- Ph.D., Biology , Texas Tech University, 1999
- MS, Biochemistry and Molecular Biology , Kiev State University Kiev, Ukraine, 1995
- Department of Ecology and Evolution, The University of Chicago, 1999-2003
Dr. Makova is interested in molecular evolution, population genetics, evolutionary genomics, bioinformatics, and human genetics. Her laboratory employs a combination of molecular and computational approaches. Some of the current projects include:
Male Mutation Bias, or Male-Driven Evolution
As the number of cell divisions is higher in the male germ line compared to the female germ line, the number of mutations originating in males is also higher than in females. The underlying assumption is that mutations are replication-driven. The Y chromosome mutates faster than the X, while autosomes have an intermediate mutation rate. This is because the Y is carried only by males, autosomes spend equal amount of time in males and females, and the X spends one-third of the time in males and two-thirds of the time in females. Thus, by studying mutations on different types of chromosomes, one can investigate the male-to-female mutation rate ratio. The research focuses on estimating the male-to-female mutation rate ratio for different types of mutations (nucleotide substitutions, insertions and deletions, and changes in the microsatellite repeat number) and for different organisms (primates and rodents as well as other mammals). This project is critical for genetic counseling (how important is the age of a male at the time of reproduction?) as well as for our understanding of mutation mechanisms.
Evolution of Gene Expression
While we now have some information about the evolution of the protein coding genes, there is a paucity of knowledge about evolution of gene expression. For instance, does the divergence in gene expression correlate with the protein sequence divergence? In other words, are the evolution of coding region and the evolution of mRNA expression coupled? One can have some insight into this question by analyzing the tempo of expression divergence between duplicate genes in a genome. A general picture is now achievable thanks to the advent of microarray gene expression technology and the complete sequences of many genomes. Another area of interest is population genetics and molecular evolution of promoters.
Human Population Genomics
With the completion of the Human Genome Project, it is possible to study human population genetics on a whole-genome scale. Such an approach is more robust compared with the earlier single locus studies. Specific questions include detecting positive selection and studying patterns of linkage disequilibrium. Population genetics and molecular evolution of genes important for human skin pigmentation are of particular interest. The results of this investigation will provide direct information on the usefulness of particular populations and of particular genetic polymorphisms for disease gene identification studies. This project is pursued in collaboration with Dr. Mark Shriver from the Department of Anthropology.
Ananda, G., F. Chiaromonte, and K. D. Makova. 2011. A genome-wide view of mutation rate co-variation using multivariate analyses. Genome Biology 12: 27.
Goto, H., B. Dickins, E. Afgan, I. M. Paul, J. Taylor, K. D. Makova, and A. Nekrutenko. 2011. Dynamics of mitochondrial heteroplasmy in three families investigated via a repeatable re-sequencing study. Genome Biology 12: 59.
Kelkar, Y. D., N. Strubczewski, S. E. Hile, F. Chiaromonte, K. A. Eckert, and K. D. Makova. 2010. What is a microsatellite: A computational and experimental definition based upon repeat mutational behavior at A/T and GT/AC repeats. Genome Biology and Evolution 2: 620-635.
Park, C., L. Carrel, and K. D. Makova. 2010. Strong purifying selection at genes escaping X chromosome inactivation. Molecular Biology and Evolution 27(11): 2446-2450.
Kvikstad, E. M., and K. D. Makova. 2010. The (r)evolution of LINE and SINE disribution in the primate genomes: Sex chromosomes are important. Genome Research 20: 600-613.
Wilson, M., and K. D. Makova. 2009. Genomic analyses of sex chromosome evolution. Annual Review of Genomics and Human Genetics 10: 333-354.
Wilson, M., and K. D. Makova. 2009. Evolution and survival on eutherian sex chromosomes. PLoS Genetics 5: (7) e1000568.
Kvikstad, E. M., F. Chiaromonte, and K. D. Makova. 2009. Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions. Genome Research 19(7): 1153-1164.
Goto H, L. Peng, and K. D. Makova. 2009. Evolution of X-degenerate Y chromosome genes in greater apes: Conservation of gene content in human and gorilla, but not chimpanzee. Journal of Molecular Evolution 68: 134-144.
Lau, A. L., L. Peng, H. Goto, L. Chemnick, O. A. Ryder, and K. D. Makova. 2009. Horse domestication and conservation genetics of the Przewalski’s Horse inferred from sex chromosomal and autosomal sequences. Molecular Biology and Evolution 26: 199-208.