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Robert Lanfear - Publications

Affiliations: 
Australian National University, Acton, Australian Capital Territory, Australia 
Area:
Molecular evolution, phylogenetics
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53 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Vanderpool D, Minh BQ, Lanfear R, Hughes D, Murali S, Harris RA, Raveendran M, Muzny DM, Hibbins MS, Williamson RJ, Gibbs RA, Worley KC, Rogers J, Hahn MW. Primate phylogenomics uncovers multiple rapid radiations and ancient interspecific introgression. Plos Biology. 18: e3000954. PMID 33270638 DOI: 10.1371/journal.pbio.3000954  0.349
2020 Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, Lanfear R. Corrigendum to: IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era. Molecular Biology and Evolution. PMID 32556291 DOI: 10.1093/Molbev/Msaa131  0.339
2020 Minh BQ, Hahn MW, Lanfear R. New methods to calculate concordance factors for phylogenomic datasets. Molecular Biology and Evolution. PMID 32365179 DOI: 10.1093/Molbev/Msaa106  0.306
2020 Orr AJ, Padovan A, Kainer D, Külheim C, Bromham L, Bustos-Segura C, Foley W, Haff T, Hsieh JF, Morales-Suarez A, Cartwright RA, Lanfear R. A phylogenomic approach reveals a low somatic mutation rate in a long-lived plant. Proceedings. Biological Sciences. 287: 20192364. PMID 32156194 DOI: 10.1098/Rspb.2019.2364  0.634
2020 Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, Lanfear R. IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era. Molecular Biology and Evolution. PMID 32011700 DOI: 10.1093/Molbev/Msaa015  0.369
2020 Wang W, Das A, Kainer D, Schalamun M, Morales-Suarez A, Schwessinger B, Lanfear R. The draft nuclear genome assembly of Eucalyptus pauciflora: a pipeline for comparing de novo assemblies. Gigascience. 9. PMID 31895413 DOI: 10.1093/Gigascience/Giz160  0.315
2019 Duchêne DA, Tong KJ, Foster CSP, Duchêne S, Lanfear R, Ho SYW. Linking Branch Lengths Across Sets of Loci Provides the Highest Statistical Support for Phylogenetic Inference. Molecular Biology and Evolution. PMID 31825512 DOI: 10.1093/Molbev/Msz291  0.384
2019 Wang W, Lanfear R. Long-reads reveal that the chloroplast genome exists in two distinct versions in most plants. Genome Biology and Evolution. PMID 31750905 DOI: 10.1093/Gbe/Evz256  0.347
2019 Naser-Khdour S, Minh BQ, Zhang W, Stone EA, Lanfear R. The Prevalence and Impact of Model Violations in Phylogenetic Analysis. Genome Biology and Evolution. PMID 31536115 DOI: 10.1093/Gbe/Evz193  0.362
2018 Wang W, Schalamun M, Morales-Suarez A, Kainer D, Schwessinger B, Lanfear R. Assembly of chloroplast genomes with long- and short-read data: a comparison of approaches using Eucalyptus pauciflora as a test case. Bmc Genomics. 19: 977. PMID 30594129 DOI: 10.1186/S12864-018-5348-8  0.333
2018 Schalamun M, Nagar R, Kainer D, Beavan E, Eccles D, Rathjen JP, Lanfear R, Schwessinger B. Harnessing the MinION: An example of how to establish long-read sequencing in a laboratory using challenging plant tissue from Eucalyptus pauciflora. Molecular Ecology Resources. PMID 30118581 DOI: 10.1111/1755-0998.12938  0.323
2018 Tagliacollo VA, Lanfear R. Estimating improved partitioning schemes for UltraConserved Elements (UCEs). Molecular Biology and Evolution. PMID 29659989 DOI: 10.1093/Molbev/Msy069  0.403
2018 Whitehead MR, Lanfear R, Mitchell RJ, Karron JD. Plant Mating Systems Often Vary Widely Among Populations Frontiers in Ecology and Evolution. 6. DOI: 10.3389/Fevo.2018.00038  0.372
2018 Hua X, Lanfear R. The influence of non‐random species sampling on macroevolutionary and macroecological inference from phylogenies Methods in Ecology and Evolution. 9: 1353-1362. DOI: 10.1111/2041-210X.12982  0.338
2017 Peters RS, Krogmann L, Mayer C, Donath A, Gunkel S, Meusemann K, Kozlov A, Podsiadlowski L, Petersen M, Lanfear R, Diez PA, Heraty J, Kjer KM, Klopfstein S, Meier R, et al. Evolutionary History of the Hymenoptera. Current Biology : Cb. PMID 28343967 DOI: 10.1016/J.Cub.2017.01.027  0.434
2017 Warren DL, Geneva AJ, Lanfear R. RWTY (R We There Yet): An R package for examining convergence of Bayesian phylogenetic analyses. Molecular Biology and Evolution. PMID 28087773 DOI: 10.1093/Molbev/Msw279  0.584
2016 Lanfear R, Frandsen PB, Wright AM, Senfeld T, Calcott B. PartitionFinder 2: New Methods for Selecting Partitioned Models of Evolution for Molecular and Morphological Phylogenetic Analyses. Molecular Biology and Evolution. PMID 28013191 DOI: 10.1093/Molbev/Msw260  0.362
2016 Nabholz B, Lanfear R, Fuchs J. Body mass-corrected molecular rate for bird mitochondrial DNA. Molecular Ecology. PMID 27483387 DOI: 10.1111/Mec.13780  0.464
2016 Lanfear R, Hua X, Warren DL. Estimating the Effective Sample Size of tree topologies from Bayesian phylogenetic analyses. Genome Biology and Evolution. PMID 27435794 DOI: 10.1093/Gbe/Evw171  0.58
2016 James JE, Lanfear R, Eyre-Walker A. Molecular evolutionary consequences of island colonisation. Genome Biology and Evolution. PMID 27358424 DOI: 10.1093/Gbe/Evw120  0.423
2015 Duchêne S, Lanfear R. Phylogenetic uncertainty can bias the number of evolutionary transitions estimated from ancestral state reconstruction methods. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 324: 517-24. PMID 26173578 DOI: 10.1002/Jez.B.22638  0.395
2015 Frandsen PB, Calcott B, Mayer C, Lanfear R. Automatic selection of partitioning schemes for phylogenetic analyses using iterative k-means clustering of site rates. Bmc Evolutionary Biology. 15: 13. PMID 25887041 DOI: 10.1186/S12862-015-0283-7  0.398
2015 Bromham L, Hua X, Lanfear R, Cowman PF. Exploring the Relationships between Mutation Rates, Life History, Genome Size, Environment, and Species Richness in Flowering Plants. The American Naturalist. 185: 507-24. PMID 25811085 DOI: 10.1086/680052  0.689
2015 Kainer D, Lanfear R. The effects of partitioning on phylogenetic inference. Molecular Biology and Evolution. 32: 1611-27. PMID 25660373 DOI: 10.1093/Molbev/Msv026  0.344
2015 Bromham L, Hua X, Lanfear R, Cowman PF. Exploring the relationships between mutation rates, life history, genome size, environment, and species richness in flowering plants American Naturalist. 185: 508-524. DOI: 10.1086/680052  0.624
2014 Lehtonen J, Lanfear R. Generation time, life history and the substitution rate of neutral mutations. Biology Letters. 10: 20140801. PMID 25428931 DOI: 10.1098/Rsbl.2014.0801  0.445
2014 Misof B, Liu S, Meusemann K, Peters RS, Donath A, Mayer C, Frandsen PB, Ware J, Flouri T, Beutel RG, Niehuis O, Petersen M, Izquierdo-Carrasco F, Wappler T, Rust J, ... ... Lanfear R, et al. Phylogenomics resolves the timing and pattern of insect evolution. Science (New York, N.Y.). 346: 763-7. PMID 25378627 DOI: 10.1126/Science.1257570  0.377
2014 Duchêne S, Lanfear R, Ho SY. The impact of calibration and clock-model choice on molecular estimates of divergence times. Molecular Phylogenetics and Evolution. 78: 277-89. PMID 24910154 DOI: 10.1016/J.Ympev.2014.05.032  0.368
2014 Lanfear R, Calcott B, Kainer D, Mayer C, Stamatakis A. Selecting optimal partitioning schemes for phylogenomic datasets. Bmc Evolutionary Biology. 14: 82. PMID 24742000 DOI: 10.1186/1471-2148-14-82  0.36
2014 Moray C, Lanfear R, Bromham L. Domestication and the mitochondrial genome: comparing patterns and rates of molecular evolution in domesticated mammals and birds and their wild relatives. Genome Biology and Evolution. 6: 161-169. PMID 24459286 DOI: 10.1093/Gbe/Evu005  0.639
2014 Lanfear R, Kokko H, Eyre-Walker A. Population size and the rate of evolution Trends in Ecology and Evolution. 29: 33-41. PMID 24148292 DOI: 10.1016/J.Tree.2013.09.009  0.444
2014 Catullo RA, Lanfear R, Doughty P, Keogh JS. The biogeographical boundaries of northern Australia: Evidence from ecological niche models and a multi-locus phylogeny of Uperoleia toadlets (Anura: Myobatrachidae) Journal of Biogeography. 41: 659-672. DOI: 10.1111/Jbi.12230  0.376
2013 Bromham L, Cowman PF, Lanfear R. Parasitic plants have increased rates of molecular evolution across all three genomes Bmc Evolutionary Biology. 13. PMID 23782527 DOI: 10.1186/1471-2148-13-126  0.667
2013 Lanfear R, Ho SY, Jonathan Davies T, Moles AT, Aarssen L, Swenson NG, Warman L, Zanne AE, Allen AP. Taller plants have lower rates of molecular evolution. Nature Communications. 4: 1879. PMID 23695673 DOI: 10.1038/Ncomms2836  0.459
2013 Holman L, Lanfear R, D'Ettorre P. The evolution of queen pheromones in the ant genus Lasius Journal of Evolutionary Biology. 26: 1549-1558. PMID 23662630 DOI: 10.1111/Jeb.12162  0.385
2012 Bromham L, Lanfear R, Cassey P, Gibb G, Cardillo M. Reconstructing past species assemblages reveals the changing patterns and drivers of extinction through time Proceedings of the Royal Society B: Biological Sciences. 279: 4024-4032. PMID 22859591 DOI: 10.1098/Rspb.2012.1437  0.626
2012 Lanfear R, Calcott B, Ho SYW, Guindon S. PartitionFinder: Combined selection of partitioning schemes and substitution models for phylogenetic analyses Molecular Biology and Evolution. 29: 1695-1701. PMID 22319168 DOI: 10.1093/Molbev/Mss020  0.316
2011 Goldie X, Lanfear R, Bromham L. Diversification and the rate of molecular evolution: no evidence of a link in mammals. Bmc Evolutionary Biology. 11: 286. PMID 21967038 DOI: 10.1186/1471-2148-11-286  0.685
2011 Lanfear R, Bromham L. Estimating phylogenies for species assemblages: A complete phylogeny for the past and present native birds of New Zealand Molecular Phylogenetics and Evolution. 61: 958-963. PMID 21835254 DOI: 10.1016/J.Ympev.2011.07.018  0.638
2011 Ho SYW, Lanfear R, Bromham L, Phillips MJ, Soubrier J, Rodrigo AG, Cooper A. Time-dependent rates of molecular evolution Molecular Ecology. 20: 3087-3101. PMID 21740474 DOI: 10.1111/J.1365-294X.2011.05178.X  0.667
2011 Ho SY, Lanfear R, Phillips MJ, Barnes I, Thomas JA, Kolokotronis SO, Shapiro B. Bayesian estimation of substitution rates from ancient DNA sequences with low information content. Systematic Biology. 60: 366-75. PMID 21296909 DOI: 10.1093/Sysbio/Syq099  0.358
2011 Lanfear R. The local-clock permutation test: A simple test to compare rates of molecular evolution on phylogenetic trees Evolution. 65: 606-611. PMID 21272000 DOI: 10.1111/J.1558-5646.2010.01160.X  0.364
2011 Goldie X, Lanfear R, Bromham L. Diversification and the rate of molecular evolution: No evidence of a link in mammals Bmc Evolutionary Biology. 11. DOI: 10.1186/1471-2148-11-286  0.633
2011 Lanfear R, Bromham L, Ho SYW. Reply to Englund: Molecular evolution and diversification - Counting species is better than counting nodes when the phylogeny is unknown Proceedings of the National Academy of Sciences of the United States of America. 108: E85-E86. DOI: 10.1073/Pnas.1101940108  0.669
2010 Fritsch C, Lanfear R, Ray RP. Rapid evolution of a novel signalling mechanism by concerted duplication and divergence of a BMP ligand and its extracellular modulators Development Genes and Evolution. 220: 235-250. PMID 21086136 DOI: 10.1007/S00427-010-0341-5  0.317
2010 Lanfear R, Ho SYW, Love D, Bromham L. Mutation rate is linked to diversification in birds Proceedings of the National Academy of Sciences of the United States of America. 107: 20423-20428. PMID 21059910 DOI: 10.1073/Pnas.1007888107  0.685
2010 Ho SYW, Lanfear R. Improved characterisation of among-lineage rate variation in cetacean mitogenomes using codon-partitioned relaxed clocks Mitochondrial Dna. 21: 138-146. PMID 20795783 DOI: 10.3109/19401736.2010.494727  0.463
2010 Lanfear R. Are the deuterostome posterior hox genes a fast-evolving class? Advances in Experimental Medicine and Biology. 689: 111-122. PMID 20795326 DOI: 10.1007/978-1-4419-6673-5_8  0.353
2010 Lanfear R, Welch JJ, Bromham L. Watching the clock: Studying variation in rates of molecular evolution between species Trends in Ecology and Evolution. 25: 495-503. PMID 20655615 DOI: 10.1016/J.Tree.2010.06.007  0.697
2010 Thomas JA, Welch JJ, Lanfear R, Bromham L. A generation time effect on the rate of molecular evolution in invertebrates Molecular Biology and Evolution. 27: 1173-1180. PMID 20083649 DOI: 10.1093/Molbev/Msq009  0.702
2009 Bourlat SJ, Rota-Stabelli O, Lanfear R, Telford MJ. The mitochondrial genome structure of Xenoturbella bocki (phylum Xenoturbellida) is ancestral within the deuterostomes. Bmc Evolutionary Biology. 9: 107. PMID 19450249 DOI: 10.1186/1471-2148-9-107  0.371
2008 Lanfear R, Bromham L. Statistical tests between competing hypotheses of hox cluster evolution Systematic Biology. 57: 708-718. PMID 18853358 DOI: 10.1080/10635150802430079  0.605
2007 Lanfear R, Thomas JA, Welch JJ, Brey T, Bromham L. Metabolie rate does not calibrate the molecular clock Proceedings of the National Academy of Sciences of the United States of America. 104: 15388-15393. PMID 17881572 DOI: 10.1073/Pnas.0703359104  0.651
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