖmodel. Biological Invasions, 12(1), 233-240.  
  58. Roche, E. A. (2010). Population demography of the Great Lakes piping plover. University of Minnesota.  
  59. Rodger, J. G., van Kleunen, M., & Johnson, S. D. (2010). Does Specialized Pollination Impede Plant Invasions? Int. J Plant Sci, 171(4), 382-391.  
  60. Sakaris, P. C., & Irwin, E. R. (2010). Tuning stochastic matrix models with hydrologic data to predict the population dynamics of a riverine fish. Ecological Applications, 20(2), 483-496.  
  61. Salguero-G├│mez, R., & Casper, B. B. (2010). Keeping plant shrinkage in the demographic loop. Journal of Ecology, 98(2), 312-323.  
  62. S├ínchez-Gallen, I., ├ülvarez-S├ínchez, F. J., & Ben├¡tez-Malvido, J. (2010). Structure of the advanced regeneration community in tropical rain forest fragments of Los Tuxtlas, Mexico. Biological Conservation, 143(9), 2111-2118.  
  63. Santos, J. M. L., Dantas-Torres, F., Mattos, M. R. F., Lino, F. R. L., Andrade, L. S. S., Souza, R. C. A., Brito, F. L. C., et al. (2010). Prevalence of anti-Leishmania spp antibodies in dogs from Garanhuns, in the middle scrub zone (Agreste) of Pernambuco. Revista da Sociedade Brasileira de Medicina Tropical, 43, 41-45.  
  64. SLABBERT, E., KONGOR, R., ESLER, K., & JACOBS, K. (2010). Microbial diversity and community structure in Fynbos soil. Molecular Ecology, 19(5), 1031-1041.  
  65. Small, S. T., & Wares, J. P. (2010). Phylogeography and marine retention. Journal of Biogeography, 37(4), 781-784.  
  66. Smith, D. (2010). Movement, growth and stock assessment of the coastal fish Lichia amia (Teleostei: carangidae) off the South African coast.  
  67. Spencer, R. J., & Janzen, F. J. (2010). Demographic consequences of adaptive growth and the ramifications for conservation of long-lived organisms. Biological Conservation.  
  68. Spoelman, M., & Verspoor, M. (2010). Dynamic Patterns in Development of Accuracy and Complexity: A Longitudinal Case Study in the Acquisition of Finnish. Applied Linguistics, 31(4), 532-553. doi:10.1093/applin/amq001  
  69. Swatdipong, A., Primmer, C. R., & Vasem├ñgi, A. (2010). Historical and recent genetic bottlenecks in European grayling, Thymallus thymallus. Conservation Genetics, 11(1), 279-292.  
  70. Veenstra, B., van der Meulen, B., & van Geert, P. (2010). Educational computer games focused on self-regulation as a procedure to predict and improve preschoolersÔÇÖ ineffective learning behavior. Articles ├®valu├®s/Refereed Papers, 21, 441.  
  71. White, S. C., Jefferson, E., & Levy, J. K. (2010). Impact of Publicly Sponsored Neutering Programs on Animal Population Dynamics at Animal Shelters: The New Hampshire and Austin Experiences. Journal of Applied Animal Welfare Science, 13(3), 191-212.  
  72. Wright, L. P., Davis, A. J., Wingfield, B. D., Crous, P. W., Brenneman, T., & Wingfield, M. J. (2010). Population structure of Cylindrocladium parasiticum infecting peanuts (Arachis hypogaea) in Georgia, USA. European Journal of Plant Pathology, 127(2), 199-206.  
  73. YAMAGUCHI, N., HUPP, J., HIGUCHI, H., FLINT, P., & PEARCE, J. (2010). Satellite-tracking of Northern Pintail Anas acuta during outbreaks of the H5N1 virus in Japan: implications for virus spread. Ibis, 152(2), 262-271.  
  74. Young, N. M., Wagner, G. P., & Hallgr├¡msson, B. (2010). Development and the evolvability of human limbs. Proceedings of the National Academy of Sciences, 107(8), 3400.  
  75. Zielonka, T., Holeksa, J., Fleischer, P., & Kapusta, P. (2010). A tree-ring reconstruction of wind disturbances in a forest of the Slovakian Tatra Mountains, Western Carpathians. Journal of Vegetation Science, 21(1), 31-42.  
  76. Zohar, Y., Di Stefano, J., & Bartle, J. (2010). Strategy for screening eucalypts for saline lands. Agroforestry systems, 78(2), 127-137.  
  77. Zuidema, P. A., Jongejans, E., Chien, P. D., During, H. J., & Schieving, F. (2010). Integral Projection Models for trees: a new parameterization method and a validation of model output. Journal of Ecology, 98(2), 345-355.  
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