References

Allen B, Kon M, Bar-Yam Y (2009) A new phylogenetic diversity measure generalizing the Shannon index and its application to phyllostomid bats. Am Nat 174:236–243

Alroy J (2010) The shifting balance of diversity among major marine animal groups. Science 329:1191–1194

Anderson MJ, Crist TO, Chase JM et al (2010) Navigating the multiple meanings of β diversity: a

roadmap for the practicing ecologist. Ecol Lett 14:19–28 Arrhenius O (1921) Species and area. J Ecol 9:95–99

Bininda-Emonds ORP, Cardillo M, Jones KE et al (2007) The delayed rise of present-day mammals. Nature 446:507–512

Bryant JA, Lamanna C, Morlon H et al (2008) Microbes on mountainsides: contrasting elevational patterns of bacterial and plant diversity. Proc Natl Acad Sci 105:11505–11511

Chao A, Jost L (2012) Coverage-based rarefaction and extrapolation: standardizing samples by completeness rather than size. Ecology 93:2533–2547

Chao A, Chiu CH, Jost L (2010) Phylogenetic diversity measures based on Hill numbers. Phil Trans R Soc B 365:3599–3609

Chiarucci A, Bacaro G, Rocchini D, Fattorini L (2008) Discovering and rediscovering the samplebased rarefaction formula in the ecological literature. Community Ecol 9:121–123

Colwell RK, Coddington J (1994) Estimating terrestrial biodiversity through extrapolation. Phil Trans R Soc B 345:101–118

Crist TO, Veech JA (2006) Additive partitioning of rarefaction curves and species-area relationships: unifying alpha, beta and gamma-diversity with sample size and habitat area. Ecol Lett 9:923–932

Davies TJ, Buckley LB (2012) Exploring the phylogenetic history of mammal species richness.

Glob Ecol Biogeogr 21:1096–1105

Davies RG, Orme CDL, Webster AJ et al (2007) Environmental predictors of global parrot (Aves: Psittaciformes) species richness and phylogenetic diversity. Glob Ecol Biogeogr 16:220–233

Davies TJ, Fritz SA, Grenyer R et al (2008) Phylogenetic trees and the future of mammalian biodiversity. Proc Natl Acad Sci 105(Suppl 1):11556–11563

Faith DP (1992) Conservation evaluation and phylogenetic diversity. Biol Conserv 61:1–10

Faith DP (2013) Biodiversity and evolutionary history: useful extensions of the PD phylogenetic diversity assessment framework. Ann N Y Acad Sci 1289:69–89

Faith DP, Reid CAM, Hunter J (2004) Integrating phylogenetic diversity, complementarity, and endemism for conservation assessment. Conserv Biol 18:255–261

Faith DP, Lozupone CA, Nipperess DA, Knight R (2009) The cladistic basis for the phylogenetic diversity (PD) measure links evolutionary features to environmental gradients and supports broad applications of microbial ecology's 'Phylogenetic Beta Diversity' framework. Int J Mol Sci 10:4723–4741

Ferrier S, Manion G, Elith J, Richardson K (2007) Using generalized dissimilarity modelling to analyse and predict patterns of beta diversity in regional biodiversity assessment. Divers Distrib 13:252–264

Flemons P, Guralnick R, Krieger J et al (2007) A web-based GIS tool for exploring the world's biodiversity: The Global Biodiversity Information Facility Mapping and Analysis Portal Application (GBIF-MAPA). Ecol Informa 2:49–60

Fritz SA, Bininda-Emonds ORP, Purvis A (2009) Geographical variation in predictors of mammalian extinction risk: big is bad, but only in the tropics. Ecol Lett 12:538–549

Good IJ (1953) The population frequencies of species and the estimation of population parameters.

Biometrika 40:237–264

Gotelli NJ, Colwell RK (2001) Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness. Ecol Lett 4:379–391

Helmus MR, Keller W, Paterson MJ et al (2010) Communities contain closely related species during ecosystem disturbance. Ecol Lett 13:162–174

Hurlbert S (1971) The nonconcept of species diversity: a critique and alternative parameters.

Ecology 52:577–586

Jetz W, Thomas GH, Joy JB et al (2012) The global diversity of birds in space and time. Nature 491:444–448

Jost L (2006) Entropy and diversity. Oikos 113:363–375

Jost L (2010) The relation between evenness and diversity. Diversity 2:207–232

Kobayashi S (1974) The species-area relation I. A model for discrete sampling. Res Popul Ecol 15:223–237

Kooyman RM, Rossetto M, Sauquet H, Laffan SW (2013) Landscape patterns in rainforest phylogenetic signal: isolated islands of refugia or structured continental distributions? PLoS One 8:e80685

Lande R (1996) Statistics and partitioning of species diversity, and similarity among multiple com-

munities. Oikos 76:5–13 Law B, Anderson J, Chidel M (1998) A bat survey in State Forests on the south-west slopes region

of New South Wales with suggestions of improvements for future surveys. Aust Zool 30:467–479

Lozupone CA, Knight R (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol 71:8228–8235

Lozupone CA, Knight R (2008) Species divergence and the measurement of microbial diversity.

FEMS Microbiol Rev 32:557–578

MacArthur RH, Wilson EO (1963) An equilibrium theory of insular zoogeography. Evolution 17:373–387

Mao C, Colwell RK, Chang J (2005) Estimating the species accumulation curve using mixtures.

Biometrics 61:433–441

Medellin RA, Equihua M, Amin M (2000) Bat diversity and abundance as indicators of disturbance in neotropical rainforests. Conserv Biol 14:1666–1675

Morlon H, Schwilk DW, Bryant JA et al (2011) Spatial patterns of phylogenetic diversity. Ecol Lett 14:141–149

Morton SR, Brown JH, Kelt DA, Reid JRW (1994) Comparisons of community structure among small mammals of North American and Australian deserts. Aust J Zool 42:501–525

Nipperess DA, Matsen FA IV (2013) The mean and variance of phylogenetic diversity under rarefaction. Methods Ecol Evol 4:566–572

Nipperess DA, Faith DP, Barton K (2010) Resemblance in phylogenetic diversity among ecological assemblages. J Veg Sci 21:809–820

O'Dwyer JP, Kembel SW, Green JL (2012) Phylogenetic diversity theory sheds light on the structure of microbial communities. PLoS Comput Biol 8:e1002832

Olson D, Dinerstein E, Wikramanayake E et al (2001) Terrestrial ecoregions of the world: a new map of life on Earth. Bioscience 51:933–938

Olszewski TD (2004) A unified mathematical framework for the measurement of richness and evenness within and among multiple communities. Oikos 104:377–387

Paradis E, Claude J, Strimmer K (2004) APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20:289–290

Pardi F, Goldman N (2007) Resource-aware taxon selection for maximizing phylogenetic diversity. Syst Biol 56:431–444

Petchey OL, Gaston KJ (2002) Functional diversity(FD), species richness and community composition. Ecol Lett 5:402–411

Proches S, Wilson J, Cowling R (2006) How much evolutionary history in a 10 x 10 plot? Proc R Soc B 273:1143–1148

R Core Team (2012) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL R-project.org/

Rao CR (1982) Diversity and dissimilarity coefficients: a unified approach. Theor Popul Biol 21:24–43

Rodrigues ASL, Gaston KJ (2002) Maximising phylogenetic diversity in the selection of networks of conservation areas. Biol Conserv 105:103–111

Rosauer DF, Mooers AO (2013) Nurturing the use of evolutionary diversity in nature conservation.

Trends Ecol Evol 28:322–323

Rosauer D, Laffan SW, Crisp MD et al (2009) Phylogenetic endemism: a new approach for identifying geographical concentrations of evolutionary history. Mol Ecol 18:4061–4072

Rosindell J, Hubbell SP, Etienne RS (2011) The unified neutral theory of biodiversity and biogeography at age ten. Trends Ecol Evol 26:340–348

Sanders HL (1968) Marine benthic diversity: a comparative study. Am Nat 102:243–282 Simberloff D (1972) Properties of the rarefaction diversity measurement. Am Nat 106:414–418 Swenson NG (2009) Phylogenetic resolution and quantifying the phylogenetic diversity and dis-

persion of communities. PLoS One 4:e4390

Tidemann CR, Woodside DP (1978) A collapsible bat-trap and a comparison of results obtained with the trap and with mist-nets. Wildl Res 5:355–362

Turnbaugh PJ, Hamady M, Yatsunenko T et al (2009) A core gut microbiome in obese and lean twins. Nature 457:480–484

Ugland K, Gray JS, Ellingsen KE (2003) The species-accumulation curve and estimation of species richness. J Anim Ecol 72:888–897

Webb CO (2000) Exploring the phylogenetic structure of ecological communities: an example for rain forest trees. Am Nat 156:145–155

Webb CO, Pitman N (2002) Phylogenetic balance and ecological evenness. Syst Biol 51:898–907

Webb CO, Ackerly DD, McPeek M, Donoghue MJ (2002) Phylogenies and community ecology.

Ann Rev Ecol Syst 33:475–505

Yu DW, Ji Y, Emerson BC, Wang X (2012) Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring. Methods Ecol Evol 3:613–623

 
< Prev   CONTENTS   Next >