Biodiversity Science ›› 2017, Vol. 25 ›› Issue (2): 156-162.doi: 10.17520/biods.2015336

• Orginal Article • Previous Article     Next Article

Regional tree of life and its application in floristic studies

Danxiao Peng1, 2, Limin Lu1, *(), Zhiduan Chen1   

  1. 1 State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Beijing 100093
    2 University of Chinese Academy of Sciences, Beijing 100049
  • Received:2015-12-01 Accepted:2016-02-03 Online:2017-03-06
  • Lu Limin

The regional tree of life, reconstructing the tree of life to include the regional species pool, has been a research focus in biological science over the past decade. Informed by phylogenetic relationships among coexisting species, a regional tree of life can connect evolutionary and ecological factors during the evolution of a biota and thus has become an efficient tool to trace its temporal and spatial diversification. In this paper, we summarize the application of a regional tree of life in floristic studies in the following three fields: (1) To reveal temporal patterns of a flora by estimating divergence time and evolutionary rates based on the tree of life; (2) To reveal spatial patterns of the biodiversity in a flora and to guide the regionalization of floristic zones by integrating phylogenetic and spatial data; and (3) By integrating biogeographic and environmental data and investigating how taxa respond to paleogeographic events and thus climate change to reveal the underlying ecological, geographical and historic factors of the formation of the floristic biodiversity pattern. In addition, we highlight the relationship between the regional and global tree of life and indicate the potential to identify biased divergence times with incomplete taxa sampling using a regional tree of life. Finally, we suggest that future studies should integrate current mega data at different scales in hotspots to elucidate biodiversity patterns in a worldwide framework.

Key words: regional tree of life, flora, phylogenetic diversity, estimation of divergence time, temporal and spatial pattern, environmental factors

1 Chao A, Chiu CH, Jost L (2014) Unifying species diversity, phylogenetic diversity, functional diversity, and related similarity and differentiation measures through Hill numbers. Annual Review of Ecology, Evolution, and Systematics, 45, 297-324.
2 Corbelli JM, Zurita GA, Filloy J, Galvis JP, Vespa NI, Bellocq I (2015) Integrating taxonomic, functional and phylogenetic beta diversities: interactive effects with the biome and land use across taxa. PLoS ONE, 10, e0126854.
3 Crisp MD, Cook LG (2013) How was the Australian flora assembled over the last 65 million years? A molecular phylogenetic perspective. Annual Review of Ecology, Evolution, and Systematics, 44, 303-324.
4 Faith DP (1992) Conservation evaluation and phylogenetic diversity. Biological Conservation, 61, 1-10.
5 Faith DP, Reid CAM, Hunter J (2004) Integrating phylogenetic diversity, complementarity, and endemism for conservation assessment. Conservation Biology, 18, 255-261.
6 Favre A, Päckert M, Pauls SU, Jähnig SC, Uhl D, Michalak I, Muellner-Riehl AN (2015) The role of the uplift of the Qinghai-Tibetan Plateau for the evolution of Tibetan biotas. Biological Reviews, 90, 236-253.
7 Feng G, Zhang JL, Pei NC, Rao MD, Mi XC, Ren HB, Ma KP (2012) Comparison of phylobetadiversity indices based on community data from Gutianshan Forest Plot. Chinese Science Bulletin, 57, 623-630.
8 Forest F, Grenyer R, Rouget M, Davies TJ, Cowling RM, Faith DP, Balmford A, Manning JC, Procheş Ş, van der Bank M, Reeves G, Hedderson TAJ, Savolainen V (2007) Preserving the evolutionary potential of floras in biodiversity hotspots. Nature, 445, 757-760.
9 Ge XJ (2015) Application of DNA barcoding in phylofloristics study. Biodiversity Science, 23, 295-296.
(in Chinese) [葛学军 (2015) DNA条形码在植物系统发育区系学研究中的应用. 生物多样性, 23, 295-296.]
10 González-Caro S, Umaña MN, Álvarez E, Stevenson PR, Swenson NG (2014) Phylogenetic alpha and beta diversity in tropical tree assemblages along regional-scale environmental gradients in northwest South America. Journal of Plant Ecology, 7, 145-153.
11 Lancaster LT, Kay KM (2013) Origin and diversification of the California flora: re-examing classic hypotheses with molecular phylogenies. Evolution, 67, 1041-1054.
12 Lavergne S, Hampe A, Arroyo J (2013) In and out of Africa: How did the Strait of Gibraltar affect plant species migration and local diversification? Journal of Biogeography, 40, 24-36.
13 Li R, Kraft NJB, Yang J, Wang Y (2015) A phylogenetically informed delineation of floristic regions within a biodiversity hotspot in Yunnan, China. Scientific Reports, 5, 9396.
14 Linder HP, Hardy CR, Rutschmann F (2005) Taxon sampling effects in molecular clock dating: an example from the African Restionaceae. Molecular Phylogenetics and Evolution, 35, 569-582.
15 Linder HP (2008) Plant species radiations: where, when, why? Philosophical Transactions of the Royal Society of London B: Biological Sciences, 363, 3097-3105.
16 Lu LM, Sun M, Zhang JB, Li HL, Lin L, Yang T, Chen M, Chen ZD (2014) Tree of life and its applications. Biodiversity Science, 22, 3-20.
(in Chinese with English abstract) [鲁丽敏, 孙苗, 张景博, 李洪雷, 林立, 杨拓, 陈闽, 陈之端 (2014) 生命之树及其应用. 生物多样性, 22, 3-20.]
17 Milne RI (2006) Northern hemisphere plant disjunctions: a window on tertiary land bridges and climate change? Annals of Botany, 98, 465-472.
18 Mishler BD, Knerr N, González-Orozco CE, Thornhill AH, Laffan SW, Miller JT (2014) Phylogenetic measures of biodiversity and neo- and paleo-endemism in Australian Acacia. Nature Communications, 5, 4473.
19 Monnet AC, Jiguet F, Meynard CN, Mouillot D, Mouquet N, Thuiller W, Devictor V (2014) Asynchrony of taxonomic, functional and phylogenetic diversity in birds. Global Ecology and Biogeography, 23, 780-788.
20 Pillon Y (2012) Time and tempo of diversification in the flora of New Caledonia. Botanical Journal of the Linnean Society, 170, 288-298.
21 Qian H, Zhang J (2015) Are phylogenies derived from family-level supertrees robust for studies on macroecological patterns along environmental gradients? Journal of Systematics and Evolution, 54, 29-36.
22 Rosauer D, Laffan SW, Crisp MD, Donnellan SC, Cook LG (2009) Phylogenetic endemism: a new approach for identifying geographical concentrations of evolutionary history. Molecular Ecology, 18, 4061-4072.
23 Swenson NG, Umaña MN (2014) Phylofloristics: an example from the Lesser Antilles. Journal of Plant Ecology, 7, 166-175.
24 Tsirogiannis C, Sandel B (2014) Computing the skewness of the phylogenetic mean pairwise distance in linear time. Algorithms for Molecular Biology, 9, 15.
25 Warren BH, Bakker FT, Bellstedt DU, Bytebier B, Claßen-Bockhoff R, Dreyer LL, Edwards D, Forest F, Galley C, Hardy CR, Linder HP, Muasya AM, Mummenhoff K, Oberlander KC, Quint M, Richardson JE, Savolainen V, Schrire BD, van der Niet T, Verboom GA, Yesson C, Hawkins JA (2011) Consistent phenological shifts in the making of a biodiversity hotspot: the Cape flora. BMC Evolutionary Biology, 11, 39.
26 Webb CO, Ackerly DD, McPeek MA, Donoghue MJ (2002) Phylogenies and community ecology. Annual Review of Ecology and Systematics, 33, 475-505.
27 Weigelt P, Kissling WD, Kisel Y, Fritz SA, Karger DN, Kessler M, Lehtonen S, Svenning JC, Kreft H (2015) Global patterns and drivers of phylogenetic structure in island floras. Scientific Reports, 5, 12213.
28 Whittaker RH (1960) Vegetation of the Siskiyou Mountains, Oregon and California. Ecological Monographs, 30, 279-338.
29 Wu ZY, Sun H, Zhou ZK, Li DZ, Peng H (2010) Floristics of Seed Plants from China. Science Press, Beijing.
(in Chinese) [吴征镒, 孙航, 周浙昆, 李德铢, 彭华 (2010) 中国种子植物区系地理. 科学出版社, 北京.]
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