Prof. Dan Mishmar

List of publications

 

List of Publications

2017

Marom, S., Friger, M., & Mishmar, D. (2017). MtDNA meta-analysis reveals both phenotype specificity and allele heterogeneity: a model for differential association. Scientific Reports, 7., 43449; doi: 10.1038/srep43449‏ link


Levin.L & Mishmar.D.(2017).The genomic landscape of evolutionary convergence in mammals, birds and reptiles. Nature Ecology & Evolution,10.1038/s41559-016-0041 Link


Blumberg, A., Kundaje, A., Danko, C. G., & Mishmar, D. (2017). Initiation of mtDNA transcription is followed by pausing, and diverge across human cell types and during evolution. Genome Research, gr-209924.‏  Link

 

2016

 

Cohen T, Levin L, Mishmar D (2016) Ancient Out-of-Africa Mitochondrial DNA Variants Associate with Distinct Mitochondrial Gene Expression Patterns. PLoS Genet 12(11): e1006407. doi:10.1371/journal.pgen.1006407 Link


Bar-Yaacov, D., I. Frumkin, Y. Yashiro, T. Chujo, Y. Ishigami, Y. Chemla, A. Blumberg, O. Schlesinger, P. Bieri, B. Greber, N. Ban, R. Zarivach, L. Alfonta, Y. Pilpel, T. Suzuki and D. Mishmar (2016). "Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates." PLoS Biol 14(9): e1002557. Link


 

2015

 

Bar-Yaacov D, Hadjivasiliou Z, Levin L, Barshad G, Zarivach R, Bouskila A, Mishmar D. Mitochondrial involvement in vertebrate speciation? The case of mito-nuclear genetic divergence in chameleons. Genome Biol Evol . 2015 Dec 1;7(12):3322-36.Link 


Levin L, Bar-Yaacov D, Bouskila A, Chorev M, Carmel L, Mishmar D. LEMONS–A Tool for the Identification of Splice Junctions in Transcriptomes of Organisms Lacking Reference Genomes. PloS one. 2015;10(11). Link


Levin L and Mishmar D. A Genetic View of the Mitochondrial Role in Ageing: Killing Us SoftlyIn: Atzmon G (ed).  Longevity Genes, 2015 (Springer). Link  


Valenci I, Yonai L, Bar-Yaacov D, Mishmar D and Ben-Zvi A. “Parkin modulates heteroplasmy of truncated mtDNA in Caenorhabditis elegans”. Mitochondrion 2015; 20: 64-70. doi: 10.1016/j.mito.2014.11.001. Link

 

2014


Levin L, Blumberg A, Barshad G, Mishmar D. Mito-nuclear co-evolution: the positive and negative sides of functional ancient mutations.Frontiers in Genetics 2014;5:448. doi:10.3389/fgene.2014.00448.  Link


Gershoni M, Levin L, Ovadia O, Toiw Y, Shani N, Dadon S, Barzilai N, Bergman A, Atzmon G, Wainstein J, Tsur A, Nijtmans L, Glaser B, Mishmar D. Disrupting mitochondrial-nuclear co-evolution affects OXPHOS complex I integrity and impacts human health. Genome Biol Evol published online October 9, 2014, 6: 2665-2680. Link 


Blumberg A, Sailaja BS, Kundaje A, Levin L, Dadon S, Shmorak S, Shaulian E, Meshorer E, Mishmar D. Transcription Factors Bind Negatively Selected Sites within Human mtDNA Genes. Genome Biol Evol published online October 8, 2014, 6: 2634-2646. Link


2013

Bar-Yaacov D, Bouskila A, Mishmar D. The first chameleon transcriptome: Comparative genomic analysis of the OXPHOS system reveals loss of COX8 in iguanian lizards. Genome Biol Evol. published online September 4, 2013 link


Bar-Yaacov D, Avital G, Levin L, Richards A, Hachen N, Jaramillo BR, Nekrutenko A, Zarivach R, and Mishmar D. RNA-DNA differences in human mitochondria restore ancestral form of 16S ribosomal RNA. Genome Research. published online August 2, 2013 link


Levin L, Zhidkov I, Gurman Y, Hawlena H, and Mishmar D. Functional Recurrent Mutations in the Human Mitochondrial Phylogeny – Dual Roles in Evolution and Disease. Genome Biol Evol. published online April 5, 2013 link



2010-2012

 

Avital G, Buchshtav M, Zhidkov I, Tuval Feder J, Dadon S, Rubin E, Glass D, Spector TD and Mishmar D. Mitochondrial DNA heteroplasmy in diabetes and normal adults: role of acquired and inherited mutational patterns in twins. Hum Mol Genet. 2012 Jul 10.link


Bar Yaacov D, Arbel-Thau K, Zilka Y, Ovadia O, Bouskila and Mishmar, D. (2012) Mitochondrial DNA Variation, but Not Nuclear DNA, Sharply Divides Morphologically Identical Chameleons along an Ancient Geographic Barrier. PloS one 7(3):e31372.doi:10.1371/journal.pone.0031372. link


Zhidkov, I., Nagar, T., Mishmar, D. & Rubin, E. MitoBamAnnotator: A web-based tool for detecting and annotating heteroplasmy in human mitochondrial DNA sequences. Mitochondrion (2011).link


Bar-Yaacov, D., Blumberg, A. & Mishmar, D. Mitochondrial-nuclear co-evolution and its effects on OXPHOS activity and regulation.Biochimica et Biophysica Acta (BBA)-Gene Regulatory Mechanisms (2011). link


Zhidkov, I., Cohen, R., Geifman, N., Mishmar, D. & Rubin, E. CHILD: a new tool for detecting low-abundance insertions and deletions in standard sequence traces. Nucleic Acids Research 39, e47 (2011).link


Mishmar D. and Zhidkov, I. (2010). Evolution and disease converge in the mitochondrion, BBA-Bioenergetics, 1797: 1099-104. . link


Gershoni, M. Fuchs, A., Shani, N., Fridman, Y., Corral-Debrinski, M., Aharoni, A., Frishman, D. and Mishmar, D. (2010). Co-evolution predicts direct interactions between mtDNA and nuclear DNA-encoded subunits of oxidative phosphorylation complex I, Journal of Molecular biology, 404: 158–171. link


Amar, S., Ovadia, O., Maier, W., Ebstein, R., Belmaker RH, Mishmar, D. and Agam, G. (2010). Copy number variation of the SELENBP1 gene in schizophrenia, Behavioral and Brain Functions, 6: 40. link

o   In this Behavioral and Brain Functions paper Prof. Agam and I are co-corresponding authors.


Garbian, Y., Ovadia, O., Dadon, S. and Mishmar, D. (2010). Gene expression patterns of oxidative phosphorylation complex I subunits are organized in modules PloS one, 5(4): e9983 . link



2007-2009

 

Feder, J. Ovadia, O., Blech, I., Cohen, J., Wainstein, J., Harman-Boehm, I., Glaser, B., and Mishmar, D. (2009). Parental diabetes status reveals association of Mitochondrial DNA Haplogroup J1 with Type 2 Diabetes , BMC Med Genet, 10(1):60. link


Suissa, S., Wang, Z., Poole, J., Wittkopp, S., Feder, J., Shutt, TE, Wallace, DC, Shadel, GS and Mishmar, D. (2009). Ancient mtDNA genetic variants modulate mtDNA transcription and replication, PLoS Genetics, 5 (5): e1000474.  link


Gershoni, M., Templeton, AR and Mishmar, D. (2009). Mitochondrial biogenesis as a major motive force of speciation, BioEssays, 31(6):642-650.  link

o   This BioEssays paper was thoroughly discussed in: Lane, N. (2009). Nature, 462: 272-74.


Zhidkov, I., Livneh, EA, Rubin, E. and Mishmar, D. (2009). mtDNA mutation pattern in tumors and human evolution are shaped by similar selective constraints, Genome Research, 19:576-580. (Cover article).  link

o   This Genome Research paper was selected to present the cover page of the April issue of the Journal, 2009.


Potluri, P., Davila, A., Ruiz-Pesini, E., Mishmar, D., O’Hearn, S., Hancock, S., Simon, M., Scheffler, I.E., Wallace, D.C., and Procaccio, V.F. (2009). Progressive Complex I-Specific Neurodegenerative Disease Caused by Faulty Nuclear-Cytoplasmic Interaction, Molecular Genetics and Metabolism, 96(4):189-95.  link 

·


Kozminsky-Atias, A., Bar-Shalom, A., Mishmar, D., and Zilberberg N. (2008) Assembling an arsenal, the scorpion way. BMC Evolutionary Biology 8(1):333. link


Brandon MC, Ruiz-Pesini E, Mishmar D, Procaccio V, Lott MT, Nguyen KC, Spolim S, Patil U, Baldi P, Wallace DC. (2009). MITOMASTER: a bioinformatics tool for the analysis of mitochondrial DNA sequences. Hum Mutat. 30(1):1-6. link


Feder, J., Blech, I., Ovadia, O., Wainstein, J., Raz, I., Dadon, S., Arking DE, Glaser, B. and Mishmar D. (2008). Mitochondrial DNA Haplogroups Alter Susceptibility to Complications of Type 2 Diabetes Mellitus in three Jewish populations, BMC Genomics, 9: 198. link


Amar, S., Shamir A., Ovadia, O., Blanaru, M., Reshef, A., Kremer, I., Rietschel, M., Schulze, TG, Maier, W., Belmaker, RH, Ebstein, RE, Agam, G. and Mishmar D. (2007). Mitochondrial DNA HV lineage increases the susceptibility to schizophrenia among Israeli Arabs,Schizophrenia Research, 94(1-3): 354-8. link


Mishmar, D. and Gershoni, M. (2007). Treating speciation processes as complex traits, Nature Reviews Genetics8: doi:10.1038/nrg1968-c1. link


Feder, J., Ovadia, O., Glaser, B. and Mishmar, D. (2007). Ashkenazi Jewish mtDNA haplogroup distribution varies among distinct subpopulations: lessons of population sub-structure in a closed group, European Journal of Human genetics, 15(4):498-500.  link


Ruiz-Pesini, E., Lott, M, Procaccio, V, Poole, J., Brandon, M., Mishmar, D., Yi, C., Kreuziger, J., Baldi, P., Wallace, D. (2007). An Enhanced MITOMAP with a Global mtDNA Mutational Phylogeny, Nucleic Acid Research 35(Database issue):D823-8. link



2004-2006

 Mishmar, D., Ruiz-Pesini, E., Mondragon-Palomino, M., Procaccio, V., Gaut, B., and Wallace, D.C (2006). Adaptive Selection of Mitochondrial Complex I Subunits during Primate Radiation, Gene378: 11-18.  link


Ruiz-Pesini, E., Mishmar, D., Brandon, M., and Wallace, D.C. (2004). Effects of purifying and adaptive selection on regional variation in human mtDNA, Science, 303(5655): 223-6.  link


Mishmar, D., Ruiz-Pesini, E., Brandon, M., and Wallace, D.C. (2004). Mitochondrial DNA-like sequences in the Nucleus (NUMTs): Insights into our African origins and the mechanism of foreign DNA integration. Human Mutation, 23(2): 125-33.  link



Until 2003:

 

Wallace, D.C., Ruiz-Pesini, E., and Mishmar, D. (2003). MtDNA Variation, Climatic Adaptation, Degenerative Diseases and Longevity, Cold Spring Harb Symp Quant Biol68:479-86 link


Mishmar, D., Ruiz-Pesini, E., Golik, P., Macaulay, V., Clark A.G., Hosseini, S., Brandon, M., Easley, K., Chen, E., Brown, M.D., Sukernik, R.I., Olckers, A. and Wallace, D.C. (2003). Natural selection shaped Regional Mitochondrial DNA variation in humans, Proc.Natl.Acad.Sci., 100(1):171-176.  link


Mishmar, D., Mandel-Gutfreund, Y., Margalit, H., Rahat, A., and Kerem, B. (1999). Common fragile sites: G-band characteristics within an R-band, The American Journal of Human Genetics64: 908-910. link


Mishmar, D., Rahat, A., Scherer, S.W., Nyakatura, G., Hinzmann, B., Kohwi, Y., Mandel-Gutfroind, Y., Lee, J.R., Drescher, B., Sas, D.E., Margalit, H., Platzer, M., Kohwi-Shigematsu, T., Weiss,A., Tsui, L-C., Rosenthal, A. and Kerem, B. (1998). Molecular characterization of a common fragile site (FRA7H) on human chromosome 7 by the cloning of an SV40 integration site. Proc.Natl.Acad.Sci., 95(14):8141-8146.  link


Mishmar, D. (1997). Is He Our Ancestor? Galilleo24: 56-59 (Hebrew)


Reshef, D. (1994). Human origins: prehistory in the biology class, Journal for Biology Teachers, 137b: 65-68 (Hebrew)


Reshef, D. and Smith,P. (1993). Two Skeletal Remains from Hiam El Sagha, Revue Biblique101: 260-269.



 

 

print