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List of DOI of papers read in 2016
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365papers.md

365 Papers

Using the #365papers hashtag on Twitter to show the list of papers read in 2016

List

  1. James H. Brown, "Macroecology", The University of Chicago Press, 1995;
  2. Mislan et al., "Elevating The Status of Code in Ecology", TREE, Jan 2016 https://doi.org/10.1016/j.tree.2015.11.006;
  3. Morueta-Holme, Blonder et al., "A network approach for inferring species associations from co-occurrence data", Ecography 22 January 2016, https://doi.org/10.1111/ecog.01892;
  4. Schuldt et al., "Multitrophic diversity in a biodiverse forest is highly nonlinear across spatial scales", Nature Communications, 10 Dec 2015, https://doi.org/10.1038/ncomms10169;
  5. Isaac et al., "Mammals on the EDGE: Conservation Priorities Based on Threat and Phylogeny", PLoS ONE, March 2007 https://doi.org/10.1371/journal.pone.0000296;
  6. James S. Clark, "Why environmental scientists are becoming Bayesians", Ecology Letters, January 2005 https://doi.org/10.1111/j.1461-0248.2004.00702.x;
  7. Mori et al., "Academic inequality through the lens of community ecology: a meta-analysis", PeerJ, December 3, 2015 https://doi.org/10.7717/peerj.1457;
  8. Weigel et al., "Maintained functional diversity in benthic communities in spite of diverging functional identities", Oikos, Accepted https://doi.org/10.1111/oik.02894;
  9. Espeland & Emam, "The value of structuring rarity", Biodiversity and Conservation, February 2011, https://doi.org/10.1007/s10531-011-0007-2;
  10. Clavero, "‘‘Awkward wording. Rephrase’’: linguistic injustice in ecological journals", Trends in Ecology and Evolution, October 2010, https://doi.org/10.1016/j.tree.2010.07.001;
  11. Lefcheck & Duffy, "Multitrophic functional diversity predicts ecosystem functioning in experimental assemblages of estuarine consumers", Ecology, November 2015, https://doi.org/10.1890/14-1977.1;
  12. Karger et al., "Delineating probabilistic species pools in ecology and biogeography", Global Ecology and Biogeography, Early View, 2016 https://doi.org/10.1111/geb.12422;
  13. Díaz et al., "The global spectrum of plant form and function", Nature, 14 January 2016, https://doi.org/10.1038/nature16489;
  14. Guimerà & Amaral, "Functional cartography of complex metabolic networks", Nature, 24 February 2005, https://doi.org/10.1038/nature/03288;
  15. Munoz et al., "Estimating Parameters of Neutral Communities: From One Single Large to Several Small Samples", Ecology, 1 October 2007, https://doi.org/10.1890/07-0049.1;
  16. Munoz et al., "How do habitat filtering and niche conservatism affect community composition at different taxonomic resolutions?", Ecology, August 2014, https://doi.org/10.1890/13-0064.1;
  17. Rosindell et al., "A coalescence approach to spatial neutral ecology", Ecological Informatics, May 2008, https://doi.org/10.1016/j.ecoinf.2008.05.001;
  18. Carboni et al., "What it takes to invade grassland ecosystems: traits, introduction history and filtering processes", Ecology Letters, Early View, https://doi.org/10.1111/ele.12556;
  19. Gotelli & Ulrich, "Statistical challenges in null model analysis", Oikos, February 2012, https://doi.org/10.1111/j.1600-0706.2011.20301.x;
  20. Fayle & Manica, "Reducing over-reporting of deterministic co-occurrence patterns in biotic communities", Ecological Modelling, 24 september 2010, https://doi.org/10.1016/j.ecolmodel.2010.06.013;
  21. Gotelli & Ulrich, "Over-reporting bias in null model analysis: A response to Fayle and Manica (2010)", Ecological Modelling, 10 April 2011, https://doi.org/10.1016/j.ecolmodel.2010.11.008;
  22. Fayle & Manica, "Bias in null model analyses of species co-occurrence: a Response to Gotelli and Ulrich (2011)", Ecological Modelling, 10 April 2011, https://doi.org/10.1016/j.ecolmodel.2011.01.010;
  23. McNellie et al., "Pitfalls and possible solutions for using geo-referenced site data to inform vegetation models", Ecological Informatics, November 2015, https://doi.org/10.1016/j.ecoinf.2015.05.012;
  24. Ulrich et al., "Null model tests for niche sonervatism, phylogenetic assortment and habitat filtering", Methods in Ecology and Evolution, October 2012, https://doi.org/10.1111/j.2041-210X.2012.00217.x;
  25. Strona et al., "A fast and unbiased procedure to randomize ecological binary matrices with fixed row and column totals", Nature Communications, 11 June 2014, https://doi.org/10.1038/ncomms5114;
  26. Ulrich & Gotelli, "Pattern detection in null model analysis", Oikos, January 2013, https://doi.org/10.1111/j.1600-0706.2012.20325.x;
  27. Moles & Ollerton, "Is the Notion that Species Interactions are Stronger and more Specialized in the Tropics a Zombie Idea?", Biotropica, Early View, January 2016, https://doi.org/10.1111/btp.12281;
  28. Ulrich & Gotelli, "Null model analysis of species associations using abundance data", Ecology, November 2010, https://doi.org/10.1890/09-2157.1;
  29. Guilhaumon et al., "Representing taxonomic, phylogenetic and functional diversity: new challenges for Mediterranean marine-protected areas", Diversity and Distributions, February 2015, https://doi.org/10.1111/ddi.12280;
  30. Chan et al. "Opinion: Why protect nature? Rethinking values and the environment", PNAS, February 9 2016, https://doi.org/10.1073/pnas.1525002113;
  31. Carstensen et al. "Introducing the biogeographic species pool", Ecography, December 2013, https://doi.org/10.1111/j.1600-0587.2013.00329.x;
  32. Lessard et al. "Inferring local ecological processes amid species pool influences", Trends in Ecology & Evolution, November 2012, https://doi.org/10.1086/684128;
  33. Mazel et al. "Multifaceted diversity-area relationships reveal global hotspots of mammalian species, trait and lineage diversity", Global Ecology and Biogeography, August 2014, https://doi.org/10.1111/geb.12158;
  34. Strona & Veech, "A new measure of ecological network structure based on node overlap and segregation", Methods in Ecology and Evolution, August 2015, https://doi.org/10.1111/2041-210X.12395;
  35. Hart et al., "Ten simple rules for digital data storage", PeerJ Preprints, Preprint not peer-reviewed, https://doi.org/10.7287/peerj.preprints.1448v1;
  36. Cadotte, Albert & Walker, "The ecology of differences: assessing community assembly with trait and evolutionary distances", Ecology Letters, October 2013, https://doi.org/10.1111/ele.12161;
  37. Münkemüller et al., "How to measure and test phylogenetic signal", Methods in Ecology and Evolution, August 2012, https://doi.org/10.1111/j.2041-210X.2012.00196.x;
  38. Yenni, Adler & Ernets, "Do persistent rare species experience stronger negative frequency dependence than common species?", bioRXiv, 19 February 2016, Preprint not peer-reviewed, https://doi.org/10.1101/040360;
  39. Kraft et al., "Community assembly, coexistence and the environmental filtering metaphor", Functional Ecology, May 2015, https://doi.org/10.1111/1365-2435.12345;
  40. Shipley et al., "Reinforcing losse foundation stones in trait-based plant ecology", Oecologia, 21st January 2016, https://doi.org/10.1007/s00442-016-3549-x;
  41. Petchey & Gaston, "Functional diversity: back to basics and looking forward", Ecology Letters, June 2006, https://doi.org/10.1111/j.1461-0248.2006.00924.x;
  42. Pavoine, Ollier & Dufour, "Is the originality of a species measurable?", Ecology Letters, June 2005, https://doi.org/10.1111/j.1461-0248.2005.00752.x;
  43. Boettiger et al. "Building Software, Building Community: Lessons from the rOpenSci Project", Journal of Open Research Software, 2015, https://doi.org/10.5334/jors.bu;
  44. Májeková, Paal, Plowman et al. "Evaluating Functional Diversity: Missing Trait Data and the Importance of Species Abundance Structure and Data Transformation", PLoS One, 16th February 2016, https://doi.org/10.1371/journal.pone.0149270;
  45. Stearns, "Some Modest Advice for Graduate Students", Bulletin of the Ecological Society of America, June 1987, https://www.jstor.org/stable/20166580;
  46. Huey, "Reply to Stearns: some acynical advice for graduate students", Bulletin of the Ecological Society of America, June 1987, http://www.jstor.org/stable/20166581;
  47. Witz, "Some pragmatic advice to graduate students: a hybridization of Stearns, Huey, and Binkley", Bulletin of the Ecological Society of America, September 1994;
  48. Robertson, Visser & Hui, "Biogeo: an R package for assessing and improving data quality of occurrence record datasets", Ecography, February 2016, https://doi.org/10.1111/ecog.02118;
  49. Zizka & Antonelli, "speciesgeocodeR: An R package for linking species occurrences, user-defined regions and phylogenetic trees for biogeography, ecology and evolution", bioRXiv, 24th November 2015, Preprint not peer-reviewed, https://doi.org/10.1101/032755;
  50. Revell, "Phylogenetic signal and linear regression on species data", Methods in Ecology and Evolution, December 2010, https://doi.org/10.1111/j.2041-210X.2010.00044.x;
  51. Katz, "From research to manuscript: a guide to scientific writing", 2009, Springer Science & Business Media, https://doi.org/10.1007/978-1-4020-9467-5;
  52. Borregaard & Hart, "Towards a more reproducible Ecology", Ecography, 31 March 2016, https://doi.org/10.1111/ecog.02493;
  53. Poisot et al., "Synthetic datasets and community tools for the rapid testing of ecological hypotheses", Ecography, 16 November 2015, https://doi.org/10.1111/ecog.01941;
  54. Keyel & Wiegan, "Validating the use of Unique Trait Combinations for measuring multivariate functional richness", Methods in Ecology and Evolution, 22 February 2016, Early View, https://doi.org/10.1111/2041-210X.12558;
  55. Maire et al., "How accessible are coral reefs to people? A global assessment based on travel time", Ecology Letters, 15 February 2016, https://doi.org/10.1111/ele.12577/full;
  56. Bender et al., "Isolation drives taxonomic and functional nestedness in tropical reef fish faunas", Ecography, 15 March 2016, https://doi.org/10.1111/ecog.02293;
  57. Poesch, "To dendrogram or not? Consensus methods show that is the question needed to move functional diversity metrics forward", Ideas in Ecology and Evolution, 2015, https://doi.org/10.4033/iee.2015.8.12.n;
  58. Di Minin et al., "Global priorities for national carnivore conservation under land use change", Scientific Reports, 1 April 2016, https://doi.org/10.1038/srep23814;
  59. Pavoine & Bonsall, "Measuring biodiversity to explain community assembly: a unified approach", Biological Reviews, 14 December 2010, https://doi.org/10.1111/j.1469-185X.2010.00171.x;
  60. Solan et al. "Extinction and Ecosystem Function in the Marine Benthos", Science, 12 November 2004, https://doi.org/10.1126/science.1103960;
  61. Moore & Beckerman, "Ecology and Evolution in an Open World (or: why supplementary data are evil)", Ecology and Evolution, 28 March 2016, https://doi.org/10.1002/ece3.2101;
  62. Peterson et al., "Conservatism of Ecological Niches in Evolutionary Time", Science, 20 August 1999, https://doi.org/10.1126/science.285.5431.1265;
  63. Vane-Wright et al., "What to protect?—Systematics and the agony of choice", Biological Conservation, 1991, https://doi.org/10.1016/0006-3207(91)90030-D;
  64. Stuart-Smith et al., "Integrating abundance and functional traits reveals new global hotspots of fish diversity", Nature, 25 September 2013, https://doi.org/10.1038/nature12529;
  65. Leitão et al., "Rare species contribute disproportionately to the functional structure of species assemblages", Proceedings of the Royal Society B, 6 April 2016, https://doi.org/10.1098/rspb.2016.0084;
  66. Safi et al., "Global Patterns of Evolutionary Distinct and Globally Endangered Amphibians and Mammals", PLoS One, 2013, https://doi.org/10.1371/journal.pone.0063582;
  67. Breiner et al., "Overcoming limitations of modelling rare species by using ensembles of small modles", Methods in Ecology and Evolution, 1 June 2015, https://doi.org/10.1111/2041-210X.12403;
  68. Tittensor et al., "Global patterns and predictors of marine biodiversity across taxa", Nature, 28 July 2010, https://doi.org/10.1038/nature09329;
  69. Grenyer et al., "Global distribution and conservation of rare and threatened vertebrates", Nature, 2 November 2006, https://doi.org/10.1038/nature05237;
  70. Williams et al., "Ecological specialization and population size in a biodiversity hotspot: How rare species avoid extinction", PNAS, 17 November 2009, https://doi.org/10.1073/pnas.0901640106;
  71. Jarzyna & Jetz, "Detecting the Multiple Facets of Biodiversity", Trends in Ecology and Evolution, 8 May 2016, https://doi.org/10.1016/j.tree.2016.04.002;
  72. Meyer et al., "Multidimensional biases, gaps and uncertainties in global plant occurrence information", Ecology Letters, 2 June 2016, https://doi.org/10.1111/ele.12624;
  73. Munoz & Huneman, "From the neutral theory to a comprehensive and multiscale theory of ecological equivalence", The Quarterly Review of Biology, In press;
  74. Laughlin, "The intrinsic dimensionality of plant traits and its relevance to community assembly", Journal of Ecology, 22 November 2013, https://doi.org/10.1111/1365-2745.12187;
  75. Laughlin et al., "A predictive model of community assembly that incorporates intraspecific trait variation", Ecology Lettersn 21 August 2012, https://doi.org/10.1111/j.1461-0248.2012.01852.x
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