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John Bracht Associate Professor CAS | BIO | Biology

Additional Positions at AU
MS Director, Biotechnology
Bio
Short Summary of Bracht lab research interests: Given the central importance of the genome, it is surprising that some organisms simply eliminate significant portions of it from some or all cells. Genome changes are also linked to cancer, a fundamentally genomic disease. My lab works on interesting questions surrounding genome dynamics: how does the organism maintain--and sometimes purposefully alter--its genome architecture, and how can it go awry in disease? Genomic methods used in this work include next-generation sequencing of DNA and RNA, cell culture, and computational methods.

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See Also
Biology Department
For the Media
To request an interview for a news story, call AU Communications at 202-885-5950 or submit a request.

Teaching

Fall 2024

  • CORE-105 Complex Problems Seminar: Making of Scientific Change

Spring 2025

  • BIO-210 General Biology II

  • BIO-210 General Biology II

  • BIO-210 General Biology II

  • BIO-478 Computational Genomics

Scholarly, Creative & Professional Activities

Selected Publications

Paffhausen E*, Alowais Y*,  Chao C, Callihan E,  Creswell K, Bracht, JR. Discovery of a stem-like multipotent cell fate. èßäÉçÇøapp Journal of Stem Cells. In press. (* = co-first authors)

Lindblad KA*, Bracht, JR*, Williams AE, Landweber LF. Thousands of RNA-cached copies of whole chromosomes are present in the ciliate Oxytricha during development. RNA. 2017 April 27. (* co-first authors)

Bracht JR*, Wang X*, Shetty K, Chen X, Uttarotai G, Callihan E, McCloud S, Clay D, Wang J, Nowacki M, Landweber LF. Chromosome fusions triggered by noncoding RNA. RNA Biology. 2016 Jun 7:1-12. (* co-first authors)

Chen X*, Bracht JR*, Goldman A, Swart E, Dolzhenko E, Swart E, Clay D, Perlman DH, Doak TG, Stuart A, Amemiya C, Landweber LF. The architecture of a scrambled genome reveals massive levels of genomic rearrangement during development. Cell, Aug. 28, 2014. (*co-first authors)

Bracht JR. Beyond transcriptional silencing: Is cytosine methylation a widely conserved eukaryotic DNA elimination mechanism? BioEssays. April 2014 36(4):346-52.

Bracht JR, Fang W, Goldman AD, Dolzhenko E, Stein EM, Landweber LF. Genomes on the Edge: Programmed Genome Instability in Ciliates. Cell. 2013 Jan 31;152(3):406-416.

Swart E, Bracht JR, Magrini V, Minx P,Chen X, Zhou Y, Khurana J, Goldman AD, Nowacki M, Schotanus K, et al. The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with over 16,000 Tiny Chromosomes. PLoS Biology. 2013 Jan 29;11(1).

Fang W, Wang X, Bracht JR, Nowacki M, Landweber LF. Piwi-Interacting RNAs Protect DNA Against Loss During Oxytricha Genome Rearrangement. Cell. 2012 Dec 7;151(6):1243-1255.

Bracht JR*, Perlman DH, Landweber LF*. Cytosine methylation and hydroxymethylation mark DNA for elimination in Oxytricha trifallax. Genome Biology. 2012 Oct 17;13(10):R99.  *corresponding.

Research Interests

The Bracht lab investigates the process of genome rearrangement in the ciliate Oxytricha trifallax: Genomic methods used in this work include next-generation sequencing of DNA and RNA, cell culture, and computational methods.

Honors, Awards, and Fellowships

NSF I-Corps Teams. Using genomics to detect pathogens. National Science Foundation. (2016-2017) 

K22 Transition Career Development Award (National Institutes of Health, National Cancer Institute): Model systems for the investigation of DNA methylation and drug repurposing (2014-2017)

F32 NRSA Postoctoral Fellowship: Epigenetic regulation of programmed genome instability in O. trifallax (2012-2014)

AU Experts

Area of Expertise

cell biology, genomics, computational genomics

Additional Information

Bracht researches how genome architecture is established and maintained in healthy cells and how it goes awry in disease. He uses a unicellular eukaryote, the ciliate Oxytricha trifallax, as a model system for the role of epigenetics — information on the DNA molecule but outside the DNA sequence — in controlling genome architecture.

For the Media

To request an interview for a news story, call AU Communications at 202-885-5950 or submit a request.

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