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Matthew received classical training in plant molecular biology and biochemistry in the University of Illinois at Urbana-Champaign’s Photosynthesis Research Unit. From there, he moved on to Cold Spring Harbor Laboratory where he specialized in computational biology and bioinformatics pertaining to epigenetic gene regulation and genome organization. A long-time participant in the iPlant Collaborative, an NSF-funded project to build a cyberinfrastructure for the Plant Sciences, Matthew joined TACC in September of 2010 to help advance biologist’s access to high-performance computational systems and to advanced information visualization technologies.
Areas of Research
- Epigenetics, Genome Wide Association Mapping, Bioinformatics
Current Projects
- The iPlant Collaborative
- Maize epigenomic variation
- Epigenome dynamics during DNA replication
- Methods in next-generation genome assembly
Selected Publications
- Zaratiegui MB, Vaughn MW, Irvine, DV, Goto DB, Watt, W, Bahler J, Arcangioli B, Martienssen RA. CENP-B preserves genome integrity at replication forks paused by Retrotransposon LTR. Nature 2010 in press
- Lee TJ, Pascuzzi PE, Settlage, SB, Schultz RW, Tanurdzic M, Rabinowicz PD, Menges M, Zheng P, Main D, Murray JAH, Sosinski B, Allen GC, Martienssen RA, Hanley-Bowdoin L, Vaughn MW, Thompson WF. Arabidopsis thaliana Chromosome 4 Replicates in Two Phases That Correlate with Chromatin State. PLOS Genetics 2010 Jun 10; 6(6):e1000982. PubMed PMID: 20548960
- The Maize Sequencing Consortium. The B73 maize genome: complexity, diversity and dynamics. Science 2009 Nov 20:326(5956):1112-1115. PubMed PMID: 19965430
- Irvine DV, Goto DB, Vaughn MW, Nakaseko Y, McCombie WR, Yanagida M, Martienssen R. Mapping epigenetic mutations in fission yeast using whole-genome next-generation sequencing. Genome Res. 2009 Jun;19(6):1077-83. Epub 2009 May 7. PubMed PMID: 19423874; PubMed Central PMCID: PMC2694473
- Slotkin RK, Vaughn M, Borges F, Tanurdzić M, Becker JD, Feijó JA, Martienssen RA. 2009. Epigenetic reprogramming and small RNA silencing of transposable elements in pollen. Cell. 2009 Feb 6;136(3):461-72. PubMed PMID: 19203581; PubMed Central PMCID: PMC2661848
- Vaughn, M.W., Tanurdzic, M., Lippman, Z., Jiang, H., Carasqiullo, R., Rabinowicz, P.D., Dedhia, N., McCombie, W.R., Agier, N., Bulski, A., Colot, V., Doerge, R.W., and R.A. Martienssen (2007) Epigenetic natural variation in Arabidopsis thaliana. PLOS Biology (Vol. 5, No. 7, e174 doi:10.1371/journal.pbio.0050174)
- Ronemus, M., Vaughn, M.W., and R. A. Martienssen (2006) miRNA-Targeted and siRNA- Mediated mRNA Degradation Is Regulated by Argonaute, Dicer and RdRP In Arabidopsis. Plant Cell 18(7):1559-74
- Lippman, Z., Gendrel, A.V., Black, M., Vaughn, M.W., Dedhia, N., McCombie, W.R., Lavine, K., Mittal, V., May, B., Kasschau, K., Carrington, J.C., Doerge, R.W., Colot, V., and Martienssen, R.A. (2004) Role of transposable elements in heterochromatin and epigenetic control. Nature 430: 471-476
Organization Membership/Professional Affiliations
- American Society of Plant Biologists
Education
- Ph.D, Biology, University of Illinois at Urbana-Champaign
- B.S., Biology, University of Illinois at Urbana-Champaign
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Research Associate, Computational Biology