PublicationsList

shawnlaffan edited this page Oct 3, 2018 · 117 revisions

Primary citation

To cite Biodiverse or acknowledge its use, cite this publication as follows, substituting the version of the application that you used for "Version 1.0".

Article access is free from the publisher, but an alternate link is http://handle.unsw.edu.au/1959.4/45539 .

Publications citing Biodiverse

A list of articles citing the paper describing Biodiverse can be found here. It is perhaps more interesting, though, to see what applications it has been used for. The list below is a curated list of such publications.

Publications using Biodiverse (or its ancestors)

Publications are listed in reverse chronological order by year, then by author within years.

in press/recent

  • Garcia–R, J.C., Gonzalez-Orozco, C.E. and Trewick, S.A. (in press) Contrasting patterns of diversification in a bird family (Aves: Gruiformes: Rallidae) are revealed by analysis of geospatial distribution of species and phylogenetic diversity. Ecography.

  • Crouch, N.M.A., Capurucho, J.M.G., Hackett, S.J. and Bates, J.M. (in press) Evaluating the contribution of dispersal to community structure in Neotropical passerine birds. Ecography.

  • López-Aguirre, C., Archer, M., Hand, S.J. and Laffan, S.W. (in press) Phylogenetic diversity, types of endemism and the evolutionary history of New World bats. Ecography.

2018

  • Bloomfield, N.J., Knerr, N. and Encinas-Viso, F. (2018) A comparison of network and clustering methods to detect biogeographical regions. Ecography, 41, 1-10.

  • Carta, A., Pierini, B., Roma-Marzio, F., Bedini, G. and Peruzzi, L. (2018) Phylogenetic measures of biodiversity uncover pteridophyte centres of diversity and hotspots in Tuscany. Plant Biosystems, 152, 831-839.

  • Dalrymple, R.L., Kemp, D.J., Laffan, S.W., White, T.E., Flores-Moreno, H., Hemmings, F.A., Hitchcock, T.D., & Moles, A.T. (2018) Abiotic and biotic predictors of macroecological patterns in bird and butterfly coloration. Ecological Monographs, 88, 204-224.

  • Di Virgilio, G., Wardell-Johnson, G.W., Robinson, T.P., Temple-Smith, D., Hesforde, J. (2018) Characterising fine-scale variation in plant species richness and endemism across topographically complex, semi-arid landscapes. Journal of Arid Environments, 156, 59-68.

  • Elliott, M.J., Knerr, N.J. and Schmidt-Lebuhn, A.N. (2018) Choice between phylogram and chronogram can have a dramatic impact on the location of phylogenetic diversity hotspots. Journal of Biogeography, 45, 2190-2201.

  • Guedes, T.B., Sawaya, R.J., Zizka, A., Laffan, S.W., Faurby, S., Pyron, A., Bérnils, R.S., Jansen, M., Passos, P., Prudente, A.L.C., Cisneros-Heredia, D.F., Braz, H.B., Nogueira, C.d.C., & Antonelli, A. (2018) Patterns, biases and prospects in the distribution and diversity of Neotropical snakes. Global Ecology and Biogeography, 27, 14-21.

  • Link-Pérez, M.A. and Laffan, S.W. (2018) Fern and lycophyte diversity in the Pacific Northwest: Patterns and predictors. Journal of Systematics and Evolution, 56, 498-522.

  • Orsenigo, S. et al. (2018) Red Listing plants under full national responsibility: Extinction risk and threats in the vascular flora endemic to Italy. Biological Conservation, 224, 213-222.

  • Sosa, V., De-Nova, J.A. and Vásquez-Cruz, M. (2018) Evolutionary history of the flora of Mexico: Dry forests cradles and museums of endemism. Journal of Systematics and Evolution, 56, 523-536.

  • Spalink, D., Pender, J., Escudero, M., Hipp, A.L., Roalson, E.H., Starr, J.R., Waterway, M.J., Bohs, L. and Sytsma, K.J. (2018) The spatial structure of phylogenetic and functional diversity in the United States and Canada: An example using the sedge family (Cyperaceae). Journal of Systematics and Evolution, 56, 449-465.

  • Yap, J-YS., Rossetto, M., Costion, C., et al. (2018) Filters of floristic exchange: How traits and climate shape the rain forest invasion of Sahul from Sunda. Journal of Biogeography, 25, 838-847.

  • Zhang, H., Bonser, S. P., Chen, S.-C., Hitchcock, T. and Moles, A. T. (2018) Is the proportion of clonal species higher at higher latitudes in Australia? Austral Ecology, 43, 69-75.

2017

  • Baldwin, B.G., Thornhill, A.H., Freyman, W.A., Ackerly, D.D., Kling, M.M., Morueta-Holme, N. and Mishler, B.D. (2017) Species richness and endemism in the native flora of California. American Journal of Botany, 104, 487-501.

  • Bui, E.N., Thornhill, A.H., Gonzalez-Orozco, C.E., Knerr, N. and Miller, J.T. (2017) Climate and geochemistry as drivers of eucalypt diversification in Australia. Geobiology, 15, 427-440.

  • Cassis, G., Laffan, S.W. and Ebach, M.C. (2017) Biodiversity and bioregionalisation perspectives on the historical biogeography of Australia. In Ebach, M.C (ed) Handbook of Australasian Biogeography, ch 1, pp 1-16.

  • Chen, S-C, Cornwell, W.K., Zhang, H-X and Moles, A.T. (2017) Plants show more flesh in the tropics: variation in fruit type along latitudinal and climatic gradients. Ecography, 14, 531–538.

  • Di Virgilio, G., Laffan, S.W., Nielsen, S.V. and Chapple, D.G. (2017) Does range-restricted evolutionary history predict extinction risk? A case study in lizards. Journal of Biogeography, 44, 605-614.

  • Heenan, P.B., Millar, T.R., Smissen, R.D., McGlone, M.S. and Wilton, A.D. (2017) Phylogenetic measures of neo- and palaeo-endemism in the indigenous vascular flora of the New Zealand archipelago. Australian Systematic Botany, 30, 124-133

  • Millar, T.R., Heenan, P.B., Wilton, A.D., Smissen, R.D. and Breitwieser, I. (2017) Spatial distribution of species, genus and phylogenetic endemism in the vascular flora of New Zealand, and implications for conservation. Australian Systematic Botany, 30, 134-147

  • Prentice, E., Knerr, N., Schmidt-Lebuhn, A.N., González-Orozco, C.E., Bui, E.N., Laffan, S. and Miller, J.T. (2017) Do soil and climate properties drive biogeography of the Australian proteaceae? Plant and Soil, 417, 317-329.

  • Santos, A.P.B, Bitencourt, C. and Rapini, A. (2017) Distribution patterns of Kielmeyera (Calophyllaceae): the Rio Doce basin emerges as a confluent area between the northern and southern Atlantic Forest. Neotropical Biodiversity, 3, 1-9.

  • Scherson, R.A., Thornhill, A.H., Urbina-Casanova, R., Freyman, W.A., Pliscoff, P.A. and Mishler, B.D. (2017) Spatial phylogenetics of the vascular flora of Chile. Molecular Phylogenetics and Evolution, 112, 88-95.

  • Thornhill, A.H., Baldwin, B.G., Freyman, W.A., Nosratinia, S., Kling, M.M., Morueta-Holme, N., Madsen, T.P., Ackerly, D.D. and Mishler, B.D. (2017) Spatial phylogenetics of the native California flora. BMC Biology 15, 96.

  • Tindall, M.L., Thomson, F.J., Laffan, S.W., and Moles, A.T. (2017) Is there a latitudinal gradient in the proportion of species with spinescence? Journal of Plant Ecology, 10, 294-300.

  • Yu, F., Skidmore, A.K., Wang, T., Huang, J., Ma, K and Groen, T.A. (2017) Rhododendron diversity patterns and priority conservation areas in China. Diversity and Distributions, 23, 1143–1156.

  • Zhang, H. and Zhang, M. (2017) Spatial patterns of species diversity and phylogenetic structure of plant communities in the Tianshan Mountains, Arid Central Asia. Frontiers in Plant Science, 8, 2134.

2016

  • Ceccarelli, F.S., Ojanguren-Affilastro, A.A., Ramírez, M.J., Ochoa, J.A., Mattoni, C.I. and Prendini, L. (2016) Andean uplift drives diversification of the bothriurid scorpion genus Brachistosternus. Journal of Biogeography, 43, 1942-1954.

  • Daru, B.H. and le Roux, P.C. (2016) Marine protected areas are insufficient to conserve global marine plant diversity. Global Ecology and Biogeography, 25, 324-334.

  • Dowding, E. and Ebach, M. (2016) The Early Devonian palaeobiogeography of Eastern Australasia. Palaeogeography, Palaeoclimatology, Palaeoecology, 444, 39–47.

  • Fagúndez, J. & Izco, J. (2016) Diversity patterns of plant place names reveal connections with environmental and social factors. Applied Geography, 74, 23-29.

  • González-Ávila, P.A., Luna-Vega, I., García-Sandoval, R. and Contreras-Medina, R. (2016) Distributional patterns of the Order Gomphales (Fungi: Basidiomycota) in Mexico. Tropical Conservation Science, 9, 1940082916667140.

  • González-Orozco, C.E., Pollock, L.J., Knerr, N., Mishler, B.D., Miller, J.T., Laffan, S.W., Thornhill, A.H., Rosauer, D.F., Faith, D., Nipperess, D., Kujala, H., Linke, S. and Gruber, B. (2016) Phylogenetic approaches reveal biodiversity threats under climate change. Nature Climate Change, 6, 1110-1114.

  • Hallgren, W., Beaumont, L., Bowness, A., Chambers, L., Graham, E., Holewa, H., Laffan, S., Mackey, B., Nix, H., Vanderwal, J., Warren, R. & Weis, G. (2016) The Biodiversity and Climate Change Virtual Laboratory: Where Ecology meets Big Data. Environmental Modelling and Software, 76, 182-186.

  • Kaczmarek, Ł., Gołdyn, B., Mcinnes, S.J. and Michalczyk, Ł (2016) Diversity of limno-terrestrial tardigrades of the Americas in relation to the Great American Biotic Interchange hypothesis (GABI). Zoological Journal of the Linnean Society, 178, 737–746.

  • Laffan, S.W., Rosauer, D.F., Di Virgilio, G., Miller, J.T., Gonzales-Orozco, C., Knerr, N., Thornhill, A. & Mishler, B.D. (2016) Range-weighted metrics of species and phylogenetic turnover can better resolve biogeographic breaks and boundaries. Methods in Ecology and Evolution, 7, 580-588.

  • Thornhill, A.H., Mishler, B.D., Knerr, N., González-Orozco, C.E., Costion, C., Crayn, D., Laffan, S.W. & Miller, J.T. (2016) Continental‐scale spatial phylogenetics of Australian angiosperms provides insights into ecology, evolution and conservation. Journal of Biogeography, 43, 2085–2098.

  • Tolley, K.A., Alexander, G.J., Branch, W.R., Bowles, P. and Maritz, B. (2016) Conservation Status and Threats for African Reptiles. Biological Conservation, 204, 63–71.

2015

  • Cook, L.G., Hardy, N.B. and Crisp, M.D. (2015) Three explanations for biodiversity hotspots: small range size, geographical overlap and time for species accumulation. An Australian case study. New Phytologist, 207, 390-400.

  • Costion, C.M., Edwards, W., Ford, A.J., Metcalfe, D.J., Cross, H.B., Harrington, M.G., Richardson, J.E., Hilbert, D.W., Lowe, A.J. and Crayn, D.M. (2015) Using phylogenetic diversity to identify ancient rain forest refugia and diversification zones in a biodiversity hotspot. Diversity and Distributions, 21, 279-289.

  • Dalrymple, R.L., Kemp, D.J., Flores-Moreno, H., Laffan, S.W., White, T.E., Hemmings, F.A., Tindall, M. and Moles, A.T. (2015) Birds, butterflies and flowers in the tropics are not more colourful than those in higher latitudes. Global Ecology and Biogeography, 24, 1424–1432.

  • Daru, B.H., van der Bank, M. and Davies, T.J. (2015) Spatial incongruence among hotspots and complementary areas of tree diversity in southern Africa. Diversity and Distributions, 21, 769-780.

  • Ebach, M.C., Murphy, D.J., González-Orozco, C.E. and Miller, J.T. (2015) A revised area taxonomy of phytogeographical regions within the Australian Bioregionalisation Atlas. Phytotaxa 208, 261–277.

  • González-Orozco, C.E., Mishler, B.D., Miller, J.T., Laffan, S.W., Knerr, N., Unmack, P., Georges, A., Thornhill, A.H., Rosauer, D.F. and Gruber, B. (2015) Assessing biodiversity and endemism using phylogenetic methods across multiple taxonomic groups. Ecology and Evolution, 5, 5177-5192

  • Laity, T., Laffan, S.W., González-Orozco, C.E., Faith, D.P., Rosauer, D.F., Byrne, M., Miller, J.T., Crayn, D., Costion, C., Moritz, C.C. and Newport, K. (2015) Phylodiversity to inform conservation policy: An Australian example. Science of the Total Environment, 534, 131-143.

  • Nagalingum, N.S., Knerr, N., Laffan, S., Gonzalez-Orozco, C., Thornhill, A., Miller, J.T. and Mishler, B.D. (2015) Continental scale patterns and predictors of fern richness and phylogenetic diversity. Frontiers in Genetics, 6, article 132.

  • Rosauer, D.F., Catullo, R.A., VanDerWal, J., Moussalli, A. and Moritz, C. (2015) Lineage range estimation method reveals fine-scale endemism linked to Pleistocene stability in Australian rainforest herpetofauna. PLoS One, 10, e0126274.

  • Rossetto, M., Kooyman, R.M., Yap, S. & Laffan, S.W. (2015) From ratites to rats: the size of fleshy fruits shapes species distributions and continental rainforest assembly. Proceedings of the Royal Society, B, 282, 20151998.

  • Sanginés-Franco, C., Luna-Vega, I., Contreras-Medina, R., Espinosa, D., Tejero-Díez, J.D and Rivas G. (2015) Diversity, endemism and conservation of ferns (Polypodiales) in the Mexican Mountain Component. Journal of Mountain Science, 12, 891-904.

  • Schmidt-Lebuhn, A.N., Knerr, N.J., Miller, J.T and Mishler, B.D. (2015) Phylogenetic diversity and endemism of Australian daisies (Asteraceae). Journal of Biogeography, 42, 1114–1122.

  • Stephenson, R.L., Power, M.J., Laffan, S.W. and Suthers, I.M. (2015) Tests of larval retention in a tidally energetic environment reveal the complexity of the spatial structure in herring populations. Fisheries Oceanography, 24, 553-570.

2014

  • Bui, E.N., González-Orozco, C.E. and Miller, J.T. (2014) Acacia, climate, and geochemistry in Australia. Plant and Soil, 381, 161-175.

  • Carnaval, A., Waltari, E., Rodrigues, M., Rosauer, D., VanDerWal, J., Damasceno, R., Prates, I., Strangas, M., Spanos, Z., Rivera, D.,Pie, M., Firkowski, C., Bornschein, M., Ribeiro, L. & Moritz, C. (2014) Prediction of phylogeographic endemism in an environmentally complex biome. Proceedings of the Royal Society B. 281, 20141461.

  • Di Virgilio, G. & Laffan, S.W. (2014) Using maps of continuous variation in species compositional turnover to supplement uniform polygon species range maps. International Journal of Geographical Information Science, 28, 1658-1673.

  • Di Virgilio, G., Laffan, S.W., Ebach, M.C. & Chapple, D.G. (2014) Spatial variation in the climatic predictors of species compositional turnover and endemism. Ecology and Evolution, 4, 3264–3278.

  • Fenker, J., Tedeschi, L.G., Pyron, R.A. and Nogueira, C. de C. (2014) Phylogenetic diversity, habitat loss and conservation in South American pitvipers (Crotalinae: Bothrops and Bothrocophias). Diversity and Distributions, 20, 1108–1119.

  • González-Orozco, C.E., Ebach, M.C., Laffan, S.W., Thornhill, A.H., Knerr, N., Schmidt-Lebuhn, A., Cargill, C.C., Clements, M., Nagalingum, N., Mishler, B.D. & Miller, J.T. (2014) Quantifying phytogeographical regions of Australia using geospatial turnover in species composition. PLoS One, 9, e92558.

  • González-Orozco, C.E., Thornhill, A.H., Knerr, N., Laffan, S.W. & Miller, J.T. (2014) Biogeographical regions and phytogeography of the eucalypts. Diversity and Distributions, 20, 46-58.

  • Kooyman, R.M., Wilf, P., Barreda, V.D., Carpenter, R.J., Jordan, G.J., Sniderman, J.M.K., Allen, A., Brodribb, T.J., Crayn, D., Feild, T.S., Laffan, S.W., Lusk, C., Rossetto, M. & Weston, P. (2014) Paleo-Antarctic Rainforest into the Modern Old World Tropics: the Rich Past and Threatened Future of the "Southern Wet Forest Survivors". American Journal of Botany, 101, 2121-2135.

  • Loader, S.P., Ceccarelli, F.S., Menegon, M., Howell, K.M., Kassahun, R., Mengistu, A.A., Saber, S.A., Gebresenbet, F., Sá, R., Davenport, T.R.B., Larson, J.G., Müller, H., Wilkinson, M. and Gower, D.J. (2014) Persistence and stability of Eastern Afromontane forests: evidence from brevicipitid frogs. Journal of Biogeography, 41, 1781–1792.

  • Mendoza, A.M. and Arita, H.T. (2014) Priority setting by sites and by species using rarity, richness and phylogenetic diversity: the case of neotropical glassfrogs (Anura: Centrolenidae) Biodiversity and Conservation, 23, 909-926.

  • Mishler, B.D., Knerr, N., González-Orozco, C.E., Thornhill, A.H., Laffan, S.W. & Miller, J.T. (2014) Phylogenetic measures of biodiversity and neo- and paleo-endemism in Australian Acacia. Nature Communications, 5, 4473.

  • Nagalingum, N.S., Knerr, N., Mishler, B.D. and D.C. Cargill (2014) Overlapping fern and bryophyte hotspots: assessing ferns as a predictor of bryophyte diversity. Telopea, 17, 383–392.

  • Perales, H. and Golicher, D. (2014) Mapping the Diversity of Maize Races in Mexico. PLoS ONE 9): e114657.

  • Rosauer, D.F., Ferrier, S., Williams, K.J., Manion, G, Keogh, S & Laffan, S.W. (2014) Phylogenetic Generalised Dissimilarity Modelling: a new approach to analysing and predicting spatial turnover in the phylogenetic composition of communities. Ecography, 37, 21-32.

  • Weber, L.C., VanDerWal, J., Schmidt, S., McDonald, W.J.F. & Shoo, L.P. (2014) Patterns of rain forest plant endemism in subtropical Australia relate to stable mesic refugia and species dispersal limitations. Journal of Biogeography, 41, 222-238.

2013

  • Bitencourt, C. & Rapinia, A. (2013) Centres of Endemism in the Espinhaço Range: identifying cradles and museums of Asclepiadoideae (Apocynaceae). Systematics and Biodiversity, 11, 525-536.

  • Di Virgilio, G., Laffan, S.W. & Ebach, M.C. (2013) Quantifying high resolution transitional breaks in plant and mammal distributions at regional extent and their association with climate, topography and geology. PLoS ONE, 8, e59227.

  • González-Orozco, C.E., Laffan, S.W., Knerr, N. & Miller, J.T. (2013) A biogeographic regionalisation of Australian Acacia species. Journal of Biogeography, 40, 2156-2166.

  • Kooyman, R.M., Rossetto, M., Sauquet, H. & Laffan, S.W. (2013) Landscape Patterns in Rainforest Phylogenetic Signal: Isolated Islands of Refugia or Structured Continental Distributions? PLoS One 8, e80685

  • Laffan, S.W., Ramp, D. & Roger, E. (2013) Using endemism to assess representation of protected areas – the family Myrtaceae in the Greater Blue Mountains World Heritage Area. Journal of Biogeography, 40, 570-578.

2012

  • Amboni, M. & Laffan, S.W. (2012) The effect of species range estimation methods on richness and phylogenetic diversity estimates: A comparison of four methods using Australian marsupials. International Journal of Geographical Information Science, 26, 2097-2109.

  • Burley, H.M., Laffan, S.W., & Williams, K.J. (2012) Spatial non-stationarity and anisotropy of compositional turnover in eastern Australian Myrtaceae species. International Journal of Geographical Information Science, 26, 2065-2081.

  • Di Virgilio, G., Laffan, S.W. & Ebach, M.C. (2012) Fine scale quantification of floral and faunal breaks and their geographic correlates, with an example from south-eastern Australia. Journal of Biogeography, 39, 1862-1876.

  • González-Orozco, C.E., Brown, A.H.D., Knerr, N., Miller, J.T. & Doyle, J.J. (2012) Hotspots of diversity of wild Australian soybean relatives and their conservation in situ. Conservation Genetics, 13, 1269-1281.

  • Ribeiro, P.L., Rapini, A, Silva, U.C.S., Konno, T.U.P., Damascena, L.S & van den Berg, C. (2012) Spatial analyses of the phylogenetic diversity of Minaria (Apocynaceae): assessing priority areas for conservation in the Espinhaço Range, Brazil. Systematics and Biodiversity, 10, 317-331.

  • Schmidt-Lebuhn, A.N., Knerr, N.J., González-Orozco, C.E. (2012) Distorted perception of the spatial distribution of plant diversity through uneven collecting efforts: the example of Asteraceae in Australia. Journal of Biogeography, 39, 2072-2080.

  • Stevenson, L.A., González-Orozco, C.E., Knerr, N., Cargill, D.C., Miller, J.T. (2012) Species richness and endemism of Australian bryophytes. Journal of Bryology, 34, 101-107.

2011 and earlier

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