Change in Phylogenetic Community Structure during Succession of Traditionally Managed Tropical Rainforest in Southwest China

PLoS ONE

Volumn 8, Issue 7, 2013, Pages

  Mo, Xiao Xue ^a,b   Shi, Ling Ling ^a,b   Zhang, Yong Jiang ^a,b,c   Zhu, Hua ^a   Slik, J W Ferry ^a  

^a KEY LABORATORY OF TROPICAL FOREST ECOLOGY   (China)

^b UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^c HARVARD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURAL LAND; AMOMUM VILLOSUM; ARTICLE; CHINA; CLUSTER ANALYSIS; COMMUNITY STRUCTURE; DUABANGA GRANDIFLORA; ENVIRONMENTAL CHANGE; ENVIRONMENTAL FACTOR; FOREST MANAGEMENT; GENETIC VARIABILITY; GINGER; LANDSCAPE ECOLOGY; LYTHRACEAE; NONHUMAN; PHYLOGENETIC TREE; PHYLOGENY; SEASONAL VARIATION; SPECIES DIVERSITY; TROPICAL RAIN FOREST;

AGRICULTURE; ALGORITHMS; CHINA; CLUSTER ANALYSIS; ECOSYSTEM; FIRES; FORESTRY; GENETIC VARIATION; GEOGRAPHY; HUMANS; MODELS, GENETIC; PHYLOGENY; RAIN; RIBULOSE-BISPHOSPHATE CARBOXYLASE; SPECIES SPECIFICITY; TREES;

EID: 84881219229     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0071464     Document Type: Article

References (41)

1. Webb CO, Ackerly DD, McPeek MA, Donoghue MJ, (2002) Phylogenies and Community Ecology. Annual Review of Ecology and Systematics 33: 475-505.
2. Webb CO, (2000) Exploring the phylogenetic structure of ecological communities: an example for rain forest trees. The American Naturalist 156: 145-155.
3. Helmus MR, Keller WB, Paterson MJ, Yan ND, Cannon CH, et al. (2010) Communities contain closely related species during ecosystem disturbance. Ecology Letters 13: 162-174.
4. Cavender-Bares J, Kozak KH, Fine PVA, Kembel SW, (2009) The merging of community ecology and phylogenetic biology. Ecology Letters 12: 693-715.
5. Kraft NJB, Ackerly DD, (2010) Functional trait and phylogenetic tests of community assembly across spatial scales in an Amazonian forest. Ecological Monographs 80: 401-422.
6. Willis CG, Ruhfel B, Primack RB, Miller-Rushing AJ, Davis CC, (2008) Phylogenetic patterns of species loss in Thoreau's woods are driven by climate change. Proceedings of the National Academy of Sciences of the United States of America 105: 17029-17033.
7. Chase JM, (2007) Drought mediates the importance of stochastic community assembly. Proceedings of the National Academy of Sciences of the United States of America 104: 17430-17434.
8. 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.
9. FAO (2012) State of the world's forests: United Nations Food and Agriculture Organization (FAO), Rome.
10. Chazdon RL, Peres CA, Dent D, Sheil D, Lugo AE, et al. (2009) The Potential for Species Conservation in Tropical Secondary Forests. Conservation Biology 23: 1406-1417.
11. Chazdon RL, (2003) Tropical forest recovery: legacies of human impact and natural disturbances. Perspectives in Plant Ecology, Evolution and Systematics 6: 51-71.
12. Letcher SG, (2010) Phylogenetic structure of angiosperm communities during tropical forest succession. Proceedings of the Royal Society B: Biological Sciences 277: 97-104.
13. Whitfeld TJS, Kress WJ, Erickson DL, Weiblen GD, (2012) Change in community phylogenetic structure during tropical forest succession: evidence from New Guinea. Ecography 35: 821-830.
14. Letcher SG, Chazdon RL, Andrade ACS, Bongers F, van Breugel M, et al. (2012) Phylogenetic community structure during succession: Evidence from three Neotropical forest sites. Perspectives in Plant Ecology, Evolution and Systematics 14: 79-87.
15. Dinnage R, (2009) Disturbance alters the phylogenetic composition and structure of plant communities in an old field system. PLoS One 4: e7071.
16. Ziegler AD, Fox JM, Xu J, (2009) The Rubber Juggernaut. Science 324: 1024-1025.
17. Mo X-X, Zhu H, Zhang Y-J, Ferry Slik JW, Liu J-X, (2011) Traditional forest management has limited impact on plant diversity and composition in a tropical seasonal rainforest in SW China. Biological Conservation 144: 1832-1840.
18. Lawrence D, (2004) Erosion of tree diversity during 200 years of shifting cultivation in Bornean rain forest. Ecological Applications 14: 1855-1869.
19. Shi J, Zhu H, (2009) Tree species composition and diversity of tropical mountain cloud forest in the Yunnan, southwestern China. Ecological Research 24: 83-92.
20. Zhu H, Shi J, Zhao C, (2005) Species Composition, Physiognomy and Plant Diversity of the Tropical Montane Evergreen Broad-leaved Forest in Southern Yunnan. Biodiversity and Conservation 14: 2855-2870.
21. Slik JW, Bernard CS, Breman FC, M VANB, Salim A, et al. (2008) Wood density as a conservation tool: quantification of disturbance and identification of conservation-priority areas in tropical forests. Conservation Biology 22: 1299-1308.
22. Chave J, Coomes D, Jansen S, Lewis SL, Swenson NG, et al. (2009) Towards a worldwide wood economics spectrum. Ecology Letters 12: 351-366.
23. Zanne AE, Lopez-Gonzalez G, Coomes DA, Ilic J, Jansen S, et al. (2009) Data from: Towards a worldwide wood economics spectrum. Dryad Data Repository.
24. Slik JWF, (2006) Estimating species-specific wood density from the genus average in Indonesian trees. Journal of Tropical Ecology 22: 481.
25. Webb CO, Ackerly DD, Kembel SW, (2008) Phylocom: software for the analysis of phylogenetic community structure and trait evolution. Bioinformatics 24: 2098-2100.
26. Chase MW, Soltis DE, Olmstead RG, Morgan D, Les DH, et al. (1993) Phylogenetics of seed plants: An analysis of nucleotide-sequences from gene RBCL. Annals of the Missouri Botanical Garden 80: 528-580.
27. Bousquet J, Strauss S, Doerksen A, Price R, (1992) Extensive variation in evolutionary rate of rbcL gene sequences among seed plants. Proceedings of the National Academy of Sciences of the United States of America 89: 7844-7848.
28. Wilgenbusch JC, Swofford D (2003) Inferring evolutionary trees with PAUP*. Curr Protoc Bioinformatics Chapter 6: Unit 6 4.
29. Wikstrom N, Savolainen V, Chase MW, (2001) Evolution of the angiosperms: calibrating the family tree. Proceedings of the Royal Society B-Biological Sciences 268: 2211-2220.
30. Gotelli NJ, Colwell RK, (2001) Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness. Ecology Letters 4: 379-391.
31. Helmus MR, Bland TJ, Williams CK, Ives AR, (2007) Phylogenetic measures of biodiversity. American Naturalist 169: E68-E83.
32. Faith DP, (1992) Conservation evaluation and phylogenetic diversity. Biological Conservation 61: 1-10.
33. Kembel SW, Cowan PD, Helmus MR, Cornwell WK, Morlon H, et al. (2010) Picante: R tools for integrating phylogenies and ecology. Bioinformatics 26: 1463-1464.
34. Lozupone C, Knight R, (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Applied and Environmental Microbiology 71: 8228-8235.
35. Webb CO, Donoghue MJ, (2005) Phylomatic: tree assembly for applied phylogenetics. Molecular Ecology Notes 5: 181-183.
36. Colwell RK, (2005) EstimateS: statistical estimation of species richness and shared species from samples. v: 7.5 http://purl.oclc.org/estimates.
37. Nipperess DA, Matsen I, Frederick A (2012) The mean and variance of phylogenetic diversity under rarefaction. arXiv preprint arXiv: 12086552.
38. Slik JWF, (2005) Assessing tropical lowland forest disturbance using plant morphological and ecological attributes. Forest Ecology and Management 205: 241-250.
39. Ackerly D, (2004) Functional strategies of chaparral shrubs in relation to seasonal water deficit and disturbance. Ecological Monographs 74: 25-44.
40. Norden N, Letcher SG, Boukili V, Swenson NG, Chazdon R, (2012) Demographic drivers of successional changes in phylogenetic structure across life-history stages in plant communities. Ecology 93: S70-S82.
41. Baker PJ, Bunyavejchewin S, Oliver CD, Ashton PS, (2005) Disturbance history and historical stand dynamics of a seasonal tropical forest in western Thailand. Ecological Monographs 75: 317-343.