Adler PB, Fajardo A, Kleinhesselink AR, Kraft NJB (2013) Trait-based tests of coexistence mechanisms. Ecol Lett 16:1294–1306
PubMed
Google Scholar
Ansell FA, Edwards DP, Hamer KC (2011) Rehabilitation of logged rain forests: avifaunal composition, habitat structure, and implications for biodiversity-friendly REDD+. Biotropica 43:504–511. https://doi.org/10.1111/j.1744-7429.2010.00725.x
Article
Google Scholar
Asner GP, Rudel TK, Aide TM, Defries R, Emerson R (2009) A contemporary assessment of change in humid tropical forests. Conserv Biol 23:1386–1395
PubMed
Google Scholar
Audino LD, Murphy SJ, Zambaldi L, Louzada J, Comita LS (2017) Drivers of community assembly in tropical forest restoration sites: role of local environment, landscape, and space. Ecol Appl 27:1731–1745. https://doi.org/10.1002/eap.1562
Article
PubMed
Google Scholar
Barlow J et al (2007) Quantifying the biodiversity value of tropical primary, secondary, and plantation forests. Proc Natl Acad Sci USA 104:18555–18560
CAS
PubMed
Google Scholar
Bergholz K, May F, Giladi I, Ristow M, Ziv Y, Jeltsch F (2017) Environmental heterogeneity drives fine-scale species assembly and functional diversity of annual plants in a semi-arid environment. Perspect Plant Ecol Evol Syst 24:138–146
Google Scholar
Bernard-Verdier M, Navas ML, Vellend M, Violle C, Fayolle A, Garnier E (2012) Community assembly along a soil depth gradient: contrasting patterns of plant trait convergence and divergence in a Mediterranean rangeland. J Ecol 100:1422–1433
Google Scholar
Botta-Dukat Z (2005) Rao’s quadratic entropy as a measure of functional diversity based on multiple traits. J Veg Sci 16:533–540. https://doi.org/10.1658/1100-9233(2005)16[533:rqeaam]2.0.co;2
Article
Google Scholar
Boulangeat I, Gravel D, Thuiller W (2012) Accounting for dispersal and biotic interactions to disentangle the drivers of species distributions and their abundances. Ecol Lett 15:584–593
PubMed
PubMed Central
Google Scholar
Bregman TP et al (2015) Species interactions regulate the collapse of biodiversity and ecosystem function in tropical forest fragments. Ecology 96:2692–2704. https://doi.org/10.1890/14-1731.1.sm
Article
PubMed
Google Scholar
Cardinale BJ, Palmer MA, Collins SL (2002) Species diversity enhances ecosystem functioning through interspecific facilitation. Nature 415:426–429
CAS
PubMed
PubMed Central
Google Scholar
Chase JM (2007) Drought mediates the importance of stochastic community assembly. Proc Natl Acad Sci USA 104:17430–17434
CAS
PubMed
Google Scholar
Dayan T, Simberloff D (2005) Ecological and community-wide character displacement:the next generation. Ecol Lett 8:875–894
Google Scholar
de Bello F, Price JN, Munkemuller T, Liira J, Zobel M, Thuiller W, Partel M (2012) Functional species pool framework to test for biotic effects on community assembly. Ecology 93:2263–2273
PubMed
Google Scholar
de Bello F, Vandewalle M, Reitalu T, Lepš J, Prentice HC, Lavorel S, Sykes MT, Vesk P (2013) Evidence for scale- and disturbance-dependent trait assembly patterns in dry semi-natural grasslands. J Ecol 101:1237–1244
Google Scholar
Ding Y, Zang R, Letcher SG, Liu S, He F (2012) Disturbance regime changes the trait distribution, phylogenetic structure and community assembly of tropical rain forests. Oikos 121:1263–1270
Google Scholar
Döbert TF, Webber BL, Sugau JB, Dickinson KJM, Didham RK, Gilliam F (2017) Logging increases the functional and phylogenetic dispersion of understorey plant communities in tropical lowland rain forest. J Ecol 105:1235–1245
Google Scholar
Dray S, Dufour AB (2007) The ade4 package: implementing the duality diagram for ecologists. J Stat Softw 22:1–20
Google Scholar
Edwards DP, Larsen TH, Docherty TDS, Ansell FA, Hsu WW, Derhe MA, Hamer KC, Wilcove DS (2011) Degraded lands worth protecting:the biological importance of Southeast Asia’s repeatedly logged forests. Proc R Soc B Biol Sci 278:82–90
Google Scholar
Edwards FA, Edwards DP, Hamer KC, Davies RG (2013) Impacts of logging and conversion of rainforest to oil palm on the functional diversity of birds in Sundaland. Ibis 155:313–326
Google Scholar
Edwards DP, Magrach A, Woodcock P, Ji Y, Lim NTL, Edwards FA, Yu DW (2014a) Selective-logging and oil palm:multitaxon impacts, biodiversity indicators, and trade-offs for conservation planning. Ecol Appl 24:2029–2049
PubMed
Google Scholar
Edwards FA, Edwards DP, Larsen TH, Hsu WW, Benedick S, Chung A, Wilcove DS, Hamer KC (2014b) Does logging and forest conversion to oil palm agriculture alter functional diversity in a biodiversity hotspot? Anim Conserv 17:163–173
CAS
PubMed
Google Scholar
Fayle TM, Turner EC, Foster WA (2013) Ant mosaics occur in SE Asian oil palm plantation but not rain forest and are influenced by the presence of nest-sites and non-native species. Ecography 36:1051–1057. https://doi.org/10.1111/j.1600-0587.2012.00192.x
Article
Google Scholar
Fernandez-Fournier P, Guevara J, Hoffman C, Aviles L (2018) Trait overdispersion and the role of sociality in the assembly of social spider communities across the Americas. Proc Natl Acad Sci USA 115:6010–6015
CAS
PubMed
Google Scholar
Fitzgerald DB, Winemiller KO, Perez MHS, Sousa LM (2017) Seasonal changes in the assembly mechanisms structuring tropical fish communities. Ecology 98:21–31. https://doi.org/10.1002/ecy.1616
Article
PubMed
Google Scholar
Flynn DFB, Gogol-Prokurat M, Nogeire T, Molinari N, Richers BT, Lin BB, Simpson N, Mayfield MM, DeClerck F (2009) Loss of functional diversity under land use intensification across multiple taxa. Ecol Lett 12:22–33
PubMed
Google Scholar
Gardner TA et al (2008) The cost-effectiveness of biodiversity surveys in tropical forests. Ecol Lett 11:139–150
PubMed
Google Scholar
Gibbs HK, Ruesch AS, Achard F, Clayton MK, Holmgren P, Ramankutty N, Foley JA (2010) Tropical forests were the primary sources of new agricultural land in the 1980s and 1990s. Proc Natl Acad Sci USA 107:16732–16737
CAS
PubMed
Google Scholar
Gibson L et al (2011) Primary forests are irreplaceable for sustaining tropical biodiversity. Nature 478:378
CAS
PubMed
Google Scholar
Gotelli NJ, McCabe DJ (2002) Species co-occurrence: a meta-analysis of J. M. Diamond’s assembly rules model. Ecology 83:2091–2096
Google Scholar
Gotzenberger L et al (2012) Ecological assembly rules in plant communities-approaches, patterns and prospects. Biol Rev 87:111–127
PubMed
Google Scholar
Götzenberger L, Botta-Dukát Z, Lepš J, Pärtel M, Zobel M, de Bello F, Mason N (2016) Which randomizations detect convergence and divergence in trait-based community assembly? A test of commonly used null models. J Veg Sci 27:1275–1287
Google Scholar
Grime JP (2006) Trait convergence and trait divergence in herbaceous plant communities:mechanisms and consequences. J Veg Sci 17:255–260
Google Scholar
Hamer KC, Newton R, Edwards FA, Benedick S, Bottrell SH, Edwards DP (2015) Impacts of selective logging on insectivorous birds in Borneo: the importance of trophic position, body size and foraging height. Biol Cons 188:82–88
Google Scholar
Hung K-LJ, Ascher JS, Davids JA, Holway DA (2019) Ecological filtering in scrub fragments restructures the taxonomic and functional composition of native bee assemblages. Ecology 100:e06254
Google Scholar
Kembel SW, Cowan PD, Helmus MR, Cornwell WK, Morlon H, Ackerly DD, Blomsberg SP, Webb CO (2010) Picante: R tools for integrating phylogenies and ecology. Bioinformatics 26:1463–1464
CAS
PubMed
Google Scholar
Kraft N, Ackerly D (2010) Functional trait and phylogenetic tests of community assembly across spatial scales in an Amazonian forest. Ecol Monogr 80:401–422
Google Scholar
Laliberté E, Legendre P and Shipley B (2014) FD:measuring functional diversity from multiple traits, and other tools for functional ecology. R package version 1.0-12
Larsen TH, Forsyth A (2005) Trap spacing and transect design for dung beetle biodiversity studies. Biotropica 37:322-325
Lees AC, Peres CA (2006) Rapid avifaunal collapse along the Amazonian deforestation frontier. Biol Conserv 133:198–211. https://doi.org/10.1016/j.biocon.2006.06.005
Article
Google Scholar
Luke SH, Purnomo D, Advento AD, Aryawan AAK, Naim M, Pikstein RN, Ps S, Rambe TDS, Soeprapto C-P, Snaddon JL, Foster WA, Turner EC (2019) Effects of understory vegetation management on plant communities in oil palm plantations in Sumatra, Indonesia. Front For Glob Change 2:33. https://doi.org/10.3389/ffgc.2019.00033
Article
Google Scholar
Magrach A et al (2016) Selective logging in tropical forests decreases the robustness of liana—tree interaction networks to the loss of host tree species. Proc R Soc B Biol Sci. https://doi.org/10.1098/rspb.2015.3008
Article
Google Scholar
Mason NWH, de Bello F, Mouillot D, Pavoine S, Dray S (2013) A guide for using functional diversity indices to reveal changes in assembly processes along ecological gradients. J Veg Sci 24:794–806
Google Scholar
Maxwell S, Fuller RA, Brooks TM, Watson JEM (2016) The ravages of guns, nets and bulldozers. Nature 536:143–145
CAS
PubMed
Google Scholar
Mayfield MM, Levine JM (2010) Opposing effects of competitive exclusion on the phylogenetic structure of communities. Ecol Lett 13:1085–1093
PubMed
Google Scholar
Mori AS, Forest I, Seidl R (2018) ß-diversity, community assembly, and ecosystem functioning. Trends Ecol Evol 33:549–564
PubMed
Google Scholar
Mouchet MA, Villéger S, Mason NWH, Mouillot D (2010) Functional diversity measures:an overview of their redundancy and their ability to discriminate community assembly rules. Funct Ecol 24:867–876
Google Scholar
Nichols E, Spector S, Louzada J, Larsen T, Amezquita S, Favila ME (2008) Ecological functions and ecosystem services provided by Scarabaeinae dung beetles. Biol Cons 141:1461–1474
Google Scholar
Perronne R, Munoz F, Borgy B, Reboud X, Gaba S (2017) How to design trait-based analyses of community assembly mechanisms: insights and guidelines from a literature review. Perspect Plant Ecol Evol Syst 25:29–44
Google Scholar
Plass-Johnson JG, Taylor MH, Husain AA, Teichberg MC, Ferse SC (2016) Non-random variability in functional composition of coral reef fish communities along an environmental gradient. Plos ONE 11:e0154014
Powell LL, Cordeiro NJ, Stratford JA (2015) Ecology and conservation of avian insectivores of the rainforest understory: a pantropical perspective. Biol Cons 188:1–10
Google Scholar
Putz FE et al (2012) Sustaining conservation values in selectively logged tropical forests: the attained and the attainable. Conserv Lett 5:296–303. https://doi.org/10.1111/j.1755-263X.2012.00242.x
Article
Google Scholar
R Core Team (2019) R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna https://www.R-project.org/
Reynolds G, Payne J, Sinun W, Mosigil G, Walsh RPD (2011) Changes in forest land use and management in Sabah, Malaysian Borneo, 1990–2010, with a focus on the Danum Valley region. Philos Trans R Soc B Biol Sci 366:3168–3176
Google Scholar
Royan A, Reynolds SJ, Hannah DM, Prudhomme C, Noble DG, Sadler JP (2016) Shared environmental responses drive co-occurrence patterns in river bird communities. Ecography 39:733–742
Google Scholar
Sanders NJ, Gotelli NJ, Heller NE, Gordon DM (2003) Community disassembly by an invasive species. Proc Natl Acad Sci USA 100:2474–2477
CAS
PubMed
Google Scholar
Slade EM, Mann DJ, Villanueva JF, Lewis OT (2007) Experimental evidence for the effects of dung beetle functional group richness and composition on ecosystem function in a tropical forest. J Anim Ecol 76:1094–1104. https://doi.org/10.1111/j.1365-2656.2007.01296.x
Article
PubMed
Google Scholar
Slade EM, Mann DJ, Lewis OT (2011) Biodiversity and ecosystem function of tropical forest dung beetles under contrasting logging regimes. Biol Conserv 144:166–174. https://doi.org/10.1016/j.biocon.2010.08.011
Article
Google Scholar
Slade EM, Kirwan L, Bell T, Philipson CD, Lewis OT, Roslin T (2017) The importance of species identity and interactions for multifunctionality depends on how ecosystem functions are valued. Ecology 98:2626–2639
PubMed
Google Scholar
Socolar JB, Gilroy JJ, Kunin WE, Edwards DP (2016) How should beta-diversity inform biodiversity conservation? Trends Ecol Evol 31:67–80. https://doi.org/10.1016/j.tree.2015.11.005
Article
PubMed
Google Scholar
Start D, McCauley S, Gilbert B (2018) Physiology underlies the assembly of ecological communities. Proc Natl Acad Sci USA 115:6016–6021
CAS
PubMed
Google Scholar
Swenson NG, Enquist BJ, Thompson J, Zimmerman JK (2007) The influence of spatial and size scale on phylogenetic relatedness in tropical forest communities. Ecology 88:1770–1780
PubMed
Google Scholar
Tylianakis JM, Didham RK, Bascompte J, Wardle DA (2008) Global change and species interactions in terrestrial ecosystems. Ecol Lett 11:1351–1363
PubMed
Google Scholar
van der Plas F, Janzen T, Ordonez A, Fokkema W, Reinders J, Etienne RS, Olff H (2015) A new modeling approach estimates the relative importance of different community assembly processes. Ecology 96:1502–1515
Google Scholar
Wearn OR, Rowcliffe JM, Carbone C, Pfeifer M, Bernard H, Ewers RM (2017) Mammalian species abundance across a gradient of tropical land-use intensity: a hierarchical multi-species modelling approach. Biol Conserv 212:162–171. https://doi.org/10.1016/j.biocon.2017.05.007
Article
Google Scholar
Wearn RO, Carbone C, Rowcliffe JM, Pfeifer M, Bernard H, Ewers RM (2018) Land-use change alters the mechanisms assembling rainforest mammal communities in Borneo. J Anim Ecol. https://doi.org/10.1111/1365-2656.12903
Article
PubMed
Google Scholar
Wilman H, Belmaker J, Simpson J, de la Rosa C, Rivadeneira MM, Jetz W (2014) EltonTraits 1.0:Species-level foraging attributes of the world’s birds and mammals. Ecology 95:2027–2027
Google Scholar