-
1
-
-
70149113478
-
A new phylogenetic diversity measure generalizing the Shannon index and its application to phyllostomid bats
-
Allen, B., Kon, M. & Bar-Yam, Y. (2009) A new phylogenetic diversity measure generalizing the Shannon index and its application to phyllostomid bats. The American Naturalist, 174, 236-243.
-
(2009)
The American Naturalist
, vol.174
, pp. 236-243
-
-
Allen, B.1
Kon, M.2
Bar-Yam, Y.3
-
2
-
-
79955456912
-
Performance, accuracy, and web server for evolutionary placement of short sequence reads under maximum likelihood
-
Berger, S.A., Krompass, D. & Stamatakis, A. (2011) Performance, accuracy, and web server for evolutionary placement of short sequence reads under maximum likelihood. Systematic Biology, 60, 291-302.
-
(2011)
Systematic Biology
, vol.60
, pp. 291-302
-
-
Berger, S.A.1
Krompass, D.2
Stamatakis, A.3
-
3
-
-
34047108602
-
The delayed rise of present-day mammals
-
Bininda-Emonds, O.R.P., Cardillo, M., Jones, K.E., MacPhee, R., Beck, R.M.D., Grenyer, R., Price, S., Vos, R., Gittleman, J.L. & Purvis, A. (2007) The delayed rise of present-day mammals. Nature, 446, 507-512.
-
(2007)
Nature
, vol.446
, pp. 507-512
-
-
Bininda-Emonds, O.R.P.1
Cardillo, M.2
Jones, K.E.3
MacPhee, R.4
Beck, R.M.D.5
Grenyer, R.6
Price, S.7
Vos, R.8
Gittleman, J.L.9
Purvis, A.10
-
4
-
-
66349094682
-
Using phylogenetic, functional and trait diversity to understand patterns of plant community of productivity
-
Cadotte, M., Cavender-Bares, J., Tilman, D. & Oakley, T.H. (2009) Using phylogenetic, functional and trait diversity to understand patterns of plant community of productivity. PLOS ONE, 4, e5695.
-
(2009)
PLOS ONE
, vol.4
-
-
Cadotte, M.1
Cavender-Bares, J.2
Tilman, D.3
Oakley, T.H.4
-
5
-
-
84861347511
-
The Western English Channel contains a persistent microbial seed bank
-
Caporaso, J.G., Paszkiewicz, K., Field, D., Knight, R. & Gilbert, J.A. (2012) The Western English Channel contains a persistent microbial seed bank. ISME Journal, 6, 1089-1093.
-
(2012)
ISME Journal
, vol.6
, pp. 1089-1093
-
-
Caporaso, J.G.1
Paszkiewicz, K.2
Field, D.3
Knight, R.4
Gilbert, J.A.5
-
6
-
-
84871737233
-
Coverage-based rarefaction and extrapolation: standardizing samples by completeness rather than size
-
Chao, A. & Jost, L. (2012) Coverage-based rarefaction and extrapolation: standardizing samples by completeness rather than size. Ecology, 93, 2533-2547.
-
(2012)
Ecology
, vol.93
, pp. 2533-2547
-
-
Chao, A.1
Jost, L.2
-
7
-
-
78650407057
-
Phylogenetic diversity measures based on hill numbers
-
Chao, A., Chiu, C.H. & Jost, L. (2010) Phylogenetic diversity measures based on hill numbers. Philosophical Transactions of the Royal Society B: Biological Sciences, 365, 3599-3609.
-
(2010)
Philosophical Transactions of the Royal Society B: Biological Sciences
, vol.365
, pp. 3599-3609
-
-
Chao, A.1
Chiu, C.H.2
Jost, L.3
-
8
-
-
49249113020
-
Discovering and rediscovering the sample-based rarefaction formula in the ecological literature
-
Chiarucci, A., Bacaro, G., Rocchini, D. & Fattorini, L. (2008) Discovering and rediscovering the sample-based rarefaction formula in the ecological literature. Community Ecology, 9, 121-123.
-
(2008)
Community Ecology
, vol.9
, pp. 121-123
-
-
Chiarucci, A.1
Bacaro, G.2
Rocchini, D.3
Fattorini, L.4
-
9
-
-
84862908094
-
Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages
-
Colwell, R.K., Chao, A., Gotelli, N.J., Lin, S.Y., Mao, C.X., Chazdon, R.L. & Longino, J.T. (2012) Models and estimators linking individual-based and sample-based rarefaction, extrapolation and comparison of assemblages. Journal of Plant Ecology, 5, 3-21.
-
(2012)
Journal of Plant Ecology
, vol.5
, pp. 3-21
-
-
Colwell, R.K.1
Chao, A.2
Gotelli, N.J.3
Lin, S.Y.4
Mao, C.X.5
Chazdon, R.L.6
Longino, J.T.7
-
10
-
-
33746673919
-
Additive partitioning of rarefaction curves and species-area relationships: unifying α-, β-and γ-diversity with sample size and habitat area
-
Crist, T.O. & Veech, J.A. (2006) Additive partitioning of rarefaction curves and species-area relationships: unifying α-, β-and γ-diversity with sample size and habitat area. Ecology Letters, 9, 923-932.
-
(2006)
Ecology Letters
, vol.9
, pp. 923-932
-
-
Crist, T.O.1
Veech, J.A.2
-
11
-
-
33847225223
-
Environmental predictors of global parrot (aves: Psittaciformes) species richness and phylogenetic diversity
-
Davies, R.G., Orme, C.D.L., Webster, A.J. Jones, K.E., Blackburn, T.M. & Gaston, K.J. (2006) Environmental predictors of global parrot (aves: Psittaciformes) species richness and phylogenetic diversity. Global Ecology and Biogeography, 16, 220-233.
-
(2006)
Global Ecology and Biogeography
, vol.16
, pp. 220-233
-
-
Davies, R.G.1
Orme, C.D.L.2
Webster, A.J.3
Jones, K.E.4
Blackburn, T.M.5
Gaston, K.J.6
-
12
-
-
79960550162
-
Phylogenetic diversity as a window into the evolutionary and biogeographic histories of present-day richness gradients for mammals
-
Davies, T.J & Buckley, L.B. (2011) Phylogenetic diversity as a window into the evolutionary and biogeographic histories of present-day richness gradients for mammals. Philosophical Transactions of the Royal Society of London B: Biological Sciences, 366, 2414-2425.
-
(2011)
Philosophical Transactions of the Royal Society of London B: Biological Sciences
, vol.366
, pp. 2414-2425
-
-
Davies, T.J.1
Buckley, L.B.2
-
13
-
-
79960550162
-
Phylogenetic diversity as a window into the evolutionary and biogeographic histories of present-day richness gradients for mammals
-
Davies, T.J., Buckley, L.B., Davies, T.J. & Buckley, L.B. (2011) Phylogenetic diversity as a window into the evolutionary and biogeographic histories of present-day richness gradients for mammals. Philosophical Transactions of the Royal Society B: Biological Sciences, 366, 2414-2425.
-
(2011)
Philosophical Transactions of the Royal Society B: Biological Sciences
, vol.366
, pp. 2414-2425
-
-
Davies, T.J.1
Buckley, L.B.2
Davies, T.J.3
Buckley, L.B.4
-
14
-
-
0026499429
-
Conservation evaluation and phylogenetic diversity
-
Faith, D.P. (1992) Conservation evaluation and phylogenetic diversity. Biological Conservation, 61, 1-10.
-
(1992)
Biological Conservation
, vol.61
, pp. 1-10
-
-
Faith, D.P.1
-
15
-
-
0000283560
-
Conservation priorities and phylogenetic pattern
-
Faith, D.P. (1996) Conservation priorities and phylogenetic pattern. Conservation Biology, 10, 1286-1289.
-
(1996)
Conservation Biology
, vol.10
, pp. 1286-1289
-
-
Faith, D.P.1
-
16
-
-
72849129069
-
The role of the phylogenetic diversity measure, PD, in bio-informatics: Getting the definition right
-
Faith, D.P. (2006) The role of the phylogenetic diversity measure, PD, in bio-informatics: Getting the definition right. Evolutionary Bioinformatics Online, 2, 277-283.
-
(2006)
Evolutionary Bioinformatics Online
, vol.2
, pp. 277-283
-
-
Faith, D.P.1
-
17
-
-
1242310425
-
Integrating phylogenetic diversity, complementarity, and endemism for conservation assessment
-
Faith, D.P., Reid, C.A.M. & Hunter, J. (2004) Integrating phylogenetic diversity, complementarity, and endemism for conservation assessment. Conservation Biology, 18, 255-261.
-
(2004)
Conservation Biology
, vol.18
, pp. 255-261
-
-
Faith, D.P.1
Reid, C.A.M.2
Hunter, J.3
-
18
-
-
71649105829
-
The cladistic basis for the Phylogenetic Diversity (PD) measure links evolutionary features to environmental gradients and supports broad applications of microbial ecology's "phylogenetic beta diversity" framework
-
Faith, D.P., Lozupone, C.A., Nipperess, D.A. & Knight, R. (2009) The cladistic basis for the Phylogenetic Diversity (PD) measure links evolutionary features to environmental gradients and supports broad applications of microbial ecology's "phylogenetic beta diversity" framework. International Journal of Molecular Sciences, 10, 4723-4741.
-
(2009)
International Journal of Molecular Sciences
, vol.10
, pp. 4723-4741
-
-
Faith, D.P.1
Lozupone, C.A.2
Nipperess, D.A.3
Knight, R.4
-
19
-
-
39749116275
-
Distribution of phylogenetic diversity under random extinction
-
Faller, B., Pardi, F. & Steel, M. (2008) Distribution of phylogenetic diversity under random extinction. Journal of Theoretical Biology, 251, 286-296.
-
(2008)
Journal of Theoretical Biology
, vol.251
, pp. 286-296
-
-
Faller, B.1
Pardi, F.2
Steel, M.3
-
20
-
-
34247340904
-
Using generalized dissimilarity modelling to analyse and predict patterns of beta diversity in regional biodiversity assessment
-
Ferrier, S., Manion, G., Elith, J. & Richardson, K. (2007) Using generalized dissimilarity modelling to analyse and predict patterns of beta diversity in regional biodiversity assessment. Diversity and Distributions, 13, 252-264.
-
(2007)
Diversity and Distributions
, vol.13
, pp. 252-264
-
-
Ferrier, S.1
Manion, G.2
Elith, J.3
Richardson, K.4
-
21
-
-
33847171828
-
Preserving the evolutionary potential of floras in biodiversity hotspots
-
Forest, F., Grenyer, R., Rouget, M., Davies, T.J., Cowling, R.M., Faith, D.P., Balmford, A., Manning, J.C., der Bank, M., Reeves, G. et al. (2007) Preserving the evolutionary potential of floras in biodiversity hotspots. Nature, 445, 757-760.
-
(2007)
Nature
, vol.445
, pp. 757-760
-
-
Forest, F.1
Grenyer, R.2
Rouget, M.3
Davies, T.J.4
Cowling, R.M.5
Faith, D.P.6
Balmford, A.7
Manning, J.C.8
der Bank, M.9
Reeves, G.10
-
22
-
-
27644443333
-
Molecular identification of bacteria associated with bacterial vaginosis
-
Fredricks, D.N., Fiedler, T.L. & Marrazzo, J.M. (2005) Molecular identification of bacteria associated with bacterial vaginosis. New England Journal of Medicine, 353, 1899-1911.
-
(2005)
New England Journal of Medicine
, vol.353
, pp. 1899-1911
-
-
Fredricks, D.N.1
Fiedler, T.L.2
Marrazzo, J.M.3
-
23
-
-
0034870192
-
Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness
-
Gotelli, N.J. & Colwell, R.K. (2001) Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness. Ecology Letters, 4, 379-391.
-
(2001)
Ecology Letters
, vol.4
, pp. 379-391
-
-
Gotelli, N.J.1
Colwell, R.K.2
-
24
-
-
0000917309
-
Explicit calculation of the rarefaction diversity measurement and the determination of sufficient sample size
-
Heck Jr, K.L., van Belle, G. & Simberloff, D. (1975) Explicit calculation of the rarefaction diversity measurement and the determination of sufficient sample size. Ecology, 56, 1459-1461.
-
(1975)
Ecology
, vol.56
, pp. 1459-1461
-
-
Heck Jr., K.L.1
van Belle, G.2
Simberloff, D.3
-
25
-
-
0000006498
-
Diversity and evenness: a unifying notation and its consequences
-
Hill, M.O. (1973) Diversity and evenness: a unifying notation and its consequences. Ecology, 54, 427-432.
-
(1973)
Ecology
, vol.54
, pp. 427-432
-
-
Hill, M.O.1
-
26
-
-
0000752502
-
The nonconcept of species diversity: a critique and alternative parameters
-
Hurlbert, S. (1971) The nonconcept of species diversity: a critique and alternative parameters. Ecology, 52, 577-586.
-
(1971)
Ecology
, vol.52
, pp. 577-586
-
-
Hurlbert, S.1
-
27
-
-
33847702910
-
MEGAN analysis of metagenomic data
-
Huson, D.H., Auch, A.F., Qi, J. & Schuster, S.C. (2007) MEGAN analysis of metagenomic data. Genome Research, 17, 377-386.
-
(2007)
Genome Research
, vol.17
, pp. 377-386
-
-
Huson, D.H.1
Auch, A.F.2
Qi, J.3
Schuster, S.C.4
-
28
-
-
44849128805
-
Species divergence and the measurement of microbial diversity
-
Lozupone, C.A. & Knight, R. (2008) Species divergence and the measurement of microbial diversity. FEMS Microbiology Reviews, 32, 557-578.
-
(2008)
FEMS Microbiology Reviews
, vol.32
, pp. 557-578
-
-
Lozupone, C.A.1
Knight, R.2
-
29
-
-
77958610660
-
pplacer: linear time maximum-likelihood and bayesian phylogenetic placement of sequences onto a fixed reference tree
-
Matsen, F.A., Kodner, R.B. & Armbrust, E.V. (2010) pplacer: linear time maximum-likelihood and bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics, 11, 538.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 538
-
-
Matsen, F.A.1
Kodner, R.B.2
Armbrust, E.V.3
-
30
-
-
80053623201
-
Beyond taxonomic diversity patterns: how do α, β and γ components of bird functional and phylogenetic diversity respond to environmental gradients across France?
-
Meynard, C.N., Devictor, V., Mouillot, D., Thuiller, W., Jiguet, F. & Mouquet, N. (2011) Beyond taxonomic diversity patterns: how do α, β and γ components of bird functional and phylogenetic diversity respond to environmental gradients across France? Global Ecology and Biogeography, 20, 893-903.
-
(2011)
Global Ecology and Biogeography
, vol.20
, pp. 893-903
-
-
Meynard, C.N.1
Devictor, V.2
Mouillot, D.3
Thuiller, W.4
Jiguet, F.5
Mouquet, N.6
-
31
-
-
78751685517
-
Spatial patterns of phylogenetic diversity
-
Morlon, H., Schwilk, D.W., Bryant, J.A., Marquet, P.A., Rebelo, A.G. Tauss, C., Bohannan, B.J.M. & Green, J.L. (2011) Spatial patterns of phylogenetic diversity. Ecology Letters, 14, 141-149.
-
(2011)
Ecology Letters
, vol.14
, pp. 141-149
-
-
Morlon, H.1
Schwilk, D.W.2
Bryant, J.A.3
Marquet, P.A.4
Rebelo, A.G.5
Tauss, C.6
Bohannan, B.J.M.7
Green, J.L.8
-
32
-
-
77956309163
-
Resemblance in phylogenetic diversity among ecological assemblages
-
Nipperess, D.A., Faith, D.P. & Barton, K. (2010) Resemblance in phylogenetic diversity among ecological assemblages. Journal of Vegetation Science, 21, 809-820.
-
(2010)
Journal of Vegetation Science
, vol.21
, pp. 809-820
-
-
Nipperess, D.A.1
Faith, D.P.2
Barton, K.3
-
33
-
-
0026088584
-
Reliability of diagnosing bacterial vaginosis is improved by a standardized method of gram stain interpretation
-
Nugent, R.P., Krohn, M.A. & Hillier, S.L. (1991) Reliability of diagnosing bacterial vaginosis is improved by a standardized method of gram stain interpretation. Journal of Clinical Microbiology, 29, 297-301.
-
(1991)
Journal of Clinical Microbiology
, vol.29
, pp. 297-301
-
-
Nugent, R.P.1
Krohn, M.A.2
Hillier, S.L.3
-
34
-
-
84872038980
-
Phylogenetic diversity theory sheds light on the structure of microbial communities
-
O'Dwyer, J.P., Kembel, S. W. & Green, J.L. (2012) Phylogenetic diversity theory sheds light on the structure of microbial communities. PLOS Computational Biology 8, e1002832.
-
(2012)
PLOS Computational Biology
, vol.8
-
-
O'Dwyer, J.P.1
Kembel, S.W.2
Green, J.L.3
-
35
-
-
0035181573
-
Terrestrial ecoregions of the world: a new map of life on Earth
-
Olson, D.M., Dinerstein, E., Wikramanayake, E., Burgess, N., Powell, G., Underwood, E., D'Amico, J., Itoua, I., Strand, H., Morrison, J., Loucks, C., Allnutt, T., Ricketts, T.H., Kura, Y., Lamoreux, J., Wettengel, W., Hedao, P. & Kassem, K. (2001) Terrestrial ecoregions of the world: a new map of life on Earth. BioScience, 51, 933-938.
-
(2001)
BioScience
, vol.51
, pp. 933-938
-
-
Olson, D.M.1
Dinerstein, E.2
Wikramanayake, E.3
Burgess, N.4
Powell, G.5
Underwood, E.6
D'Amico, J.7
Itoua, I.8
Strand, H.9
Morrison, J.10
Loucks, C.11
Allnutt, T.12
Ricketts, T.H.13
Kura, Y.14
Lamoreux, J.15
Wettengel, W.16
Hedao, P.17
Kassem, K.18
-
36
-
-
0942299969
-
A unified mathematical framework for the measurement of richness and evenness within and among multiple communities
-
Olszewski, T.D. (2004) A unified mathematical framework for the measurement of richness and evenness within and among multiple communities. Oikos, 104, 377-387.
-
(2004)
Oikos
, vol.104
, pp. 377-387
-
-
Olszewski, T.D.1
-
37
-
-
34548546830
-
Resource-aware taxon selection for maximizing phylogenetic diversity
-
Pardi, F. & Goldman, N. (2007) Resource-aware taxon selection for maximizing phylogenetic diversity. Systematic Biology, 56, 431-444.
-
(2007)
Systematic Biology
, vol.56
, pp. 431-444
-
-
Pardi, F.1
Goldman, N.2
-
38
-
-
84861574806
-
Microbiome analysis among bats describes influences of host phylogeny, life history, physiology and geography
-
Phillips, C.D., Phelan, G., Dowd, S.E., MCdonough, M.M., Ferguson, A.W., Delton Hanson, J., Siles, L., Ordóñez-garza, N., San Francisco, M. & Baker, R.J. (2012) Microbiome analysis among bats describes influences of host phylogeny, life history, physiology and geography. Molecular Ecology, 21, 2617-2627.
-
(2012)
Molecular Ecology
, vol.21
, pp. 2617-2627
-
-
Phillips, C.D.1
Phelan, G.2
Dowd, S.E.3
MCdonough, M.M.4
Ferguson, A.W.5
Hanson, J.D.6
Siles, L.7
Ordóñez-garza, N.8
San Francisco, M.9
Baker, R.J.10
-
39
-
-
84870338520
-
R Foundation for Statistical Computing, Vienna, Austria
-
R Development Core Team R: A Language and Environment for Statistical Computing. . URL
-
R Development Core Team (2010) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. URL http://www.Rproject.org/.
-
(2010)
-
-
-
40
-
-
0003143622
-
Diversity and dissimilarity coefficients: a unified approach
-
Rao, C.R. (1982) Diversity and dissimilarity coefficients: a unified approach. Theoretical Population Biology, 21, 24-43.
-
(1982)
Theoretical Population Biology
, vol.21
, pp. 24-43
-
-
Rao, C.R.1
-
41
-
-
70349329723
-
Phylogenetic endemism: a new approach for identifying geographical concentrations of evolutionary history
-
Rosauer, D., Laffan, S.W., Crisp, M.D., Donnellan, S.C. & Cook, L.G. (2009) Phylogenetic endemism: a new approach for identifying geographical concentrations of evolutionary history. Molecular Ecology, 18, 4061-4072.
-
(2009)
Molecular Ecology
, vol.18
, pp. 4061-4072
-
-
Rosauer, D.1
Laffan, S.W.2
Crisp, M.D.3
Donnellan, S.C.4
Cook, L.G.5
-
42
-
-
84862501725
-
Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria
-
Srinivasan, S., Hoffman, N.G., Morgan, M.T., Matsen, F.A., Fiedler, T.L., Hall, R.W., Ross, F.J., McCoy, C.O., Bumgarner, R. & Marrazzo, J.M., et al. (2012) Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria. PLOS ONE, 7, e37818.
-
(2012)
PLOS ONE
, vol.7
-
-
Srinivasan, S.1
Hoffman, N.G.2
Morgan, M.T.3
Matsen, F.A.4
Fiedler, T.L.5
Hall, R.W.6
Ross, F.J.7
McCoy, C.O.8
Bumgarner, R.9
Marrazzo, J.M.10
-
43
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
Turnbaugh, P.J., Hamady, M., Yatsunenko, T., Cantarel, B.L., Duncan, A., Ley, R.E., Sogin, M.L., Jones, W.J., Roe, B.A. & Affourtit, J.P. et al. (2008) A core gut microbiome in obese and lean twins. Nature, 457, 480-484.
-
(2008)
Nature
, vol.457
, pp. 480-484
-
-
Turnbaugh, P.J.1
Hamady, M.2
Yatsunenko, T.3
Cantarel, B.L.4
Duncan, A.5
Ley, R.E.6
Sogin, M.L.7
Jones, W.J.8
Roe, B.A.9
Affourtit, J.P.10
-
44
-
-
0042196194
-
The species-accumulation curve and estimation of species richness
-
Ugland, K.I., Gray, J.S. & Ellingsen, K.E. (2003) The species-accumulation curve and estimation of species richness. Journal of Animal Ecology, 72, 888-897.
-
(2003)
Journal of Animal Ecology
, vol.72
, pp. 888-897
-
-
Ugland, K.I.1
Gray, J.S.2
Ellingsen, K.E.3
-
45
-
-
0029477712
-
New 'biodiversity' measures reveal a decrease in taxonomic distinctness with increasing stress
-
Warwick, R.M. & Clarke, K.R., et al. (1995) New 'biodiversity' measures reveal a decrease in taxonomic distinctness with increasing stress. Marine Ecology Progress Series, 129, 301-305.
-
(1995)
Marine Ecology Progress Series
, vol.129
, pp. 301-305
-
-
Warwick, R.M.1
Clarke, K.R.2
-
46
-
-
84866642478
-
Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring
-
Yu, D.W., Ji, Y., Emerson, B.C. & Wang, X. (2012) Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring. Methods in Ecology and Evolution, 3, 613-623.
-
(2012)
Methods in Ecology and Evolution
, vol.3
, pp. 613-623
-
-
Yu, D.W.1
Ji, Y.2
Emerson, B.C.3
Wang, X.4
|