Biodiv Sci ›› 2021, Vol. 29 ›› Issue (6): 790-797. DOI: 10.17520/biods.2021011
• Technology and Methodology • Previous Articles Next Articles
Received:
2021-01-08
Accepted:
2021-04-26
Online:
2021-06-20
Published:
2021-06-08
Contact:
Yi Zou
Yi Zou. The calculation of β-diversity for different sample sizes[J]. Biodiv Sci, 2021, 29(6): 790-797.
Fig. 1 Flow chart for converting plot × species multi-dimensional data into a two-dimensional ordination graph. The raw data can be calculated into a pair-wised distance matrix. The distance matrix can be descended into a two-dimensional ordination graph. One point in the ordination graph represents a sampling plot, while the distance between the points represents that the species composition between plot is dissimilar (distance is far) or similar (distance is relatively close).
Fig. 2 Two-dimensional principal coordinates analysis (PCoA) plots based on chord-normalized expected species shared (CNESS) index with different sampling size parameter (m= 1, 8, 140) and based on the Chao-Jaccard index
Fig. 3 Linear regression value (R2) between respective axes (Axis-1 and Axis-2) that generated by chord-normalized expected species shared (CNESS) index based and Chao-Jaccard based principal coordinates analysis (PCoA) plots at different m values
Fig. 4 Relationship between the changes of mean dissimilarity distance with the number of individuals randomly removed from the dataset for chord-normalized expected species shared (CNESS) index with different m value (m = 1, 8 and 140) and the Chao-Jaccard index
[1] |
Beck J, Vun Khen C (2007) Beta-diversity of geometrid moths from northern Borneo: Effects of habitat, time and space. Journal of Animal Ecology, 76,230-237.
DOI URL |
[2] |
Bonifácio P, Martínez Arbizu P, Menot L (2020) Alpha and beta diversity patterns of polychaete assemblages across the nodule province of the eastern Clarion-Clipperton Fracture Zone (equatorial Pacific). Biogeosciences, 17,865-886.
DOI URL |
[3] | Borcard D, Legendre P (1994) Environmental control and spatial structure in ecological communities: An example using oribatid mites (Acari, Oribatei)(equatorial Pacific). Environmental and Ecological Statistics, 1,37-61. |
[4] |
Chao A, Chazdon RL, Colwell RK, Shen TJ (2005) A new statistical approach for assessing similarity of species composition with incidence and abundance data. Ecology Letters, 8,148-159.
DOI URL |
[5] | Chao A, Chiu C (2016) Species richness: Estimation and comparison. In: Wiley StatsRef: Statistics Reference Online (eds Balakrishnan N, Colton T, Everitt B, Piegorsch W, Ruggeri F, Teugels JL), pp. 1-26. John Wiley & Sons, Inc. |
[6] |
Chen SB, Ouyang ZY, Xu WH, Xiao Y (2010) A review of beta diversity studies. Biodiversity Science, 18,323-335. (in Chinese with English abstract)
DOI |
陈圣宾, 欧阳志云, 徐卫华, 肖燚 (2010) Beta多样性研究进展. 生物多样性, 18,323-335.]
DOI |
|
[7] |
Colwell RK, Chao A, Gotelli NJ, Lin SY, Mao CX, Chazdon RL, Longino JT (2012) Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages. Journal of Plant Ecology, 5,3-21.
DOI URL |
[8] | Duan MC, Liu YH, Wang CL, Axmacher JC, Li LT, Yu ZR (2012) Diversity of geometrid moth (Lepidoptera: Geometridae) in cropland and reforested semi-natural habitats at different altitudes of Bashang Plateau, Hebei Province of China. Chinese Journal of Applied Ecology, 23,785-790. (in Chinese with English abstract) |
段美春, 刘云慧, 王长柳, Axmacher JC, 李良涛, 宇振荣 (2012) 坝上地区不同海拔农田和恢复半自然生境下尺蛾多样性. 应用生态学报, 23,785-790.] | |
[9] | Gallagher ED (1998) Compah96. http://www.es.umb.edu/faculty/edg/files/pub/COMPAH.EXE (accessed on 2013-09-01) |
[10] |
Grassle JF, Smith W (1976) A similarity measure sensitive to the contribution of rare species and its use in investigation of variation in marine benthic communities. Oecologia, 25,13-22.
DOI URL |
[11] |
Hurlbert SH (1971) The nonconcept of species diversity: A critique and alternative parameters. Ecology, 52,577-586.
DOI PMID |
[12] |
Koleff P, Gaston KJ, Lennon JJ (2003) Measuring beta diversity for presence-absence data. Journal of Animal Ecology, 72,367-382.
DOI URL |
[13] |
Legendre P, Gallagher ED (2001) Ecologically meaningful transformations for ordination of species data. Oecologia, 129,271-280.
DOI PMID |
[14] | Legendre P, Legendre L (2012) Numerical Ecology, 3rd edn. Elsevier, Amsterdam, |
[15] |
Liu YH, Axmacher JC, Wang CL, Li LT, Yu ZR (2010) Ground beetles (Coleoptera: Carabidae) in the intensively cultivated agricultural landscape of Northern China—Implications for biodiversity conservation. Insect Conservation and Diversity, 3,34-43.
DOI URL |
[16] | Ma KP (1994) Measurement of biotic community diversity. I. α diversity (Part 1). Chinese Biodiversity, 2,162-168. (in Chinese) |
马克平 (1994) 生物群落多样性的测度方法. I. α多样性的测度方法(上). 生物多样性, 2,162-168.] | |
[17] | Melo AS (2014) CommEcol: Community Ecology Analyses. R package version 1.6.5. http://CRAN.R-project.org/package=CommEcol. (accessed on 2021-02-01) |
[18] | Menot L (2019) ness: Hypergeometric standardization and probabilistic measures of similarity for community ecology. R package version 0.1.0, Zenodo. https://doi.org/10.5281/zenodo.3254750. (accessed on 2021-02-01) |
[19] | Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MRH, Wagner H (2018) vegan: Community Ecology Package. R package version 2.5-6. 10.1111/j.1654-1103.2003.tb02228.x. (accessed on 2021-02-01) |
[20] | R Core Team (2020) R: A Language and Environment for Statistical Computing. Version 3.6.3, R Foundation for Statistical Computing, Vienna, Austria. |
[21] | Schroeder PJ, Jenkins DG (2018) How robust are popular beta diversity indices to sampling error? Ecosphere, 9,e02100. |
[22] |
Si XF, Zhao YH, Chen CW, Ren P, Zeng D, Wu LB, Ding P (2017) Beta-diversity partitioning: Methods, applications and perspectives. Biodiversity Science, 25,464-480. (in Chinese with English abstract)
DOI URL |
斯幸峰, 赵郁豪, 陈传武, 任鹏, 曾頔, 吴玲兵, 丁平 (2017) Beta多样性分解: 方法、应用与展望. 生物多样性, 25,464-480.]
DOI |
|
[23] |
Simberloff D (1972) Properties of the rarefaction diversity measurement. The American Naturalist, 106,414-418.
DOI URL |
[24] |
Smith W, Grassle JF (1977) Sampling properties of a family of diversity measures. Biometrics, 33,283-292.
DOI URL |
[25] | Trueblood DD, Gallagher ED, Gould DM (1994) Three stages of seasonal succession on the Savin Hill Cove mudflat, Boston Harbor. Limnology and Oceanography,1440-1454. |
[26] |
Tuomisto H (2010) A diversity of beta diversities: Straightening up a concept gone awry. Part 2. Quantifying beta diversity and related phenomena. Ecography, 33,23-45.
DOI URL |
[27] |
Whittaker RH (1960) Vegetation of the Siskiyou Mountains, Oregon and California. Ecological Monographs, 30,279-338.
DOI URL |
[28] |
Zou Y, Axmacher JC (2020) The Chord-Normalized Expected Species Shared (CNESS)-distance represents a superior measure of species turnover patterns. Methods in Ecology and Evolution, 11,273-280.
DOI |
[29] | Zou Y, Axmacher JC (2021) Estimating the number of species shared by incompletely sampled communities. Ecography, 44,ecog.05625. |
[30] |
Zou Y, Sang WG, Zhou HC, Huang LY, Axmacher JC (2014) Altitudinal diversity patterns of ground beetles (Coleoptera: Carabidae) in the forests of Changbai Mountain, Northeast China. Insect Conservation and Diversity, 7,161-171.
DOI URL |
[1] | Yiru Han, Qiqi Xue, Houjuan Song, Jingyu Qi, Ruihe Gao, Shaopeng Cui, Lina Men, Zhiwei Zhang. Diversity and influencing factors of flower-visiting insects in the Yanshan area [J]. Biodiv Sci, 2022, 30(3): 21448-. |
[2] | Jian Zhang, Hongzhi Kong, Xiaolei Huang, Shenglei Fu, Liangdong Guo, Qinghua Guo, Fumin Lei, Zhi Lü, Yurong Zhou, Keping Ma. Thirty key questions for biodiversity science in China [J]. Biodiv Sci, 2022, 30(10): 22609-. |
[3] | Junjie Li, Huanhuan Liu, Yangxue Wu, Lingda Zeng, Xiaolei Huang. A dataset on the diversity and geographical distributions of hemipteran insects in China [J]. Biodiv Sci, 2021, 29(9): 1154-1158. |
[4] | Hongyu Niu, Zhengfeng Wang, Juyu Lian, Wanhui Ye, Hao Shen. New progress in community assembly: community phylogenetic structure combining evolution and ecology [J]. Biodiv Sci, 2011, 19(3): 275-283. |
[5] | Nancai Pei, Jinlong Zhang, Xiangcheng Mi, Xuejun Ge. Plant DNA barcodes promote the development of phylogenetic commu- nity ecology [J]. Biodiv Sci, 2011, 19(3): 284-294. |
[6] | Huixian Wu, Jianliang Yao, Yan Liu, Junzeng Xue, Qinghua Cai, Jiankang Liu. Seasonal variation and longitudinal distribution characters of cladocerans in the Three Gorges Reservoir [J]. Biodiv Sci, 2009, 17(5): 512-517. |
[7] | Jie Li, Chaodong Zhu, Fenghe Wang, Dunyuan Huang, Yanzhou Zhang, Liang Ding, Hairong Huang, . Current research on the status of wild bees and their pollination roles [J]. Biodiv Sci, 2007, 15(6): 687-692. |
[8] | Yanbing Gong, Shuangquan Huang. On methodology of foraging behavior of pollinating insects [J]. Biodiv Sci, 2007, 15(6): 576-583. |
[9] | Jianliang Yao, Junzeng Xue, Dengyuan Wang, Qinghua Cai, Xiangfei Huang, Jiankang Liu . Seasonal variation and longitudinal distribution of copepods in the main river area of the Three Gorges Reservoir [J]. Biodiv Sci, 2007, 15(3): 300-305. |
[10] | Wanze Zhu, Xiaohu Cai, Fei He, Jinxi Wang. Response of species diversity to restoration succession: the case of the moist evergreen broad-leaved forests in the western edge of Sichuan Basin [J]. Biodiv Sci, 2006, 14(1): 1-12. |
[11] | YAN Yue-Hong, YI Qi-Fei, HUANG Zhong-Liang, XING Fu-Wu. The ecological response of fern diversity to vegetation succession in Gudoushan Nature Reserve, Guangdong [J]. Biodiv Sci, 2004, 12(3): 339-347. |
[12] | YU Xiao-Dong, ZHOU Hong-Zhang, LUO Tian-Hong. Interactions of insects and oak trees and their impacts on the regeneration of oakwoods [J]. Biodiv Sci, 2002, 10(2): 225-231. |
[13] | JIA Feng-Long, LIANG Ge-Qiu, CHEN Zhen-Yao, PANG Hong, XIE Wei-Cai, CHEN Li-Er, YE Gui-Dong. Species diversity of beetles of Mt.Wutongshan [J]. Biodiv Sci, 2000, 08(2): 169-171. |
[14] | YANG Da-Rong. The status of species diversity and conservation strategy of bumble bees, a pollination insect in Lancang River Basin of Yunnan, China [J]. Biodiv Sci, 1999, 07(3): 170-174. |
[15] | CHEN Xiao-Ming. The resources conservation of lac insects in Kerria and its utilization [J]. Biodiv Sci, 1998, 06(4): 287-291. |
Viewed | ||||||
Full text |
|
|||||
Abstract |
|
|||||
Copyright © 2022 Biodiversity Science
Editorial Office of Biodiversity Science, 20 Nanxincun, Xiangshan, Beijing 100093, China
Tel: 010-62836137, 62836665 E-mail: biodiversity@ibcas.ac.cn