-
1
-
-
0037329391
-
Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence
-
ALFARO, M. E., S. ZOLLER, AND F. LUTZONI. 2003. Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Molecular Biology and Evolution 20:255-266.
-
(2003)
Molecular Biology and Evolution
, vol.20
, pp. 255-266
-
-
ALFARO, M.E.1
ZOLLER, S.2
LUTZONI, F.3
-
3
-
-
0342956420
-
-
AMERICAN ORNITHOLOGISTS' UNION, 2nd ed. American Ornithologists' Union, New York
-
AMERICAN ORNITHOLOGISTS' UNION. 1895. Checklist of North American Birds, 2nd ed. American Ornithologists' Union, New York.
-
(1895)
Checklist of North American Birds
-
-
-
4
-
-
15244353076
-
-
AMERICAN ORNITHOLOGISTS' UNION, 3rd ed. American Ornithologists' Union, New York
-
AMERICAN ORNITHOLOGISTS' UNION. 1910. Checklist of North American Birds, 3rd ed. American Ornithologists' Union, New York.
-
(1910)
Checklist of North American Birds
-
-
-
5
-
-
0003605613
-
-
AMERICAN ORNITHOLOGISTS' UNION, 5th ed. American Ornithologists' Union, Baltimore, Maryland
-
AMERICAN ORNITHOLOGISTS' UNION. 1957. Checklist of North American Birds, 5th ed. American Ornithologists' Union, Baltimore, Maryland.
-
(1957)
Checklist of North American Birds
-
-
-
6
-
-
0003605608
-
-
AMERICAN ORNITHOLOGISTS' UNION, 7th ed. American Ornithologists' Union, Washington, D.C
-
AMERICAN ORNITHOLOGISTS' UNION. 1998. Checklist of North American Birds, 7th ed. American Ornithologists' Union, Washington, D.C.
-
(1998)
Checklist of North American Birds
-
-
-
9
-
-
9944255059
-
Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards
-
BRANDLEY, M. C., A. SCHMITZ, AND T. W. REEDER. 2005. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationships of scincid lizards. Systematic Biology 54:373-390.
-
(2005)
Systematic Biology
, vol.54
, pp. 373-390
-
-
BRANDLEY, M.C.1
SCHMITZ, A.2
REEDER, T.W.3
-
10
-
-
0344961789
-
A phylogenetic analysis of the emberizid sparrows based on three mitochondrial genes
-
CARSON, R. J., AND G. S. SPICER. 2003. A phylogenetic analysis of the emberizid sparrows based on three mitochondrial genes. Molecular Phylogenetics and Evolution 29:43-57.
-
(2003)
Molecular Phylogenetics and Evolution
, vol.29
, pp. 43-57
-
-
CARSON, R.J.1
SPICER, G.S.2
-
13
-
-
0031224810
-
Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods
-
CUNNINGHAM, C. W. 1997. Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods. Systematic Biology 46:464-478.
-
(1997)
Systematic Biology
, vol.46
, pp. 464-478
-
-
CUNNINGHAM, C.W.1
-
14
-
-
2142706762
-
Hybridization among the fringillid genera Junco-Zonotrichia and Melospiza
-
DICKERMAN, R. W. 1961. Hybridization among the fringillid genera Junco-Zonotrichia and Melospiza. Auk 78:627-632.
-
(1961)
Auk
, vol.78
, pp. 627-632
-
-
DICKERMAN, R.W.1
-
15
-
-
0345416871
-
On the Sierra Madre Sparrow, Xenospiza baileyi, of Mexico
-
DICKERMAN, R. W., A. R. PHILLIPS, AND D. W. WARNER. 1967. On the Sierra Madre Sparrow, Xenospiza baileyi, of Mexico. Auk 84:49-60.
-
(1967)
Auk
, vol.84
, pp. 49-60
-
-
DICKERMAN, R.W.1
PHILLIPS, A.R.2
WARNER, D.W.3
-
16
-
-
0020383192
-
Problems in distinguishing historical from ecological factors in biogeography
-
ENDLER, J. A. 1982. Problems in distinguishing historical from ecological factors in biogeography. American Zoologist 22:441-452.
-
(1982)
American Zoologist
, vol.22
, pp. 441-452
-
-
ENDLER, J.A.1
-
17
-
-
0242487486
-
Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics
-
ERIXON, P., B. SVENNBLAD, T. BRITTON, AND B. OXELMAN. 2003. Reliability of Bayesian posterior probabilities and bootstrap frequencies in phylogenetics. Systematic Biology 52:665-673.
-
(2003)
Systematic Biology
, vol.52
, pp. 665-673
-
-
ERIXON, P.1
SVENNBLAD, B.2
BRITTON, T.3
OXELMAN, B.4
-
18
-
-
84989432221
-
Testing significance of incongruence
-
FARRIS, J. S., M. KÄLLERSJÖ, A. G. KLUGE, AND C. BULT. 1995. Testing significance of incongruence. Cladistics 10:315-319.
-
(1995)
Cladistics
, vol.10
, pp. 315-319
-
-
FARRIS, J.S.1
KÄLLERSJÖ, M.2
KLUGE, A.G.3
BULT, C.4
-
19
-
-
84959798530
-
Cases in which parsimony or compatibility methods will be positively misleading
-
FELSENSTEIN, J. 1978. Cases in which parsimony or compatibility methods will be positively misleading. Systematic Biology 27:401-410.
-
(1978)
Systematic Biology
, vol.27
, pp. 401-410
-
-
FELSENSTEIN, J.1
-
20
-
-
0000461280
-
Confidence limits on phylogenies: An approach utilizing the bootstrap
-
FELSENSTEIN, J. 1985. Confidence limits on phylogenies: An approach utilizing the bootstrap. Evolution 39:783-791.
-
(1985)
Evolution
, vol.39
, pp. 783-791
-
-
FELSENSTEIN, J.1
-
21
-
-
0031157173
-
Correlation of functional domains and rates of nucleotide substitution in cytochrome b
-
GRIFFITHS, C. S. 1997. Correlation of functional domains and rates of nucleotide substitution in cytochrome b. Molecular Phylogenetics and Evolution 7:352-365.
-
(1997)
Molecular Phylogenetics and Evolution
, vol.7
, pp. 352-365
-
-
GRIFFITHS, C.S.1
-
22
-
-
0030125185
-
Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves)
-
HACKETT, S. J. 1996. Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves). Molecular Phylogenetics and Evolution 5:368-382.
-
(1996)
Molecular Phylogenetics and Evolution
, vol.5
, pp. 368-382
-
-
HACKETT, S.J.1
-
23
-
-
0003399647
-
-
Ph.D. dissertation, University of Chicago, Chicago, Illinois
-
HARSHMAN, J. 1996. Phylogeny, evolutionary rates, and ducks. Ph.D. dissertation, University of Chicago, Chicago, Illinois.
-
(1996)
Phylogeny, evolutionary rates, and ducks
-
-
HARSHMAN, J.1
-
24
-
-
12044253190
-
An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis
-
HILLIS, D. M., AND J. J. BULL. 1993. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology 42:182-192.
-
(1993)
Systematic Biology
, vol.42
, pp. 182-192
-
-
HILLIS, D.M.1
BULL, J.J.2
-
25
-
-
11944268967
-
Performance of phylogenetic methods in simulation
-
HUELSENBECK, J. P. 1995. Performance of phylogenetic methods in simulation. Systematic Biology 44:17-48.
-
(1995)
Systematic Biology
, vol.44
, pp. 17-48
-
-
HUELSENBECK, J.P.1
-
26
-
-
0034849408
-
MRBAYES: Bayesian inference of phylogenetic trees
-
HUELSENBECK, J. P., AND F. RONQUIST. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17:754-755
-
(2001)
Bioinformatics
, vol.17
, pp. 754-755
-
-
HUELSENBECK, J.P.1
RONQUIST, F.2
-
27
-
-
0032135217
-
Comparing molecular evolution in two mitochondrial protein coding genes (cytochrome b and ND2) in the dabbling ducks (Tribe Anatini)
-
JOHNSON, K. P., AND M. D. SORENSON. 1998. Comparing molecular evolution in two mitochondrial protein coding genes (cytochrome b and ND2) in the dabbling ducks (Tribe Anatini). Molecular Phylogenetics and Evolution 10:82-94.
-
(1998)
Molecular Phylogenetics and Evolution
, vol.10
, pp. 82-94
-
-
JOHNSON, K.P.1
SORENSON, M.D.2
-
28
-
-
0034800468
-
A cytochrome-b perspective on Passerina bunting relationships
-
KLICKA, J., A. J. FRY, R. M. ZINK, AND C. W. THOMPSON. 2001. A cytochrome-b perspective on Passerina bunting relationships. Auk 118:610-623.
-
(2001)
Auk
, vol.118
, pp. 610-623
-
-
KLICKA, J.1
FRY, A.J.2
ZINK, R.M.3
THOMPSON, C.W.4
-
29
-
-
0028177080
-
A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates
-
KUHNER, M. K., AND J. FELSENSTEIN. 1994. A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates. Molecular Biology and Evolution 11:459-468.
-
(1994)
Molecular Biology and Evolution
, vol.11
, pp. 459-468
-
-
KUHNER, M.K.1
FELSENSTEIN, J.2
-
30
-
-
3242810318
-
MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
-
KUMAR, S., K. TAMURA, AND M. NEI. 2004. MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Briefings in Bioinformatics 5:150-163.
-
(2004)
Briefings in Bioinformatics
, vol.5
, pp. 150-163
-
-
KUMAR, S.1
TAMURA, K.2
NEI, M.3
-
31
-
-
0002165947
-
Phylogenetic frameworks: Towards a firmer foundation for the comparative approach
-
LANYON, S. M. 1993. Phylogenetic frameworks: Towards a firmer foundation for the comparative approach. Biological Journal of the Linnean Society 49:45-61.
-
(1993)
Biological Journal of the Linnean Society
, vol.49
, pp. 45-61
-
-
LANYON, S.M.1
-
32
-
-
0037568241
-
Variations in the Fox Sparrow (Passerella iliaca) with reference to natural history and osteology
-
LINSDALE, J. M. 1928. Variations in the Fox Sparrow (Passerella iliaca) with reference to natural history and osteology. University of California Publications in Zoology 30:251-392.
-
(1928)
University of California Publications in Zoology
, vol.30
, pp. 251-392
-
-
LINSDALE, J.M.1
-
34
-
-
0345513642
-
The relationships of sparrows in the genera Ammodramus, Passerherbulus, and Ammospiza with a description of a hybrid Le Conte's x Sharp-tailed Sparrrow
-
MURRAY, B. G., JR. 1968. The relationships of sparrows in the genera Ammodramus, Passerherbulus, and Ammospiza with a description of a hybrid Le Conte's x Sharp-tailed Sparrrow. Auk 85:586-593.
-
(1968)
Auk
, vol.85
, pp. 586-593
-
-
MURRAY JR., B.G.1
-
35
-
-
34249110746
-
Notes on the nomenclature of certain genera of birds
-
OBERHOLSER, H. C. 1905. Notes on the nomenclature of certain genera of birds. Smithsonian Miscellaneous Collection 48:59-68.
-
(1905)
Smithsonian Miscellaneous Collection
, vol.48
, pp. 59-68
-
-
OBERHOLSER, H.C.1
-
36
-
-
34248999540
-
Notes on the fringilline genus Passerherbulus and its newest allies
-
OBERHOLSER, H. C. 1917. Notes on the fringilline genus Passerherbulus and its newest allies. Ohio Journal of Science 17:332-336.
-
(1917)
Ohio Journal of Science
, vol.17
, pp. 332-336
-
-
OBERHOLSER, H.C.1
-
37
-
-
0031967286
-
Systematic relationships among the emberizid sparrows
-
PATTEN, M. A., AND M. FUGATE. 1998. Systematic relationships among the emberizid sparrows. Auk 115:412-424.
-
(1998)
Auk
, vol.115
, pp. 412-424
-
-
PATTEN, M.A.1
FUGATE, M.2
-
38
-
-
0345513643
-
Generic limits of Zonotrichia
-
PAYNTER, R. A., JR. 1964. Generic limits of Zonotrichia. Condor 66:277-281.
-
(1964)
Condor
, vol.66
, pp. 277-281
-
-
PAYNTER JR., R.A.1
-
39
-
-
85018008542
-
-
PAYNTER, R. A., JR., AND R. W. STORER. 1970. Subfamily Emberizinae. Pages 3-214 in Check-list of Birds of the World, 13 (R. A. Paynter, Jr., Ed.). Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts.
-
PAYNTER, R. A., JR., AND R. W. STORER. 1970. Subfamily Emberizinae. Pages 3-214 in Check-list of Birds of the World, vol. 13 (R. A. Paynter, Jr., Ed.). Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts.
-
-
-
-
40
-
-
85018001735
-
-
PHILLIPS, A. R., J. T. MARSHALL, JR., AND G. MONSON. 1964. The Birds of Arizona. University of Arizona Press, Tucson, Arizona.
-
PHILLIPS, A. R., J. T. MARSHALL, JR., AND G. MONSON. 1964. The Birds of Arizona. University of Arizona Press, Tucson, Arizona.
-
-
-
-
41
-
-
33646270463
-
Taxonomy and distribution of the Mexican Sparrow Xenospiza baileyi
-
PITELKA, F. A. 1947. Taxonomy and distribution of the Mexican Sparrow Xenospiza baileyi. Condor 49:199-203.
-
(1947)
Condor
, vol.49
, pp. 199-203
-
-
PITELKA, F.A.1
-
42
-
-
9644301241
-
Model selection and model averaging in phylogenetics: Advantages of Akaike Information Criterion and Bayesian approaches over likelihood ratio tests
-
POSADA, D., AND T. R. BUCKLEY. 2004. Model selection and model averaging in phylogenetics: Advantages of Akaike Information Criterion and Bayesian approaches over likelihood ratio tests. Systematic Biology 53:793-808.
-
(2004)
Systematic Biology
, vol.53
, pp. 793-808
-
-
POSADA, D.1
BUCKLEY, T.R.2
-
43
-
-
0031773680
-
MODELTEST: Testing the model of DNA substitution
-
POSADA, D., AND K. A. CRANDALL. 1998. MODELTEST: Testing the model of DNA substitution. Bioinformatics 14:817-818.
-
(1998)
Bioinformatics
, vol.14
, pp. 817-818
-
-
POSADA, D.1
CRANDALL, K.A.2
-
44
-
-
0016428644
-
Slow evolutionary loss of the potential for interspecific hybridization in birds: A manifestation of slow regulatory evolution
-
PRAGER, E. M., AND A. C. WILSON. 1975. Slow evolutionary loss of the potential for interspecific hybridization in birds: A manifestation of slow regulatory evolution. Proceedings of the National Academy of Sciences USA 72:200-204.
-
(1975)
Proceedings of the National Academy of Sciences USA
, vol.72
, pp. 200-204
-
-
PRAGER, E.M.1
WILSON, A.C.2
-
45
-
-
0029818407
-
Probability distribution of molecular evolutionary trees: A new method of phylogenetic inference
-
RANNALA, B., AND Z. YANG. 1996. Probability distribution of molecular evolutionary trees: A new method of phylogenetic inference. Journal of Molecular Evolution 43:304-311.
-
(1996)
Journal of Molecular Evolution
, vol.43
, pp. 304-311
-
-
RANNALA, B.1
YANG, Z.2
-
46
-
-
0003219405
-
The Birds of North and Middle America
-
part 1. Family Fringillidae, The finches
-
RIDGWAY, R. 1901. The Birds of North and Middle America, part 1. Family Fringillidae - The finches. United States National Museum Bulletin, no. 50.
-
(1901)
United States National Museum Bulletin
, vol.50
-
-
RIDGWAY, R.1
-
47
-
-
0002729333
-
Skeletal analysis of the Ammodramus-Ammospiza grassland sparrow complex: A numerical taxonomic study
-
ROBINS, J. D., AND G. D. SCHNELL. 1971. Skeletal analysis of the Ammodramus-Ammospiza grassland sparrow complex: A numerical taxonomic study. Auk 88:567-590.
-
(1971)
Auk
, vol.88
, pp. 567-590
-
-
ROBINS, J.D.1
SCHNELL, G.D.2
-
48
-
-
85018004979
-
-
SHORT, L. L., JR., AND S. W. SIMON. 1965. Additional hybrids of the Slate-colored Junco and the White-throated Sparrow. Condor 67:438-442.
-
SHORT, L. L., JR., AND S. W. SIMON. 1965. Additional hybrids of the Slate-colored Junco and the White-throated Sparrow. Condor 67:438-442.
-
-
-
-
50
-
-
0027951531
-
Rooting molecular trees: Problems and strategies
-
SMITH, A. B. 1994. Rooting molecular trees: Problems and strategies. Biological Journal of Linnean Society 51:279-292.
-
(1994)
Biological Journal of Linnean Society
, vol.51
, pp. 279-292
-
-
SMITH, A.B.1
-
51
-
-
0033161156
-
Primers for a PCR-based approach to mitochondrial genome sequencing in birds and other vertebrates
-
SORENSON, M. D., J. C. AST, D. E. DIMCHEFF, T. YURI, AND D. P. MINDELL. 1999. Primers for a PCR-based approach to mitochondrial genome sequencing in birds and other vertebrates. Molecular Phylogenetics and Evolution 12:105-114.
-
(1999)
Molecular Phylogenetics and Evolution
, vol.12
, pp. 105-114
-
-
SORENSON, M.D.1
AST, J.C.2
DIMCHEFF, D.E.3
YURI, T.4
MINDELL, D.P.5
-
52
-
-
34249040309
-
Some changes in the current generic names of North American birds
-
STONE, W. 1907. Some changes in the current generic names of North American birds. Auk 24:189-199.
-
(1907)
Auk
, vol.24
, pp. 189-199
-
-
STONE, W.1
-
54
-
-
85018015870
-
-
SWAINSON, W. 1827. A synopsis of birds discovered by W. Bullock, F. L. S. and H. S., and Mr. William Bullock, Jr. Philosophical Magazine (new series) 5:433-442.
-
SWAINSON, W. 1827. A synopsis of birds discovered by W. Bullock, F. L. S. and H. S., and Mr. William Bullock, Jr. Philosophical Magazine (new series) 5:433-442.
-
-
-
-
55
-
-
85017994803
-
-
SWOFFORD, D. L. 2000. PAUP*: Phylogenetic Analysis Using Parsimony *and Other Methods, version 4.0b4a. Sinauer Associates, Sunderland, Massachusetts
-
SWOFFORD, D. L. 2000. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods), version 4.0b4a. Sinauer Associates, Sunderland, Massachusetts.
-
-
-
-
56
-
-
0001336205
-
Phylogenetic inference
-
D. M. Hillis, C. Moritz, and B. K. Mable, Eds, Sinauer, Sunderland, Massachusetts
-
SWOFFORD, D. L., G. J. OLSEN, P. J. WADELL, AND D. M. HILLIS. 1996. Phylogenetic inference. Pages 407-514 in Molecular Systematics (D. M. Hillis, C. Moritz, and B. K. Mable, Eds.). Sinauer, Sunderland, Massachusetts.
-
(1996)
Molecular Systematics
, pp. 407-514
-
-
SWOFFORD, D.L.1
OLSEN, G.J.2
WADELL, P.J.3
HILLIS, D.M.4
-
57
-
-
84989446394
-
Nucleic acid sequence phylogeny and random outgroups
-
WHEELER, W. C. 1990. Nucleic acid sequence phylogeny and random outgroups. Cladistics 6:363-368.
-
(1990)
Cladistics
, vol.6
, pp. 363-368
-
-
WHEELER, W.C.1
-
58
-
-
0036431235
-
Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support
-
WILCOX T. P., D. J. ZWICKL, T. A. HEATH, AND D. M. HILLIS. 2002. Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Molecular Phylogenetics and Evolution 25:361-371.
-
(2002)
Molecular Phylogenetics and Evolution
, vol.25
, pp. 361-371
-
-
WILCOX, T.P.1
ZWICKL, D.J.2
HEATH, T.A.3
HILLIS, D.M.4
-
59
-
-
0030451420
-
Among-site rate variation and its impact on phylogenetic analyses
-
YANG, Z. 1996. Among-site rate variation and its impact on phylogenetic analyses. Trends in Ecology and Evolution 11:367-372.
-
(1996)
Trends in Ecology and Evolution
, vol.11
, pp. 367-372
-
-
YANG, Z.1
-
60
-
-
0000700760
-
Patterns of mitochondrial DNA and allozyme evolution in the avian genus Ammodramus
-
ZINK, R. M., AND J. C. AVISE. 1990. Patterns of mitochondrial DNA and allozyme evolution in the avian genus Ammodramus. Systematic Zoology 39:148-161.
-
(1990)
Systematic Zoology
, vol.39
, pp. 148-161
-
-
ZINK, R.M.1
AVISE, J.C.2
|