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New weighting methods for phylogenetic tree reconstruction using multiple loci.
Misawa K, Tajima F. Misawa K, et al. J Mol Evol. 2012 Aug;75(1-2):1-10. doi: 10.1007/s00239-012-9513-4. Epub 2012 Aug 8. J Mol Evol. 2012. PMID: 22871951 Free PMC article.
Phylogeny of primary photosynthetic eukaryotes as deduced from slowly evolving nuclear genes.
Nozaki H, Iseki M, Hasegawa M, Misawa K, Nakada T, Sasaki N, Watanabe M. Nozaki H, et al. Mol Biol Evol. 2007 Aug;24(8):1592-5. doi: 10.1093/molbev/msm091. Epub 2007 May 7. Mol Biol Evol. 2007. PMID: 17488739 No abstract available.
Revisiting the Glires concept--phylogenetic analysis of nuclear sequences.
Misawa K, Janke A. Misawa K, et al. Mol Phylogenet Evol. 2003 Aug;28(2):320-7. doi: 10.1016/s1055-7903(03)00079-4. Mol Phylogenet Evol. 2003. PMID: 12878468
The universal trend of amino acid gain-loss is caused by CpG hypermutability.
Misawa K, Kamatani N, Kikuno RF. Misawa K, et al. J Mol Evol. 2008 Oct;67(4):334-42. doi: 10.1007/s00239-008-9141-1. Epub 2008 Sep 23. J Mol Evol. 2008. PMID: 18810523
Phylogenetic positions of Glaucophyta, green plants (Archaeplastida) and Haptophyta (Chromalveolata) as deduced from slowly evolving nuclear genes.
Nozaki H, Maruyama S, Matsuzaki M, Nakada T, Kato S, Misawa K. Nozaki H, et al. Mol Phylogenet Evol. 2009 Dec;53(3):872-80. doi: 10.1016/j.ympev.2009.08.015. Epub 2009 Aug 19. Mol Phylogenet Evol. 2009. PMID: 19698794
STR-realigner: a realignment method for short tandem repeat regions.
Kojima K, Kawai Y, Misawa K, Mimori T, Nagasaki M. Kojima K, et al. BMC Genomics. 2016 Dec 3;17(1):991. doi: 10.1186/s12864-016-3294-x. BMC Genomics. 2016. PMID: 27912743 Free PMC article.
Cyanobacterial contribution to the genomes of the plastid-lacking protists.
Maruyama S, Matsuzaki M, Misawa K, Nozaki H. Maruyama S, et al. BMC Evol Biol. 2009 Aug 11;9:197. doi: 10.1186/1471-2148-9-197. BMC Evol Biol. 2009. PMID: 19664294 Free PMC article.
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