Seven Shortfalls that Beset Large-Scale Knowledge of Biodiversity

Annual Review of Ecology, Evolution, and Systematics

Volumn 46, Issue , 2015, Pages 523-549

  Hortal, Joaquín ^a,b,c   De Bello, Francesco ^d,e   Diniz Filho, José Alexandre F ^b   Lewinsohn, Thomas M ^f   Lobo, Jorge M ^a   Ladle, Richard J ^g,h  

^a MUSEO NACIONAL DE CIENCIAS NATURALES   (Spain)

^b FEDERAL UNIVERSITY OF GOIÁS   (Brazil)

^c UNIVERSITY OF LISBON   (Portugal)

^d INSTITUTE OF BOTANY   (Czech Republic)

^e UNIVERSITY OF SOUTH BOHEMIA   (Czech Republic)

^f UNIVERSITY OF CAMPINAS   (Brazil)

^g FEDERAL UNIVERSITY OF ALAGOAS   (Brazil)

^h UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

Bias; Biodiversity data; Functional ecology; Knowledge shortfalls; Macroecology; Scientific ignorance; Uncertainty

Indexed keywords

ABIOTIC FACTOR; BIODIVERSITY; COMMUNITY COMPOSITION; EVOLUTIONARY BIOLOGY; MACROECOLOGY; SPATIOTEMPORAL ANALYSIS; SPECIES DIVERSITY; TAXONOMY; UNCERTAINTY ANALYSIS;

GABAZA; HUTCHINSONIA; PRESTONIA;

EID: 84948960925     PISSN: 1543592X     EISSN: 15452069     Source Type: Book Series    
DOI: 10.1146/annurev-ecolsys-112414-054400     Document Type: Article

References (187)

1. Adler PB, Salguero-Gómez R, Compagnoni A, Hsu JS, Ray-Mukherjee J, et al. 2014. Functional traits explain variation in plant life history strategies. PNAS 111: 740-45
2. Albert CH, Thuiller W, Yoccoz NG, Douzet R, Aubert S, Lavorel S. 2010. A multi-trait approach reveals the structure and the relative importance of intra versus interspecific variability in plant traits. Funct. Ecol. 24: 1192-201
3. Alfaro ME, Santini F, Brock C, Alamillo H, Dornburg A, et al. 2009. Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates. PNAS 106: 13410-14
4. Antonelli A, Condamine FL, Hettling H, Nilsson K, Nilsson RH, et al. 2014. SUPERSMART: ecology and evolution in the era of big data. PeerJ PrePrints 2: e501v1
5. Baselga A, Lobo JM,Hortal J, Jiménez-Valverde A,Gómez JF. 2010. Assessingαandβtaxonomy in Eupelmid wasps: determinants of the probability of describing good species and synonyms. J. Zool. Syst. Evol. Res. 48: 40-49
6. Beale CM, Lennon JJ. 2012. Incorporating uncertainty in predictive species distribution modelling. Philos. Trans. R. Soc. B 367: 247-58
7. Beck J, Ballesteros-Mejia L, Buchmann CM, Dengler J, Fritz SA, et al. 2012. What's on the horizon for macroecology? Ecography 35: 673-83
8. Beck J, Kitching IJ. 2007. Estimating regional species richness of tropical insects from museum data: A comparison of a geography-based and sample-based methods. J. Appl. Ecol. 44: 672-81
9. Bini LM, Diniz-Filho JAF, Rangel TFLVB, Bastos RP, Pinto MP. 2006. Challenging Wallacean and Linnean shortfalls: knowledge gradients and conservation planning in a biodiversity hotspot. Divers. Distrib. 12: 475-82
10. Bininda-Emonds ORP, Cardillo M, Jones KE, MacPhee RDE, Beck RMD, et al. 2007. The delayed rise of present-day mammals. Nature 446: 507-12
11. Blomberg SP, Garland T, Ives AR. 2003. Testing for phylogenetic signal in comparative data: Behavioral traits are more labile. Evolution 57: 717-45
12. Blüthgen N, Fründ J, Vázquez DP, Menzel F. 2008. What do interaction network metrics tell us about specialization and biological traits. Ecology 89: 3387-99
13. Boakes EH, McGowan PJK, Fuller RA, Chang-qing D, ClarkNE, et al. 2010. Distorted views of biodiversity: spatial and temporal bias in species occurrence data. PLOS Biol. 8: e1000385
14. Boggs SW. 1949. An atlas of ignorance: A needed stimulus to honest thinking and hard work. Proc. Am. Philos. Soc. 93: 253-58
15. Boorstin DJ. 1983. The Discoverers: A History of Man's Search to Know His World and Himself. Los Angeles: The Publ. Mills
16. Boyce MS. 2006. Scale for resource selection functions. Divers. Distrib. 12: 269-76
17. Bozinovic F, Calosi P, Spicer JI. 2011. Physiological correlates of geographic range in animals. Annu. Rev. Ecol. Evol. Syst. 42: 155-79
18. Brown JH. 1984. On the relationship between abundance and distribution of species. Am. Nat. 124: 255-79
19. Brown JH, Lomolino MV. 1998. Biogeography. Sunderland, MA: Sinauer. 2nd ed.
20. Bush MB, Lovejoy TE. 2007. Amazonian conservation: pushing the limits of biogeographical knowledge. J. Biogeogr. 34: 1291-93
21. Cadotte M, Albert CH, Walker SC. 2013. The ecology of differences: assessing community assembly with trait and evolutionary distances. Ecol. Lett. 16: 1234-44
22. Cadotte MW, Dinnage R, Tilman D. 2012. Phylogenetic diversity promotes ecosystem stability. Ecology 93: S223-33
23. Caley MJ, Fisher R, Mengersen K. 2014. Global species richness estimates have not converged. Trends Ecol. Evol. 29: 187-88
24. Cardoso P, Erwin TL, Borges PA, New TR. 2011. The seven impediments in invertebrate conservation and how to overcome them. Biol. Conserv. 144: 2647-55
25. Caut S, Angulo E, Courchamp F. 2009. Variation in discrimination factors (15N and 13C): The effect of diet isotopic values and applications for diet reconstruction. J. Appl. Ecol. 46: 443-53
26. Celep F, Atalay Z, Dikmen F, Doʇan M, Classen-Bockhoff R. 2014. Flies as pollinators of melittophilous Salvia species (Lamiaceae). Am. J. Bot. 101: 2148-59
27. Chacoff NP, Vázquez D, Lomáscolo S, Stevani E, Dorado J, Padrón B. 2012. Evaluating sampling completeness in a desert plant-pollinator network. J. Anim. Ecol. 81: 190-200
28. Chapman AD. 2009. Numbers of Living Species in Australia and the World. Canberra, Aust.: Aust. Biol. Resour. Study. 2nd ed.
29. Clark JS. 2005. Why environmental scientists are becoming Bayesians. Ecol. Lett. 8: 2-14
30. Clark JS, Bjørnstad ON. 2004. Population time series: process variability, observation errors, missing values, lags, and hidden states. Ecology 85: 3140-50
31. Colwell RK, Rangel TF. 2009. Hutchinson's duality: The once and future niche. PNAS 106: 19651-58
32. Cordlandwehr V, Meredith RL, Ozinga WA, Bekker RM, van Groenendael JM, Bakker JP. 2013. Do plant traits retrieved from a database accurately predict on-site measurements? J. Ecol. 101: 662-70
33. Cornelissen JHC, Lavorel S, Garnier E, Diaz S, Buchmann N, et al. 2003. A handbook of protocols for standardised and easy measurement of plant functional traits worldwide. Aust. J. Bot. 51: 335-80
34. Costello MJ, May RM, Stork NE. 2013. Can we name Earth's species before they go extinct? Science 339: 413-16
35. Costello MJ, Wilson S, Houlding B. 2012. Predicting total global species richness using rates of species description and estimates of taxonomic effort. Syst. Biol. 61: 871-83
36. Dayrat B. 2005. Towards integrative taxonomy. Biol. J. Linn. Soc. 85: 407-15
37. de Bello F, Lavorel S, Díaz S, Harrington R, Cornelissen JC, et al. 2010. Towards an assessment of multiple ecosystem processes and services via functional traits. Biodivers. Conserv. 19: 2873-93
38. Deans AR, Lewis SE, Huala E, Anzaldo SS, Ashburner M, et al. 2015. Finding our way through phenotypes. PLOS Biol. 13: e1002033
39. Dennis R, Thomas C. 2000. Bias in butterfly distribution maps: The influence of hot spots and recorder's home range. J. Insect Conserv. 4: 73-77
40. Diamond SE, Nichols LM, McCoy N, Hirsch C, Pelini SL, et al. 2012. A physiological trait-based approach to predicting the responses of species to experimental climate warming. Ecology 93: 2305-12
41. Díaz S, Cabido M. 2001. Vive la differénce: Plant functional diversity matters to ecosystem processes. Trends Ecol. Evol. 16: 646-55
42. Díaz S, Lavorel S, de Bello F, Quétier F, Grigulis K, Robson TM. 2007. Incorporating plant functional diversity effects in ecosystem service assessments. PNAS 104: 20684-89
43. Díaz S, Purvis A, Cornelissen JHC, Mace GM, Donoghue MJ, et al. 2013. Functional traits, the phylogeny of function, and ecosystem service vulnerability. Ecol. Evol. 3: 2958-75
44. Diniz-Filho JAF, Bastos RP, Rangel TFLVB, Bini LM, Carvalho P, Silva RJ. 2005. Macroecological correlates and spatial patterns of anuran description dates in the Brazilian Cerrado. Glob. Ecol. Biogeogr. 14: 469-77
45. Diniz-Filho JAF, Bini LM, Hawkins BA. 2003. Spatial autocorrelation and red herrings in geographical ecology. Glob. Ecol. Biogeogr. 12: 53-64
46. Diniz-Filho JAF, Loyola RD, Raia P, Mooers AO, Bini LM. 2013. Darwinian shortfalls in biodiversity conservation. Trends Ecol. Evol. 28: 689-95
47. Dornburg A, Beaulieu JM, Oliver JC, Near TJ. 2011. Integrating fossil preservation biases in the selection of calibrations for molecular divergence time estimation. Syst. Biol. 60: 519-27
48. Drummond AJ, Rambaut A, Shapiro B, Pybus OG. 2005. Bayesian coalescent inference of past population dynamics from molecular sequences. Mol. Biol. Evol. 22: 1185-92
49. Dunne J, Williams R, Martinez N. 2004. Network structure and robustness of marine food webs. Mar. Ecol. Prog. Ser. 273: 291-302
50. Dunning JB, Stewart DJ, Danielson BJ, Noon BR, Root TL, et al. 1995. Spatially explicit population models: current forms and future uses. Ecol. Appl. 5: 3-11
51. Eastman JM, Alfaro ME, Joyce P, Hipp AL, Harmon LJ. 2011. A novel comparative method for identifying shifts in the rate of character evolution on trees. Evolution 65: 3578-89
52. Elith J, Leathwick J. 2007. Predicting species distributions from museum and herbarium records using multiresponse models fitted with multivariate adaptive regression splines. Divers. Distrib. 13: 265-75
53. Ellwood MDF, Foster WA. 2004. Doubling the estimate of invertebrate biomass in a rainforest canopy. Nature 429: 549-51
54. Faith D, Collen B, Ariño A, Koleff P, Guinotte J, et al. 2013. Bridging the biodiversity data gaps: recommendations to meet users' data needs. Biodivers. Inform. 8: 4126
55. Felsenstein J. 1985. Phylogenies and the comparative method. Am. Nat. 125: 1-15
56. Firestein S. 2012. Ignorance: How it Drives Science. Oxford, UK: Oxford Univ. Press
57. FitzJohn RG, Maddison WP, Otto SP. 2009. Estimating trait-dependent speciation and extinction rates from incompletely resolved phylogenies. Syst. Biol. 58: 595-611
58. Freckleton RP, Harvey PH, Pagel M. 2002. Phylogenetic analysis and comparative data: A test and review of evidence. Am. Nat. 160: 712-26
59. Garcillán PP, Ezcurra E. 2011. Sampling procedures and species estimation: testing the effectiveness of herbarium data against vegetation sampling in an oceanic island. J. Veg. Sci. 22: 273-80
60. Gaston KJ. 2003. The Structure and Dynamics of Geographic Ranges. Oxford, UK: Oxford Univ. Press
61. Gaston KJ, Blackburn TM. 1994. Are newly described bird species small-bodied? Biodivers. Lett. 2: 16-20
62. Gaston KJ, Rodrigues ASL. 2003. Reserve selection in regions with poor biological data. Conserv. Biol. 17: 188-95
63. Gibb H, Parr CL. 2013. Does structural complexity determine the morphology of assemblages? An experimental test on three continents. PLOS ONE 8: e64005
64. Gleason HA. 1926. The individualistic concept of the plant association. Bull. Torrey Bot. Club 53: 7-26
65. González-Varo JP, Arroyo JM, Jordano P. 2014. Who dispersed the seeds? The use of DNA barcoding in frugivory and seed dispersal studies. Methods Ecol. Evol. 5: 806-14
66. Gouveia SF, Hortal J, Tejedo M, Duarte H, Cassemiro FAS, et al. 2014. Climatic niche at physiological and macroecological scales: The thermal tolerance-geographical range interface and niche dimensionality. Glob. Ecol. Biogeogr. 23: 446-56
67. Hall BG. 2011. Phylogenetic Trees Made Easy: A How-to Manual. Sunderland, MA: Sinauer. 4th ed.
68. Hansen TF, Martins EP. 1996. Translating between microevolutionary process and macroevolutionary patterns: The correlation structure of interspecific data. Evolution 50: 1404-17
69. Hartley S, Kunin WE. 2003. Scale dependency of rarity, extinction risk, and conservation priority. Conserv. Biol. 17: 1559-70
70. Hebert PDN, Gregory TR. 2005. The promise of DNA barcoding for taxonomy. Syst. Biol. 54: 852-59
71. Hopkins GW, Freckleton RP. 2002. Declines in the numbers of amateur and professional taxonomists: implications for conservation. Anim. Conserv. 5: 245-49
72. Hopkins MJG. 2007. Modelling the known and unknown plant biodiversity of the Amazon Basin. J. Biogeogr. 34: 1400-11
73. Hortal J, Jiménez-Valverde A,Gómez JF, Lobo JM, Baselga A. 2008. Historical bias in biodiversity inventories affects the observed environmental niche of the species. Oikos 117: 847-58
74. Hortal J, Lobo JM. 2005. An ED-based protocol for optimal sampling of biodiversity. Biodivers. Conserv. 14: 2913-47
75. Hortal J, Lobo JM, Jimenez-Valverde A. 2007. Limitations of biodiversity databases: case study on seed-plant diversity in Tenerife, Canary Islands. Conserv. Biol. 21: 853-63
76. Huisman JM, Millar AJK. 2013. Australian seaweed collections: use and misuse. Phycologia 52: 2-5
77. Hutchinson GE. 1978. An Introduction to Population Biology. New Haven, CT: Yale Univ. Press
78. Inchausti P, Halley J. 2001. Investigating long-term ecological variability using the Global Population Dynamics Database. Science 293: 655-57
79. Ings TC, Montoya JM, Bascompte J, Blüthgen N, Brown L, et al. 2009. Ecological networks-beyond food webs. J. Anim. Ecol. 78: 253-69
80. IUCN (Int. Union Conserv. Nat.). 2011. IUCN Red List of Threatened Species. Gland, Switz.: IUCN
81. Jackson ST. 2012. Representation of flora and vegetation in Quaternary fossil assemblages: known and unknown knowns and unknowns. Quaternary Sci. Rev. 49: 1-15
82. JetzW,McPherson JM, Guralnick RP. 2012a. Integrating biodiversity distribution knowledge: toward a global map of life. Trends Ecol. Evol. 27: 151-59
83. Jetz W, Thomas GH, Joy JB, Hartmann K, Mooers AO. 2012b. The global diversity of birds in space and time. Nature 491: 444-48
84. Johansen B. 2007. Get There Early. Oakland, CA: Berrett-Koehler
85. Jorge LR, Prado PI, Almeida-Neto M, Lewinsohn TM. 2014. An integrated framework to improve the concept of resource specialisation. Ecol. Lett. 17: 1341-50
86. Kadmon R, Farber O, Danin A. 2004. Effect of roadside bias on the accuracy of predictive maps produced by bioclimatic models. Ecol. Appl. 14: 401-13
87. Kattge J, Díaz S, Lavorel S, Prentice IC, Leadley P, et al. 2011a. TRY-A global database of plant traits. Glob. Chang. Biol. 17: 2905-35
88. Kattge J, Ogle K, Bönisch G, Díaz S, Lavorel S, et al. 2011b. A generic structure for plant trait databases. Methods Ecol. Evol. 2: 202-13
89. Kingsolver JG, Hoekstra HE, Hoekstra JM, Berrigan D, Vignieri SN, et al. 2001. The strength of phenotypic selection in natural populations. Am. Nat. 157: 245-61
90. Knape J, de Valpine P. 2012. Are patterns of density dependence in the Global Population Dynamics Database driven by uncertainty about population abundance? Ecol. Lett. 15: 17-23
91. Kress WJ, García-Robledo C, Uriarte M, Erickson DL. 2015. DNA barcodes for ecology, evolution, and conservation. Trends Ecol. Evol. 30: 25-35
92. Ladle R, Hortal J. 2013. Mapping species distributions: living with uncertainty. Front. Biogeogr. 5: 8-9
93. Lambers H, Chapin FS III, Pons TL. 2008. Plant Physiological Ecology. New York: Springer-Verlag. 2nd ed.
94. Laughlin DC. 2014. The intrinsic dimensionality of plant traits and its relevance to community assembly. J. Ecol. 102: 186-93
95. Laughlin DC, Laughlin DE. 2013. Advances in modeling trait-based plant community assembly. Trends Plant Sci. 18: 584-93
96. Layman CA, Araujo MS, Boucek R, Hammerschlag-Peyer CM, Harrison E, et al. 2012. Applying stable isotopes to examine food-web structure: an overview of analytical tools. Biol. Rev. 87: 545-62
97. Lewinsohn TM, Inácio Prado P, Jordano P, Bascompte J, M Olesen J. 2006. Structure in plant-animal interaction assemblages. Oikos 113: 174-84
98. Löbl I, Leschen RAB. 2014. Misinterpreting global species numbers: examples from Coleoptera. Syst. Entomol. 39: 2-6
99. Lobo JM. 2001. Decline of roller dung beetle (Scarabaeinae) populations in the Iberian peninsula during the 20th century. Biol. Conserv. 97: 43-50
100. Lobo JM, Baselga A, Hortal J, Jiménez-Valverde A, Gómez JF. 2007. How does the knowledge about the spatial distribution of Iberian dung beetle species accumulate over time? Divers. Distrib. 13: 772-80
101. Logan ML, Cox RM, Calsbeek R. 2014. Natural selection on thermal performance in a novel thermal environment. PNAS 111: 14165-69
102. Loiselle BA, Jorgensen PM, Consiglio T, Jimenez I, Blake JG, et al. 2008. Predicting species distributions from herbarium collections: Does climate bias in collection sampling influence model outcomes? J. Biogeogr. 35: 105-16
103. Lomolino MV. 2004. Conservation biogeography. In Frontiers of Biogeography: New Directions in the Geography of Nature, ed. MV Lomolino, LR Heaney, pp. 293-96. Sunderland, MA: Sinauer
104. Losos JB. 2011. Seeing the forest for the trees: The limitations of phylogenies in comparative biology. Am. Nat. 177: 709-27
105. Lozier JD, Aniello P, Hickerson MJ. 2009. Predicting the distribution of Sasquatch in western North America: anything goes with ecological niche modelling. J. Biogeogr. 36: 1623-27
106. Lukoschek V, Scott Keogh J, Avise JC. 2012. Evaluating fossil calibrations for dating phylogenies in light of rates of molecular evolution: A comparison of three approaches. Syst. Biol. 61: 22-43
107. Mace GM. 2004. The role of taxonomy in species conservation. Philos. Trans. R. Soc. B 359: 711-19
108. Mace GM, Gittleman JL, Purvis A. 2003. Preserving the tree of life. Science 300: 1707-9
109. MacNally R, Fleishman E, Bulluck LP, Betrus CJ. 2004. Comparative influence of spatial scale on diversity within regional assemblages of birds and butterflies. J. Biogeogr. 31: 917-29
110. Marrero P, Fregel R, Cabrera VM, Nogales M. 2009. Extraction of high-quality host DNA from feces and regurgitated seeds: A useful tool for vertebrate ecological studies. Biol. Res. 42: 147-51
111. Martinez ND. 1993. Effects of resolution on food web structure. Oikos 66: 403-12
112. May RM. 2010. Tropical arthropod species, more or less? Science 329: 41-42
113. McCann S, Greenlees MJ, Newell D, Shine R. 2014. Rapid acclimation to cold allows the cane toad to invade montane areas within its Australian range. Funct. Ecol. 28: 1166-74
114. McCarthy MA, Franklin DC, Burgman MA. 1994. The importance of demographic uncertainty: an example from the helmeted honeyeater Lichenostomus melanops cassidix. Biol. Conserv. 67: 135-42
115. McGill BJ, Enquist BJ, Weiher E, Westoby M. 2006. Rebuilding community ecology from functional traits. Trends Ecol. Evol. 21: 178-85
116. McInerny GJ, Chen M, Freeman R, Gavaghan D, Meyer M, et al. 2014. Information visualisation for science and policy: engaging users and avoiding bias. Trends Ecol. Evol. 29: 148-57
117. McInerny GJ, Purves DW. 2011. Fine-scale environmental variation in species distribution modelling: regression dilution, latent variables and neighbourly advice. Methods Ecol. Evol. 2: 248-57
118. McLachlan AJ, Ladle RJ. 2011. Barriers to adaptive reasoning in community ecology. Biol. Rev. 86: 543-48
119. McPherson JM, Jetz W. 2007. Type and spatial structure of distribution data and the perceived determinants of geographical gradients in ecology: The species richness of African birds. Glob. Ecol. Biogeogr. 16: 657-67
120. Meyer C, Kreft H, Guralnick R, JetzW.2015. Global priorities for an effective information basis of biodiversity distributions. Nat. Commun. 6: 82221
121. Michener WK. 2000. Metadata. In Ecological Data: Design, Management and Processing, ed. WK Michener, J Brunt, pp. 92-116. London: Wiley-Blackwell
122. Mora C, Tittensor DP, Adl S, Simpson AG, Worm B. 2011. How many species are there on Earth and in the ocean? PLOS Biol. 9: e1001127
123. Morlon H. 2014. Phylogenetic approaches for studying diversification. Ecol. Lett. 17: 508-25
124. Nee S, May RM. 1997. Extinction and the loss of evolutionary history. Science 278: 692-94
125. Nee S, May RM, Harvey PH. 1994. The reconstructed evolutionary process. Philos. Trans. R. Soc. Lond. B 344: 305-11
126. Nelson BW, Ferreira CAC, da Silva MF, Kawasaki ML. 1990. Endemism centres, refugia and botanical collection density in Brazilian Amazonia. Nature 345: 714-16
127. Novotny V, Miller SE, Baje L, Balagawi S, Basset Y, et al. 2010. Guild-specific patterns of species richness and host specialization in plant-herbivore food webs from a tropical forest. J. Anim. Ecol. 79: 1193-203
128. Odegaard F. 2004. Species richness of phytophagous beetles in the tropical tree Brosimum utile (Moraceae): The effects of sampling strategy and the problem of tourists. Ecol. Entomol. 29: 76-88
129. Pauly D, Palomares M-L. 2005. Fishing down marine food web: It is far more pervasive than we thought. Bull. Mar. Sci. 76: 197-212
130. Pavoine S, Gasc A, Bonsall MB, Mason NWH. 2013. Correlations between phylogenetic and functional diversity: mathematical artefacts or true ecological and evolutionary processes? J. Veg. Sci. 24: 781-93
131. Pelayo-Villamil P, Guisande C, Vari RP, Manjarres-Hernandez A, Garcia-Rosello E, et al. 2015. Global diversity patterns of freshwater fishes.potential victims of their own success. Divers. Distrib. 21: 345-56
132. Peterson AT, Soberon J, Pearson RG, Anderson RP, Martinez-Meyer E, et al. 2011. Ecological Niches and Geographic Distributions. Princeton, NJ: Princeton Univ. Press
133. Petrou ZI, Kosmidou V, Manakos I, Stathaki T, Adamo M, et al. 2014. A rule-based classification methodology to handle uncertainty in habitat mapping employing evidential reasoning and fuzzy logic. Pattern Recognit. Lett. 48: 24-33
134. Pimm SL, Lawton JH, Cohen JE. 1991. Food web patterns and their consequences. Nature 350: 669-74
135. Pineda E, Lobo JM. 2012. The performance of range maps and species distribution models representing the geographic variation of species richness at different resolutions. Glob. Ecol. Biogeogr. 21: 935-44
136. Pinzón-Navarro S, Jurado-Rivera JA, Gomez-Zurita J, Lyal CHC, Vogler AP. 2010. DNA profiling of hostherbivore interactions in tropical forests. Syst. Entomol. 35: 18-32
137. Poelen JH, Simons JD, Mungall CJ. 2014. Global biotic interactions: an open infrastructure to share and analyze species-interaction datasets. Ecol. Inform. 24: 148-59
138. Poff NL, Olden JD, Vieira NKM, Finn DS, Simmons MP, Kondratieff BC. 2006. Functional trait niches of North American lotic insects: traits-based ecological applications in light of phylogenetic relationships. J. N. Am. Benthol. Soc. 25: 730-55
139. Poorter L, Wright SJ, Paz H, Ackerly D, Condit R, et al. 2008. Are functional traits good predictors of demographic rates? Evidence from five neotropical forests. Ecology 89: 1908-20
140. Post DM. 2002. Using stable isotopes to estimate trophic position: models, methods, and assumptions. Ecology 83: 703-18
141. Poulin B, Wright SJ, Lefebvre G, Calderon O. 1999. Interspecific synchrony and asynchrony in the fruiting phenologies of congeneric bird-dispersed plants in Panama. J. Trop. Ecol. 15: 213-27
142. Poulin R. 2010. Network analysis shining light on parasite ecology and diversity. Trends Parasitol. 26: 492-98
143. Prance GT. 1974. Phytogeographic support for the theory of Pleistocene forest refuges in the Amazon basin, based on evidence from distribution patterns in Caryocaraceae, Chrysobalanaceae, Dichapetalaceae and Lecythidaceae. Acta Amazonica 3: 5-28
144. Prasad S, Pittet A, Sukumar R. 2010. Who really ate the fruit? A novel approach to camera trapping for quantifying frugivory by ruminants. Ecol. Res. 25: 225-31
145. Pybus OG, Rambaut A, Harvey PH. 2000. An integrated framework for the inference of viral population history from reconstructed genealogies. Genetics 155: 1429-37
146. Pyron RA, Wiens JJ. 2011. A large-scale phylogeny of Amphibia including over 2800 species, and a revised classification of extant frogs, salamanders, and caecilians. Mol. Phylogenet. Evol. 61: 543-83
147. Raffaelli D, Hall SJ. 1992. Compartments and predation in an estuarine food web. J. Anim. Ecol. 61: 551-60
148. Raxworthy CJ, Martínez-Meyer E, Horning N, Nussbaum RA, Schneider GE, et al. 2003. Predicting distributions of known and unknown reptile species in Madagascar. Nature 426: 837-41
149. Reed DH, O'Grady JJ, Brook BW, Ballou JD, Frankham R. 2003. Estimates of minimum viable population sizes for vertebrates and factors influencing those estimates. Biol. Conserv. 113: 23-34
150. Rex MA, Etter RJ. 2010. Deep-Sea Biodiversity: Pattern and Scale. Cambridge, MA: Harvard Univ. Press
151. Rich TCG. 2006. Floristic changes in vascular plants in the British Isles: geographical and temporal variation in botanical activity 1836-1988. Bot. J. Linn. Soc. 152: 303-30
152. Ricklefs RE. 2012. Species richness and morphological diversity of passerine birds. PNAS 109: 14482-87
153. Riddle BR, LadleRJ, Lourie SA, WhittakerRJ. 2011. Basic biogeography: estimating biodiversity and mapping nature. In Conservation Biogeography, ed. RJ Ladle, RJ Whittaker, pp. 45-92. Oxford, UK: Wiley
154. Rocchini D,Hortal J, Lengyel S, Lobo JM, Jimenez-Valverde A, et al. 2011. Accounting for uncertainty when mapping species distributions: The need for maps of ignorance. Prog. Phys. Geogr. 35: 211-26
155. Rodrigues ASL, Andelman SJ, Bakarr MI, Boitani L, Brooks TM, et al. 2004. Effectiveness of the global protected area network in representing species diversity. Nature 428: 640-43
156. Rodrigues ASL, Gray CL, Crowter BJ, Ewers RM, Stuart SN, et al. 2010. A global assessment of amphibian taxonomic effort and expertise. Bioscience 60: 798-806
157. Rosen R. 1996. On the limitations of scientific knowledge. In Boundaries and Barriers: On the Limits to Scientific Knowledge, ed. JL Casti, A Karlqvist, pp. 199-214. Reading, MA: Perseus
158. Roskov Y, Abucay L, Orrell T, Nicolson D, Kunze T, et al. 2015. Species 2000 & ITIS Catalogue of Life: 2015 Annual Checklist. Leiden, Neth.: Catalogue of Life. http://www.catalogueoflife.org/annualchecklist/2015
159. Rovero F, Martin E, Rosa M, Ahumada JA, Spitale D. 2014. Estimating species richness and modelling habitat preferences of tropical forest mammals from camera trap data. PLOS ONE 9: e103300
160. Roy K, Foote M. 1997. Morphological approaches to measuring biodiversity. Trends Ecol. Evol. 12: 277-81
161. Sánchez-Fernández D, Aragón P, Bilton DT, Lobo JM. 2012. Assessing the congruence of thermal niche estimations derived from distribution and physiological data. A test using diving beetles. PLOS ONE 7: e48163
162. Sansom RS, Randle E, Donoghue PC. 2015. Discriminating signal from noise in the fossil record of early vertebrates reveals cryptic evolutionary history. Proc. R. Soc. B 282: 20142245
163. Sastre P, Lobo JM. 2009. Taxonomist survey biases and the unveiling of biodiversity patterns. Biol. Conserv. 142: 462-67
164. Schemske DW, Mittelbach GG, Cornell HV, Sobel JM, Roy K. 2009. Is there a latitudinal gradient in the importance of biotic interactions? Annu. Rev. Ecol. Evol. Syst. 40: 245-69
165. Sechrest W, Brooks TM, da Fonseca GAB, Konstant WR, Mittermeier RA, et al. 2002. Hotspots and the conservation of evolutionary history. PNAS 99: 2067-71
166. Slater GJ, Harmon LJ. 2013. Unifying fossils and phylogenies for comparative analyses of diversification and trait evolution. Methods Ecol. Evol. 4: 699-702
167. Slatyer RA, Hirst M, Sexton JP. 2013. Niche breadth predicts geographical range size: A general ecological pattern. Ecol. Lett. 16: 1104-14
168. Soberón J. 2007. Grinnellian and Eltonian niches and geographic distributions of species. Ecol. Lett. 10: 1115-23
169. Soria-Auza RW, Kessler M. 2008. The influence of sampling intensity on the perception of the spatial distribution of tropical diversity and endemism: A case study of ferns from Bolivia. Divers. Distrib. 14: 123-30
170. Sutherst R. 2014. Pest species distribution modelling: origins and lessons from history. Biol. Invasions 16: 239-56
171. Swenson NG, Enquist BJ. 2009. Opposing assembly mechanisms in a Neotropical dry forest: implications for phylogenetic and functional community ecology. Ecology 90: 2161-70
172. Taberlet P, Coissac E, Pompanon F, Brochmann C, Willerslev E. 2012. Towards next-generation biodiversity assessment using DNA metabarcoding. Mol. Ecol. 21: 2045-50
173. Thompson JN. 1997. Conserving interaction biodiversity. In The Ecological Basis of Conservation: Heterogeneity, Ecosystems, and Biodiversity, ed. STA Pickett, RS Ostfeld,MShachak, GE Likens, pp. 285-93. New York: Chapman & Hall
174. Thompson PL, Davies TJ, Gonzalez A. 2015. Ecosystem functions across trophic levels are linked to functional and phylogenetic diversity. PLOS ONE 10: e0117595
175. Thomson JR, MacNally R, Fleishman E, Horrocks G. 2007. Predicting bird species distributions in reconstructed landscapes. Conserv. Biol. 21: 752-66
176. Traugott M, Kamenova S, Ruess L, Seeber J, Plantegenest M. 2013. Empirically characterising trophic networks: what emerging DNA-based methods, stable isotope and fatty acid analyses can offer. Adv. Ecol. Res. 49: 177-224
177. Valiente-Banuet A, Aizen MA, Alcántara JM, Arroyo J, Cocucci A, et al. 2014. Beyond species loss: The extinction of ecological interactions in a changing world. Funct. Ecol. 29: 299-307
178. Verdú JR, Alba-Tercedor J, Jiménez-Manrique M. 2012. Evidence of different thermoregulatory mechanisms between two sympatric Scarabaeus species using infrared thermography and micro-computer tomography. PLOS ONE 7: e33914
179. Villeger S, Miranda JR, Hernández DF, Mouillot D. 2010. Contrasting changes in taxonomic vs. functional diversity of tropical fish communities after habitat degradation. Ecol. Appl. 20: 1512-22
180. Violle C, Navas ML, Vile D, Kazakou E, Fortunel C, et al. 2007. Let the concept of trait be functional! Oikos 116: 882-92
181. Walther BA, Moore JL. 2005. The definitions of bias, precision, and accuracy, and their use in testing the performance of species richness estimators, with a literature review of estimator performance. Ecography 28: 815-29
182. Warren DL, Cardillo M, Rosauer DF, Bolnick DI. 2014. Mistaking geography for biology: inferring processes from species distributions. Trends Ecol. Evol. 29: 572-80
183. Whittaker RJ, Araújo MB, Jepson P, Ladle RJ, Watson JEM, Willis KJ. 2005. Conservation biogeography: assessment and prospect. Divers. Distrib. 11: 3-23
184. Wisz MS, Pottier J, Kissling WD, Pellissier L, Lenoir J, et al. 2013. The role of biotic interactions in shaping distributions and realised assemblages of species: implications for species distribution modelling. Biol. Rev. 88: 15-30
185. Wolfe DA, Champ MA, Flemer DA, Mearns AJ. 1987. Long-term biological data sets: their role in research, monitoring, and management of estuarine and coastal marine systems. Estuaries 10: 181-93
186. Yahara T, Donoghue M, Zardoya R, Faith DP, Cracraft J. 2010. Genetic diversity assessments in the century of genome science. Curr. Opin. Environ. Sustain. 2: 43-49
187. Yodzis P. 1988. The indeterminacy of ecological interactions as perceived through perturbation experiments. Ecology 69: 508-15