Improved dating of the human/chimpanzee separation in the mitochondrial DNA tree: Heterogeneity among amino acid sites
Abstract
The internal branch lengths estimated by distance methods such as neighbor-joining are shown to be biased to be short when the evolutionary rate differs among sites. The variable-invariable model for site heterogeneity fits the amino acid sequence data encoded by the mitochondrial DNA from Hominoidea remarkably well. By assuming the orangutan separation to be 13 or 16 Myr old, a maximum-likelihood analysis estimates a young date of 3.6 +/- 0.6 or 4.4 +/- 0.7 Myr (+/- 1 SE) for the human/chimpanzee separation, and these estimates turn out to be robust against differences in the assumed model for amino acid substitutions. Although some uncertainties still exist in our estimates, this analysis suggests that humans separated from chimpanzees some 4-5 Myr ago.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Underestimating the degree of rate heterogeneity between sites will tend to underestimate the dates of divergence caused by a nonlinear effect of heterogeneity on branch length.
“Underestimating the degree of rate heterogeneity between sites will tend to underestimate the dates of divergence (16, 25) caused by a nonlinear effect of heterogeneity on branch length.”
From Testing the Cambrian explosion hypothesis by using a molecular dating technique (1998) · cites this paper as [25]
Cites
The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Saitou, N., & Nei, M. (1987) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040454 · Cited by 59,962 · see citing works
A new look at the statistical model identification
Akaike, H. (1974) · IEEE Transactions on Automatic Control · doi:10.1109/tac.1974.1100705 · Cited by 51,879 · see citing works
CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
Felsenstein, J. (1985) · Evolution · doi:10.1111/j.1558-5646.1985.tb00420.x · Cited by 44,735 · see citing works
Kimura, M. (1980) · Journal of Molecular Evolution · doi:10.1007/bf01731581 · Cited by 29,778 · see citing works
Molecular Evolutionary Genetics
Nei, M. (1987) · Columbia University Press eBooks · doi:10.7312/nei-92038 · Cited by 16,583 · see citing works
Evolutionary trees from DNA sequences: A maximum likelihood approach.
Felsenstein, J. (1981) · Journal of Molecular Evolution · doi:10.1007/bf01734359 · Cited by 14,571 · see citing works
Tamura, K., & Nei, M. (1993) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040023 · Cited by 11,267 · see citing works
Evolution of Protein Molecules
JUKES, T. H., & CANTOR, C. R. (1969) · Mammalian Protein Metabolism · doi:10.1016/b978-1-4832-3211-9.50009-7 · Cited by 11,032 · see citing works
Sequence and organization of the human mitochondrial genome
Anderson, S., Bankier, A. T., Barrell, B. G., de Bruijn, M. H. L., Coulson, A. R., Drouin, J., Eperon, I. C., Nierlich, D. P., Roe, B. A., Sanger, F., et al. (1981) · Nature · doi:10.1038/290457a0 · Cited by 9,640 · see citing works
Dating of the human–ape splitting by a molecular clock of mitochondrial DNA.
Hasegawa, M., Kishino, H., & Yano, T.-A. (1985) · Journal of Molecular Evolution · doi:10.1007/bf02101694 · Cited by 8,687 · see citing works
Self-citationThe Neutral Theory of Molecular Evolution
Kimura, M. (1979) · Scientific American · doi:10.1038/scientificamerican1179-98 · Cited by 7,698 · see citing works
The rapid generation of mutation data matrices from protein sequences
Jones, D. T., Taylor, W. R., & Thornton, J. M. (1992) · Computer applications in the biosciences · doi:10.1093/bioinformatics/8.3.275 · Cited by 6,916 · see citing works
The Neutral Theory of Molecular Evolution
Kimura, M. (1983) · Cambridge University Press eBooks · doi:10.1017/cbo9780511623486 · Cited by 6,300 · see citing works
Kishino, H., & Hasegawa, M. (1989) · Journal of Molecular Evolution · doi:10.1007/bf02100115 · Cited by 3,378 · see citing works
Self-citationMitochondrial DNA and human evolution
Cann, R. L., Stoneking, M., & Wilson, A. C. (1987) · Nature · doi:10.1038/325031a0 · Cited by 3,100 · see citing works
Mitochondrial DNA sequences of primates: tempo and mode of evolution
Brown, W. M., Prager, E. M., Wang, A., & Wilson, A. C. (1982) · Journal of Molecular Evolution · doi:10.1007/bf01734101 · Cited by 1,554 · see citing works
Yang, Z. (1993) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040082 · Cited by 1,040 · see citing works
Maximum likelihood inference of protein phylogeny and the origin of chloroplasts
Kishino, H., Miyata, T., & Hasegawa, M. (1990) · Journal of Molecular Evolution · doi:10.1007/bf02109483 · Cited by 887 · see citing works
Self-citationImmunological Time Scale for Hominid Evolution
Sarich, V. M., & Wilson, A. C. (1967) · Science · doi:10.1126/science.158.3805.1200 · Cited by 742 · see citing works
Statistical tests of models of DNA substitution
Goldman, N. (1993) · Journal of Molecular Evolution · doi:10.1007/bf00166252 · Cited by 736 · see citing works
The phylogeny of the hominoid primates, as indicated by DNA-DNA hybridization
Sibley, C. G., & Ahlquist, J. E. (1984) · Journal of Molecular Evolution · doi:10.1007/bf02101980 · Cited by 549 · see citing works
Fitch, W. M., & Markowitz, E. (1970) · Biochemical Genetics · doi:10.1007/bf00486096 · Cited by 464 · see citing works
DNA hybridization evidence of hominoid phylogeny: Results from an expanded data set
Sibley, C. G., & Ahlquist, J. E. (1987) · Journal of Molecular Evolution · doi:10.1007/bf02111285 · Cited by 300 · see citing works
Evolution and environment in the Hominoidea
Andrews, P. (1992) · Nature · doi:10.1038/360641a0 · Cited by 272 · see citing works
Phylogenetic Relations of Humans and African Apes from DNA Sequences in the ψη-Globin Region
Miyamoto, M. M., Slightom, J. L., & Goodman, M. (1987) · Science · doi:10.1126/science.3116671 · Cited by 268 · see citing works
Rates of albumin evolution in primates.
Sarich, V. M., & Wilson, A. C. (1967) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.58.1.142 · Cited by 264 · see citing works
The Multiregional Evolution of Humans
Thorne, A., & Wolpoff, M. H. (1992) · Scientific American · doi:10.1038/scientificamerican0492-76 · Cited by 245 · see citing works
Cao, Y., Adachi, J., Janke, A., P��bo, S., & Hasegawa, M. (1994) · Journal of Molecular Evolution · doi:10.1007/bf00173421 · Cited by 244 · see citing works
Self-citationAtlas of protein sequence and structure 1969 vol 4
Dayhoff, M. O. (1969) · Cited by 235 · see citing works
Population Genetics and Molecular Evolution
(2020) · Princeton University Press eBooks · doi:10.2307/j.ctvx5wbr9.5 · Cited by 218 · see citing works
Resolution of the African hominoid trichotomy by use of a mitochondrial gene sequence.
Ruvolo, M., Disotell, T. R., Allard, M. W., Brown, W. M., & Honeycutt, R. L. (1991) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.88.4.1570 · Cited by 203 · see citing works
Man's place in hominoidea revealed by mitochondrial DNA genealogy
Horai, S., Satta, Y., Hayasaka, K., Kondo, R., Inoue, T., Ishida, T., Hayashi, S., & Takahata, N. (1992) · Journal of Molecular Evolution · doi:10.1007/bf00160258 · Cited by 203 · see citing works
DNA DIVERGENCE AMONG HOMINOIDS
Caccone, A., & Powell, J. R. (1989) · Evolution · doi:10.1111/j.1558-5646.1989.tb02540.x · Cited by 202 · see citing works
Toward a more accurate time scale for the human mitochondrial DNA tree
Hasegawa, M., Rienzo, A. D., Kocher, T. D., & Wilson, A. C. (1993) · Journal of Molecular Evolution · doi:10.1007/bf00178865 · Cited by 199 · see citing works
Self-citationThe relationships of Sivapithecus and Ramapithecus and the evolution of the orang-utan
Andrews, P., & Cronin, J. E. (1982) · Nature · doi:10.1038/297541a0 · Cited by 181 · see citing works
Molecular phylogeny and evolution of primate mitochondrial DNA.
Hayasaka, K., Gojobori, T., & Horai, S. (1988) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040524 · Cited by 179 · see citing works
Kocher, T. D., & Wilson, A. C. (1991) · Springer eBooks · doi:10.1007/978-4-431-68302-5_25 · Cited by 165 · see citing works
Hasegawa, M., Hashimoto, T., Adachi, J., Iwabe, N., & Miyata, T. (1993) · Journal of Molecular Evolution · doi:10.1007/bf00182185 · Cited by 149 · see citing works
Self-citationDNA hybridization evidence of hominoid phylogeny: A reanalysis of the data
Sibley, C. G., Comstock, J. A., & Ahlquist, J. E. (1990) · Journal of Molecular Evolution · doi:10.1007/bf02099992 · Cited by 149 · see citing works
Hashimoto, T., Nakamura, Y., Nakamura, F., Shirakura, T., Adachi, J., Goto, N., Okamoto, K., & Hasegawa, M. (1994) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040093 · Cited by 148 · see citing works
Self-citationReeves, J. H. (1992) · Journal of Molecular Evolution · doi:10.1007/bf00160257 · Cited by 147 · see citing works
Man's place in Hominoidea as inferred from molecular clocks of DNA
Hasegawa, M., Kishino, H., & Yano, T.-A. (1987) · Journal of Molecular Evolution · doi:10.1007/bf02111287 · Cited by 140 · see citing works
Self-citation[34] Converting distance to time: Application to human evolution
Kishino, H., & Hasegawa, M. (1990) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/0076-6879(90)83036-9 · Cited by 132 · see citing works
Self-citationBailey, W. J., Hayasaka, K., Skinner, C. G., Kehoe, S., Sieu, L. C., Slightom, J. L., & Goodman, M. (1992) · Molecular Phylogenetics and Evolution · doi:10.1016/1055-7903(92)90024-b · Cited by 123 · see citing works
Ribosomal RNA gene sequences and hominoid phylogeny.
Gonzalez, I. L., Sylvester, J. E., Smith, T. F., Stambolian, D. E., & Schmickel, R. D. (1990) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040600 · Cited by 122 · see citing works
安達, 淳., & 長谷川, 政. (1992) · Institute of Statistical Mathematics eBooks · Cited by 111 · see citing works
Mitochondrial COII sequences and modern human origins.
Ruvolo, M., Zehr, S. M., von Dornum, M., Pan, D., Chang, B. S. W., & Lin, J. Y. (1993) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040068 · Cited by 111 · see citing works
Adachi, J., Cao, Y., & Hasegawa, M. (1993) · Journal of Molecular Evolution · doi:10.1007/bf00160483 · Cited by 99 · see citing works
Self-citationTime of the deepest root for polymorphism in human mitochondrial DNA
Hasegawa, M., & Horai, S. (1991) · Journal of Molecular Evolution · doi:10.1007/bf02099927 · Cited by 94 · see citing works
Self-citationMaeda, N., Wu, C., Bliska, J. B., & Reneke, J. E. (1988) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040479 · Cited by 90 · see citing works
Cao, Y., Adachi, J., Yano, T., & Hasegawa, M. (1994) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040139 · Cited by 78 · see citing works
Self-citationMitochondrial DNA evolution in primates: Transition rate has been extremely low in the lemur
Hasegawa, M., Kishino, H., Hayasaka, K., & Horai, S. (1990) · Journal of Molecular Evolution · doi:10.1007/bf02109480 · Cited by 76 · see citing works
Self-citationThe evolution of the mitochondrial D-loop region and the origin of modern man.
Pesole, G., Sbisà, E., Preparata, G., & Saccone, C. (1992) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040747 · Cited by 59 · see citing works
Fritz, H., Merkl, R., & KRÖGER, M. (1992) · Nature · doi:10.1038/355595b0 · Cited by 48 · see citing works
Ueda, S., Watanabe, Y., Saitou, N., Omoto, K., Hayashida, H., Miyata, T., Hisajima, H., & Honjo, T. (1989) · Journal of Molecular Biology · doi:10.1016/0022-2836(89)90366-5 · Cited by 44 · see citing works
Recently recovered Kenyapithecus mandible and its implications for great ape and human origins.
McCrossin, M. L., & Benefit, B. R. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.5.1962 · Cited by 42 · see citing works
Hasegawa, M., CAO, Y., ADACHI, J., & Yano, T.-A. (1992) · Nature · doi:10.1038/355595a0 · Cited by 41 · see citing works
Self-citationEstimating the fraction of invariable codons with a capture-recapture method
Sidow, A., Nguyen, T. B., & Speed, T. P. (1992) · Journal of Molecular Evolution · doi:10.1007/bf00178601 · Cited by 36 · see citing works
The giant panda is closer to a bear, judged by ?- and ?-hemoglobin sequences
Hashimoto, T., Otaka, E., Adachi, J., Mizuta, K., & Hasegawa, M. (1993) · Journal of Molecular Evolution · doi:10.1007/bf00160484 · Cited by 22 · see citing works
Self-citationMolecular phylogeny and man's place in Hominoidea.
Hasegawa, M. (1991) · The Journal of Anthropological Society of Nippon · doi:10.1537/ase1911.99.49 · Cited by 8 · see citing works
Self-citation
Flagged first, then by citations
1 of the 61 references couldn’t be matched to a known paper.
Cited by
Sorted by citations
Among-site rate variation and its impact on phylogenetic analyses
Yang, Z. (1996) · Trends in Ecology & Evolution · doi:10.1016/0169-5347(96)10041-0 · Cited by 1,202 · see citing works
Selecting the Best-Fit Model of Nucleotide Substitution
Posada, D., & Crandall, K. A. (2001) · Systematic Biology · doi:10.1080/10635150118469 · Cited by 937 · see citing works
MOLPHY version 2.3 : programs for molecular phylogenetics based on maximum likelihood
Adachi, J. (1996) · Cited by 605 · see citing works
Self-citationNucleotide Substitution Rate of Mammalian Mitochondrial Genomes
Pesole, G., Gissi, C., Chirico, A. D., & Saccone, C. (1999) · Journal of Molecular Evolution · doi:10.1007/pl00006487 · Cited by 486 · see citing works
Maximum-likelihood models for combined analyses of multiple sequence data
Yang, Z. (1996) · Journal of Molecular Evolution · doi:10.1007/bf02352289 · Cited by 409 · see citing works
DNA sequence of the mitochondrial hypervariable region II from the Neandertal type specimen
Krings, M., Geisert, H., Schmitz, R. W., Krainitzki, H., & Pääbo, S. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.10.5581 · Cited by 317 · see citing works
Joint Bayesian Estimation of Alignment and Phylogeny
Redelings, B. D., & Suchard, M. A. (2005) · Systematic Biology · doi:10.1080/10635150590947041 · Cited by 306 · see citing works
Using MODELTEST and PAUP * to Select a Model of Nucleotide Substitution
Posada, D. (2003) · Current Protocols in Bioinformatics · doi:10.1002/0471250953.bi0605s00 · Cited by 307 · see citing works
Estimating divergence dates from molecular sequences.
Rambaut, A., & Bromham, L. (1998) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a025940 · Cited by 298 · see citing works
Zhang, J., & Nei, M. (1997) · Journal of Molecular Evolution · doi:10.1007/pl00000067 · Cited by 279 · see citing works
Iino, T., Mori, K., Uchino, Y., Nakagawa, T., Harayama, S., & Suzuki, K. (2009) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.012484-0 · Cited by 263 · see citing works
Honda, D., Yokota, A., & Sugiyama, J. (1999) · Journal of Molecular Evolution · doi:10.1007/pl00006517 · Cited by 256 · see citing works
Leopard predation and primate evolution
Zuberbühler, K., & Jenny, D. (2002) · Journal of Human Evolution · doi:10.1006/jhev.2002.0605 · Cited by 252 · see citing works
Conflict Among Individual Mitochondrial Proteins in Resolving the Phylogeny of Eutherian Orders
Cao, Y., Janke, A., Waddell, P. J., Westerman, M., Takenaka, O., Murata, S., Okada, N., Pääbo, S., & Hasegawa, M. (1998) · Journal of Molecular Evolution · doi:10.1007/pl00006389 · Cited by 234 · see citing works
Self-citationMorphological analysis of the mammalian postcranium: A developmental perspective
Lovejoy, C. O., Cohn, M. J., & White, T. D. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.23.13247 · Cited by 187 · see citing works
Yang, Z., & Kumar, S. (1996) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a025625 · Cited by 186 · see citing works
Treusch, A. H., Kletzin, A., Raddatz, G., Ochsenreiter, T., Quaiser, A., Meurer, G., Schuster, S. C., & Schleper, C. (2004) · Environmental Microbiology · doi:10.1111/j.1462-2920.2004.00663.x · Cited by 171 · see citing works
Iino, T., Mori, K., Tanaka, K., Suzuki, K., & Harayama, S. (2007) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.64717-0 · Cited by 168 · see citing works
Mori, K., Kim, H., Kakegawa, T., & Hanada, S. (2003) · Extremophiles · doi:10.1007/s00792-003-0320-0 · Cited by 167 · see citing works
Pattern and timing of evolutionary divergences among hominoids based on analyses of complete mtDNAs
Árnason, Ú., Gullberg, A., Janke, A., & Xu, X. (1996) · Journal of Molecular Evolution · doi:10.1007/bf02202113 · Cited by 163 · see citing works
Cummins, C. A., & McInerney, J. O. (2011) · Systematic Biology · doi:10.1093/sysbio/syr064 · Cited by 158 · see citing works
Molecular Evolution of the Photolyase–Blue-Light Photoreceptor Family
Kanai, S., Kikuno, R., Toh, H., Ryo, H., & Todo, T. (1997) · Journal of Molecular Evolution · doi:10.1007/pl00006258 · Cited by 158 · see citing works
Multiple molecular evidences for a living mammalian fossil
Huchon, D., Chevret, P., Jordan, U., Kilpatrick, C. W., Ranwez, V., Jenkins, P. D., Brosius, J., & Schmitz, J. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0701289104 · Cited by 158 · see citing works
Model Averaging and Bayes Factor Calculation of Relaxed Molecular Clocks in Bayesian Phylogenetics
Li, W. L. S., & Drummond, A. J. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr232 · Cited by 149 · see citing works
Testing the Cambrian explosion hypothesis by using a molecular dating technique
Bromham, L., Rambaut, A., Fortey, R., Cooper, A., & Penny, D. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.21.12386 · Cited by 148 · see citing works
Molecular Timing of Primate Divergences as Estimated by Two Nonprimate Calibration Points
Árnason, Ú., Gullberg, A., & Janke, A. (1998) · Journal of Molecular Evolution · doi:10.1007/pl00006431 · Cited by 150 · see citing works
Posada, D., & Crandall, K. A. (2001) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a003890 · Cited by 145 · see citing works
A covariotide model explains apparent phylogenetic structure of oxygenic photosynthetic lineages
Lockhart, P. J., Steel, M., Barbrook, A. C., Huson, D. H., Charleston, M., & Howe, C. J. (1998) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a026025 · Cited by 139 · see citing works
Lineage-Specific Evolutionary Rate in Mammalian mtDNA
Gissi, C., Reyes, A., Pesole, G., & Saccone, C. (2000) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a026383 · Cited by 122 · see citing works
Dating the arthropod tree based on large-scale transcriptome data
Rehm, P., Borner, J., Meusemann, K., von Reumont, B. M., Simon, S., Hadrys, H., Misof, B., & Burmester, T. (2011) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2011.09.003 · Cited by 121 · see citing works
Thomas, J. A., Welch, J. J., Woolfit, M., & Bromham, L. D. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0510251103 · Cited by 117 · see citing works
The genetical history of humans and the great apes
Kaessmann, H., & Pääbo, S. (2002) · Journal of Internal Medicine · doi:10.1046/j.1365-2796.2002.00907.x · Cited by 114 · see citing works
Árnason, Ú., Gullberg, A., Burguete, A. S., & Janice, A. (2004) · Hereditas · doi:10.1111/j.1601-5223.2000.00217.x · Cited by 108 · see citing works
Iwabe, N., Kuma, K., & Miyata, T. (1996) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a025609 · Cited by 107 · see citing works
Revell, L. J., Harmon, L. J., & Glor, R. E. (2005) · Systematic Biology · doi:10.1080/10635150500354647 · Cited by 96 · see citing works
Mitogenomic analyses of eutherian relationships
Árnason, Ú., & Janke, A. (2002) · Cytogenetic and Genome Research · doi:10.1159/000063023 · Cited by 82 · see citing works
Invariable Sites Models and Their Use in Phylogeny Reconstruction
Steel, M., Huson, D. H., & Lockhart, P. J. (2000) · Systematic Biology · doi:10.1093/sysbio/49.2.225 · Cited by 82 · see citing works
Pickford, M. H. L., & Sénut, B. (2005) · Anthropological Science · doi:10.1537/ase.04s014 · Cited by 67 · see citing works
Iino, T., Mori, K., & Suzuki, K. (2009) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.020131-0 · Cited by 64 · see citing works
Mori, K., Suzuki, K., Urabe, T., Sugihara, M., Tanaka, K., Hamada, M., & Hanada, S. (2010) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.026963-0 · Cited by 61 · see citing works
Spectral Analysis, Systematic Bias, and the Evolution of Chloroplasts
Lockhart, P. J., Howe, C. J., Barbrook, A. C., Larkum, A., & Penny, D. (1999) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a026139 · Cited by 50 · see citing works
Takemoto, H., Kawamoto, Y., & Furuichi, T. (2015) · Evolutionary Anthropology Issues News and Reviews · doi:10.1002/evan.21456 · Cited by 50 · see citing works
Molecular evidence from the nuclear genome for the time frame of human evolution
Easteal, S., & Herbert, G. (2009) · Journal of Molecular Evolution · doi:10.1007/pl00000066 · Cited by 12 · see citing works
Mori, K., & Suzuki, K. (2008) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.65754-0 · Cited by 48 · see citing works
The Molecular Evolution of Visual Pigments of Freshwater Crayfishes (Decapoda: Cambaridae)
Crandall, K. A., & Cronin, T. W. (1997) · Journal of Molecular Evolution · doi:10.1007/pl00006257 · Cited by 47 · see citing works
Mori, K., Suzuki, K., Yamaguchi, K., Urabe, T., & Hanada, S. (2014) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.070599-0 · Cited by 46 · see citing works
The formation of Congo River and the origin of bonobos: A new hypothesis
Takemoto, H., Kawamoto, Y., & Furuichi, T. (2017) · doi:10.1093/oso/9780198728511.003.0016 · Cited by 45 · see citing works
Mori, K., Sunamura, M., Yanagawa, K., Ishibashi, J.-I., Miyoshi, Y., Iino, T., Suzuki, K.-I., & Urabe, T. (2008) · Applied and Environmental Microbiology · doi:10.1128/aem.01351-08 · Cited by 43 · see citing works
Iino, T., Nakagawa, T., Mori, K., Harayama, S., & Suzuki, K. (2008) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.65714-0 · Cited by 41 · see citing works
Compositionally Constrained Sites Drive Long-Branch Attraction
Szánthó, L. L., Lartillot, N., Szöllősi, G. J., & Schrempf, D. (2023) · Systematic Biology · doi:10.1093/sysbio/syad013 · Cited by 41 · see citing works
lino, T., Suzuki, R., Kosako, Y., Ohkuma, M., Komagata, K., & Uchimura, T. (2012) · The Journal of General and Applied Microbiology · doi:10.2323/jgam.58.235 · Cited by 40 · see citing works
Enrichment of a Novel Marine Ammonia-Oxidizing Archaeon Obtained from Sand of an Eelgrass Zone
Matsutani, N., Nakagawa, T., Nakamura, K. M., Takahashi, R., Yoshihara, K., & Tokuyama, T. (2010) · Microbes and Environments · doi:10.1264/jsme2.me10156 · Cited by 39 · see citing works
The Effect of Branch Length Variation on the Selection of Models of Molecular Evolution
Posada, D. (2001) · Journal of Molecular Evolution · doi:10.1007/s002390010173 · Cited by 39 · see citing works
Inferring archaic introgression from hominin genetic data
Gopalan, S., Atkinson, E. G., Buck, L. T., Weaver, T. D., & Henn, B. M. (2021) · Evolutionary Anthropology Issues News and Reviews · doi:10.1002/evan.21895 · Cited by 37 · see citing works
Dating the Cenancester of Organisms
Gogarten, J. P., Olendzenski, L., Hilario, E., Simon, C. M., & Holsinger, K. E. (1996) · Science · doi:10.1126/science.274.5293.1750b · Cited by 34 · see citing works
Practical modeling and prediction of radio coverage of indoor sensor networks
Chipara, O., Hackmann, G., Lu, C., Smart, W. D., & Roman, G.-C. (2010) · ACM/IEEE International Conference on Information Processing in Sensor Networks (IPSN) · doi:10.1145/1791212.1791252 · Cited by 31 · see citing works
Gruenheit, N., Lockhart, P. J., Steel, M., & Martin, W. F. (2008) · Molecular Biology and Evolution · doi:10.1093/molbev/msn098 · Cited by 31 · see citing works
Iino, T., Suzuki, R., Tanaka, N., Kosako, Y., Ohkuma, M., Komagata, K., & Uchimura, T. (2011) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.031773-0 · Cited by 27 · see citing works
Why Cross-Cultural Psychology Is Incomplete Without Comparative and Developmental Perspectives
Liebal, K., & Haun, D. B. M. (2018) · Journal of Cross-Cultural Psychology · doi:10.1177/0022022117738085 · Cited by 27 · see citing works
Mori, K., Yamazoe, A., Hosoyama, A., Ohji, S., Fujita, N., Ishibashi, J.-I., Kimura, H., & Suzuki, K.-I. (2014) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.060137-0 · Cited by 26 · see citing works
Meiothermus hypogaeus sp. nov., a moderately thermophilic bacterium isolated from a hot spring
Mori, K., Iino, T., Ishibashi, J.-I., Kimura, H., Hamada, M., & Suzuki, K.-I. (2011) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.028654-0 · Cited by 20 · see citing works
Quantification and diversity of the archaeal community in a landfill site
Mori, K., Sparling, R., Hatsu, M., & Takamizawa, K. (2003) · Canadian Journal of Microbiology · doi:10.1139/w03-006 · Cited by 20 · see citing works
Phylogenetic analysis of plastid origins based on secA sequences
Barbrook, A. C., Lockhart, P. J., & Howe, C. J. (1998) · Current Genetics · doi:10.1007/s002940050404 · Cited by 19 · see citing works
Fabreti, L. G., & Höhna, S. (2023) · Systematic Biology · doi:10.1093/sysbio/syad041 · Cited by 18 · see citing works
Inferring large phylogenies: The big tree problem
Vos, R. A. (2006) · Summit (Simon Fraser University) · Cited by 18 · see citing works
Comprehensive analysis of the origin of eukaryotic genomes
Saruhashi, S., Hamada, K., Miyata, D., Horiike, T., & Shinozawa, T. (2008) · Genes & Genetic Systems · doi:10.1266/ggs.83.285 · Cited by 17 · see citing works
Pseudonocardia mongoliensis sp. nov. and Pseudonocardia khuvsgulensis sp. nov., isolated from soil
Ara, I., Tsetseg, B., Daram, D., Suto, M., & Ando, K. (2010) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.019562-0 · Cited by 16 · see citing works
Actinophytocola burenkhanensis sp. nov., isolated from Mongolian soil
Ara, I., Tsetseg, B., Daram, D., Suto, M., & Ando, K. (2010) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.021659-0 · Cited by 14 · see citing works
Reconstructing Divergence Times for Supertrees
Vos, R. A., & Mooers, A. Ø. (2004) · Computational biology · doi:10.1007/978-1-4020-2330-9_14 · Cited by 14 · see citing works
Kim, H., Honda, D., Hanada, S., Kanamori, N., Shibata, S., Miyaki, T., Nakamura, K., & Oyaizu, H. (2000) · Microbiology · doi:10.1099/00221287-146-9-2309 · Cited by 14 · see citing works
Iino, T., Suzuki, K., & Harayama, S. (2009) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.003293-0 · Cited by 13 · see citing works
Haloarchaeobius baliensis sp. nov., isolated from a solar saltern
Mori, K., Nurcahyanto, D. A., Kawasaki, H., Lisdiyanti, P., Yopi, Y., & Suzuki, K. (2015) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.000672 · Cited by 13 · see citing works
Bayesian inference of phylogeny is robust to substitution model over-parameterizationPreprint
Fabreti, L. G., & Höhna, S. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.02.17.480861 · Cited by 11 · see citing works
Halobium palmae gen. nov., sp. nov., an extremely halophilic archaeon isolated from a solar saltern
Mori, K., Nurcahyanto, D. A., Kawasaki, H., Lisdiyanti, P., Yopi, Y., & Suzuki, K. (2016) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.001267 · Cited by 10 · see citing works
Ara, I., Tsetseg, B., Daram, D., Suto, M., & Ando, K. (2011) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.037861-0 · Cited by 8 · see citing works
Sheffield, N. C. (2012) · ISRN Evolutionary Biology · doi:10.5402/2013/391561 · Cited by 7 · see citing works
The Expected Behaviors of Posterior Predictive Tests and Their Unexpected Interpretation
Fabreti, L. G., Coghill, L. M., Thomson, R. C., Höhna, S., & Brown, J. M. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae051 · Cited by 7 · see citing works
Orrorinand the African ape/hominid dichotomy
Pickford, M. H. L. (2012) · Cambridge University Press eBooks · doi:10.1017/cbo9781139096164.008 · Cited by 6 · see citing works
Cryptosporangium mongoliense sp. nov., isolated from soil
Ara, I., Tsetseg, B., Daram, D., Suto, M., & Ando, K. (2011) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.038307-0 · Cited by 6 · see citing works
Deng, H.-W., & Yun-Xin, F. (2000) · Mathematical and Computer Modelling · doi:10.1016/s0895-7177(00)00121-7 · Cited by 6 · see citing works
Dating the Cenancester of Organisms
Hasegawa, M., & Fitch, W. M. (1996) · Science · doi:10.1126/science.274.5293.1750-a · Cited by 6 · see citing works
Self-citationThe Importance of Comparative Psychology for Developmental Science
Liebal, K., & Haun, D. B. M. (2012) · International Journal of Developmental Science · doi:10.3233/dev-2012-11088 · Cited by 5 · see citing works
Compositionally Constrained Sites Drive Long Branch AttractionPreprint
Szánthó, L. L., Lartillot, N., Szöllősi, G. J., & Schrempf, D. (2022) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2022.03.03.482715 · Cited by 5 · see citing works
Molecular polymorphisms for phylogeny, pedigree and population structure studies
Wang, Y. (2006) · UPT. Syiah Kuala University Library (Syiah Kuala University) · Cited by 4 · see citing works
Kanai, S., & Toh, H. (1999) · Journal of Molecular Evolution · doi:10.1007/pl00006492 · Cited by 3 · see citing works
Cann, I., Kanai, S., Toh, H., & Ishino, Y. (1998) · Systematic and Applied Microbiology · doi:10.1016/s0723-2020(98)80059-3 · Cited by 2 · see citing works
Janke, A., & Árnason, Ú. (2005) · Kluwer Academic Publishers eBooks · doi:10.1007/0-306-47461-1_3 · Cited by 2 · see citing works
ANIMALIA, HOMO, AND THE KINGDOM OF GOD
Tuttle, R. H. (2006) · Zygon® · doi:10.1111/j.1467-9744.2006.00731.x · Cited by 1 · see citing works
Eme, L. (2011) · theses.fr (ABES) · doi:10.70675/f6a87363z8acaz4487z93e0z57bc870cf584 · Cited by 1 · see citing works
Forschungsfeld Sprachevolution
Breyl, M. (2021) · De Gruyter eBooks · doi:10.1515/9783110731361
The evolutionary roots of intuitive statistics
Eckert, J. (2018) · doi:10.53846/goediss-7170
- Authors
- Adachi, J., & Hasegawa, M.
- Affiliations
- The Graduate University for Advanced Studies, SOKENDAI (JP)
- ORCID
- Hasegawa, Masami
- Venue
- Journal of Molecular Evolution
- Published
- 1995-06
- Volume
- 40
- Issue
- 6
- Pages
- 622-628
- ISSN
- 0022-2844 (ISSN-L)
- 1432-1432
- OpenAlex
- W2040287264
- Cited by
- 94
- References
- 61
- Citations by year
- 2024: 1 · 2023: 2 · 2022: 2 · 2021: 2 · 2018: 3 · 2017: 1 · 2016: 1 · 2015: 2 · 2014: 2 · 2013: 1 · 2012: 4
- FWCI
- 2.35
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Journal of Molecular Evolution (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Physical Sciences › Earth and Planetary Sciences › Paleontology › Evolution and Paleontology Studies
- Social Sciences › Anthropology › Pleistocene-Era Hominins and Archaeology
- Keywords
- human-chimpanzee divergence, divergence time estimation, mitochondrial DNA, apes, site rate heterogeneity, maximum likelihood estimation, amino acid substitution models
- MeSH terms
- Amino Acid Sequence, Animals, Pan troglodytes, DNA, Mitochondrial, Humans, Phylogeny, Pongo pygmaeus, Hominidae
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review