Sister grouping of chimpanzees and humans as revealed by genome-wide phylogenetic analysis of brain gene expression profilesMonica Uddin
Center for Molecular Medicine and Genetics, Department of Anatomy and Cell Biology, Wayne State University School of Medicine, 540 East Canfield Avenue, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 101:2957-62. 2004
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Moving primate genomics beyond the chimpanzee genomeMorris Goodman
Department of Anatomy and Cell Biology, Wayne State University School of Medicine, Detroit, Michigan 48201, USA
Trends Genet 21:511-7. 2005
..Some of these traits have been discovered recently, particularly in genes encoding proteins that are important for brain function...
- Colloquium paper: phylogenomic evidence of adaptive evolution in the ancestry of humans
Morris Goodman
Center for Molecular Medicine and Genetics and Department of Anatomy and Cell Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 107:8918-23. 2010
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- Phylogenomic analyses reveal convergent patterns of adaptive evolution in elephant and human ancestries
Morris Goodman
Center for Molecular Medicine and Genetics, Department of Anatomy and Cell Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 106:20824-9. 2009
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- Elephant transcriptome provides insights into the evolution of eutherian placentation
Zhuo Cheng Hou
Perinatology Research Branch, Eunice Kennedy Shriver National Institute of Child Health and Human Development NIH DHHS, Detroit, Michigan, USA
Genome Biol Evol 4:713-25. 2012
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- Molecular evolution of the cytochrome c oxidase subunit 5A gene in primates
Monica Uddin
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit MI 48201, USA
BMC Evol Biol 8:8. 2008
..Here, we test the hypothesis that COX5A, the ETC gene that encodes cytochrome c oxidase subunit 5A, shows a pattern of anthropoid-specific adaptive evolution, and investigate the distribution of this protein in catarrhine brains...
- The human progesterone receptor shows evidence of adaptive evolution associated with its ability to act as a transcription factor
Caoyi Chen
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Mol Phylogenet Evol 47:637-49. 2008
..Positive selection provides the basis for the hypothesis that changes in structure and function of the progesterone receptor during evolution contribute to the diversity of primate reproductive biology, especially in parturition...
- Coadaptive evolution in cytochrome c oxidase: 9 of 13 subunits show accelerated rates of nonsynonymous substitution in anthropoid primates
Jeffrey W Doan
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Mol Phylogenet Evol 33:944-50. 2004
- Silencing, positive selection and parallel evolution: busy history of primate cytochromes C
Denis Pierron
Center for Molecular Medicine and Genetics, Wayne State University, School of Medicine, Detroit, Michigan, United States of America
PLoS ONE 6:e26269. 2011
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- Distinct genomic signatures of adaptation in pre- and postnatal environments during human evolution
Monica Uddin
Center for Molecular Medicine and Genetics and Department of Anatomy and Cell Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 105:3215-20. 2008
..Comparing adaptively evolving genes from pre- and postnatal-stage tissues suggests that different selective pressures act on the development vs. the maintenance of the human phenotype...
- Ancient origin of placental expression in the growth hormone genes of anthropoid primates
Zack Papper
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 106:17083-8. 2009
..e., the roles played by placenta-expressed GHs in human pregnancy may have a longer evolutionary history than previously appreciated)...
Genomic data reject the hypothesis of a prosimian primate cladeNatalie M Jameson
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
J Hum Evol 61:295-305. 2011
..Our results provide the framework on which primate morphological, reproductive, and genomic features can be reconstructed in the broader context of mammalian phylogeny...
- Rapid electrostatic evolution at the binding site for cytochrome c on cytochrome c oxidase in anthropoid primates
Timothy R Schmidt
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 102:6379-84. 2005
..We suggest that reducing the electrostatic interaction between COX and CYC was part of the adaptive evolution underlying the emergence of anthropoid primates...
- Rapid nonsynonymous evolution of the iron-sulfur protein in anthropoid primates
Jeffrey W Doan
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, 540 E Canfield Avenue, Detroit, MI 48201, USA
J Bioenerg Biomembr 37:35-41. 2005
..Nevertheless, we find that the catalytically active ISP has an accelerated rate of amino acid replacement in anthropoid primates whereas the catalytically inactive subunit 9 does not...
- Adaptive evolution of cytochrome c oxidase subunit VIII in anthropoid primates
Allon Goldberg
Center for Molecular Medicine and Genetics and Department of Anatomy and Cell Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 100:5873-8. 2003
..We argue that these changes were linked to the evolution of an expanded neocortex in anthropoid primates...
- Emergence of hormonal and redox regulation of galectin-1 in placental mammals: implication in maternal-fetal immune tolerance
Nandor Gabor Than
Perinatology Research Branch, National Institute of Child Health and Human Development, National Institutes of Health, and Department of Health and Human Services, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 105:15819-24. 2008
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- Characterization of human cortical gene expression in relation to glucose utilization
Kirstin N Sterner
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan, 48201
Am J Hum Biol 25:418-30. 2013
..The objectives of this study were to determine developmental trajectories of gene expression and to examine the evolutionary history of genes differentially expressed as a function of age...
- Phylogenetic comparisons suggest that distance from the locus control region guides developmental expression of primate beta-type globin genes
Robert M Johnson
Department of Biochemistry and Molecular Biology, Wayne State University School of Medicine, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 103:3186-91. 2006
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- Dynamic gene expression in the human cerebral cortex distinguishes children from adults
Kirstin N Sterner
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan, United States of America
PLoS ONE 7:e37714. 2012
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- The phylogenetic history of New World monkey beta globin reveals a platyrrhine beta to delta gene conversion in the atelid ancestry
Tom Prychitko
Department of Anatomy and Cell Biology, Wayne State University, Detroit, MI, USA
Mol Phylogenet Evol 35:225-34. 2005
..This phylogeny generally agreed with results from other nuclear genes. The one exception was that the beta sequences did not place the callitrichine clade within the Cebidae but weakly joined the callitrichine and atelid clades...
- Implications of natural selection in shaping 99.4% nonsynonymous DNA identity between humans and chimpanzees: enlarging genus Homo
Derek E Wildman
Center for Molecular Medicine and Genetics and Department of Anatomy and Cell Biology, Wayne State University School of Medicine, 540 East Canfield Avenue, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 100:7181-8. 2003
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- OCPAT: an online codon-preserved alignment tool for evolutionary genomic analysis of protein coding sequences
Guozhen Liu
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine Detroit, MI 48201, USA
Source Code Biol Med 2:5. 2007
..Since this feature is not available in most alignment tools, codon reading frames often must be checked manually before evolutionary analyses can commence...
- Accelerated evolution of the electron transport chain in anthropoid primates
Lawrence I Grossman
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, 540 East Canfield Avenue, Detroit, MI 48201, USA
Trends Genet 20:578-85. 2004
..Two important questions are: (i) how has evolution altered ETC function? and; (ii) how might functional changes in the ETC be linked to evolution of an expanded neocortical brain?..
- Retention of a duplicate gene through changes in subcellular targeting: an electron transport protein homologue localizes to the golgi
Timothy R Schmidt
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
J Mol Evol 57:222-8. 2003
..Noncomplementary null mutations could also uncover an alternate localization, which is the more likely case for pCOX7AR...
- Phylogenetic relationships and divergence times among New World monkeys (Platyrrhini, Primates)
Juan C Opazo
Center for Molecular Medicine and Genetics, School of Medicine, Wayne State University, Detroit, MI 48201, USA
Mol Phylogenet Evol 40:274-80. 2006
..Divergence time estimations using both local molecular clock and Bayesian approaches suggest the families diverged from one another over a short period of geological time in the late Oligocene-early Miocene...
- A primate subfamily of galectins expressed at the maternal-fetal interface that promote immune cell death
Nandor Gabor Than
Perinatology Research Branch, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Department of Health and Human Services, Detroit, MI 48201, USA
Proc Natl Acad Sci U S A 106:9731-6. 2009
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- Amino acid replacement is rapid in primates for the mature polypeptides of COX subunits, but not for their targeting presequences
Timothy R Schmidt
Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Gene 286:13-9. 2002
..Since the functions of the targeting and mature proteins of these polypeptides are different, the mature portions of these genes are likely to have undergone a functionally significant change that is adaptive in nature...
- Globin gene switching in primates
Robert M Johnson
Department of Biochemistry and Molecular Biology, Wayne State University, Detroit, MI 48201, USA
Comp Biochem Physiol A Mol Integr Physiol 133:877-83. 2002
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- Dynamic retrotransposition of ERV-9 LTR and L1 in the beta-globin gene locus during primate evolution
Jianhua Ling
Department of Biochemistry and Molecular Biology, School of Medicine, Medical College of Georgia, Augusta, GA 30912, USA
Mol Phylogenet Evol 30:867-71. 2004
- Genomics, biogeography, and the diversification of placental mammals
Derek E Wildman
Perinatology Research Branch, National Institute of Child Health and Human Development National Institutes of Health, Department of Health and Human Services, Bethesda, MD 20892, USA
Proc Natl Acad Sci U S A 104:14395-400. 2007
..Crown placental mammalian diversification appears to be largely the result of ancient plate tectonic events that allowed time for convergent phenotypes to evolve in the descendant clades...
- Functionally important glycosyltransferase gain and loss during catarrhine primate emergence
Chihiro Koike
Department of Surgery and Thomas E Starzl Transplantation Institute, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA
Proc Natl Acad Sci U S A 104:559-64. 2007
..However, we emphasize that positively selected regulatory changes in sugar chain metabolism might well have contributed in a major way to catarrhine origins...
- Evolution of the mammalian placenta revealed by phylogenetic analysis
Derek E Wildman
Perinatology Research Branch, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA
Proc Natl Acad Sci U S A 103:3203-8. 2006
..The influence of these factors on placental development needs further investigation...
- Episodic positive selection in ape cytochrome c oxidase subunit IV
Derek E Wildman
Mol Biol Evol 19:1812-5. 2002
- Evolution of increased glia-neuron ratios in the human frontal cortex
Chet C Sherwood
Department of Anthropology, The George Washington University, Washington, DC 20052, USA
Proc Natl Acad Sci U S A 103:13606-11. 2006
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