Jeffrey Barrick
Jeffrey E. Barrick is a Professor in the Department of Molecular Biosciences at The University of Texas at Austin. His research uses the tools of genomics, synthetic biology, and molecular biology to study the evolution of microorganisms, including symbionts of insects. Since 2022, Barrick has directed the E. coli Long-Term Evolution Experiment (LTEE), which has been underway since 1988.[1]
Education and research
[edit]Barrick received his undergraduate degree in Chemistry from Caltech in 2001, and he did a Ph.D. in Biochemistry and Biophysics at Yale,[2] working with Ronald Breaker on riboswitches and other regulatory RNA motifs in bacteria.[3] Barrick then did postdoctoral research at Michigan State University,[2] where he worked with Richard Lenski on the LTEE and led the first whole-genome sequencing and analysis of the evolved bacterial samples.[4] An accompanying commentary notes that "The complexity of the relationship between tempo and mode of evolution at the genomic and organismal levels is the cause of some unease, and suggests that caution needs to be exercised in inferring mode of organismal evolution from rates of evolution evident in DNA."[5]
Academic career
[edit]Barrick joined the faculty at UT Austin in 2011,[6] becoming full professor in 2024.[7] Since 2012, Barrick has been the faculty mentor for the iGEM synthetic biology student teams at UT Austin.[8] As of August 2024, Barrick has published over 100 scientific papers and has an h-index of 54.[9]
In discussing the LTEE's future in 2015, Lenski, the founding director, proposed that "each successive scientist responsible for the LTEE would, ideally, be young enough that he or she could direct the project for 25 years or so, but senior enough to have been promoted and tenured based on his or her independent achievements in a relevant field (evolutionary biology, genomics, microbiology, etc.)".[10] In 2022, Barrick was named the second director of the LTEE, and the evolving lineages are now being propagated in his lab at UT Austin.[1]
Research findings
[edit]Barrick has been a major contributor to the LTEE, including developing the breseq computational pipeline used to analyze whole-genome sequences from that project and other evolution experiments.[11][12]
Barrick, Lenski, and colleagues identified mutations that allowed a seemingly inferior competitor to eventually prevail over a more-fit lineage in one LTEE population, demonstrating genetic differences in evolvability.[13] Science writer Carl Zimmer compared the findings to a case of "Tortoise and Hare, in a Laboratory Flask".[14] Barrick's team later identified mutations involved in the unexpected evolution of citrate utilization in another population. Zimmer explained that "[Barrick] and his colleagues developed a new method of engineering bacteria in order to identify the mutations that were absolutely essential for full-blown citrate feeding." He went on to say, however, that the relevant mutations "were weirdly few".[15] Barrick's team subsequently discovered that this approach had missed another important mutation involved in citrate use because a later mutation—one involved in refining the new function—overrode the earlier mutation's effect.[16]
In 2015, Barrick was co-recipient of an outstanding-paper award from the Genetics Society of America for a paper on clonal interference and frequency-dependent selection in the LTEE.[17] In 2024, Barrick and collaborators discovered possible instances of de novo gene birth, involving the generation of novel mRNA transcripts and proteins associated with nearby mutations.[18][19]
For several years, Barrick has also worked with bacterial endosymbionts of honey bees and other arthropods, with the aim of modifying the symbionts for beneficial applications.[20] In 2020, Barrick, Nancy Moran, and colleagues genetically modified Snodgrassella alvi, a bacterial species that lives in the gut of honey bees, so that it induces an RNAi-mediated defense against a parasitic mite that carries a virus that is a major threat to the bees.[21] A commentator noted that this "approach may not only provide a solution to many of the honey bee's woes, it also offers a new functional genomic toolkit with which to dissect the molecular intricacies of honey bees and their societies".[22]
References
[edit]- ^ a b Callaway, Ewen (June 14, 2022). "Legendary bacterial evolution experiment enters new era". Nature. 606 (7915): 634–635. Bibcode:2022Natur.606..634C. doi:10.1038/d41586-022-01620-3. PMID 35701611 – via www.nature.com.
- ^ a b "Jeffrey E. Barrick | Department of Molecular Biosciences". molecularbiosci.utexas.edu. Retrieved 2024-08-25.
- ^ "| The Breaker Lab". breaker.yale.edu.
- ^ Barrick, Jeffrey E.; Yu, Dong Su; Yoon, Sung Ho; Jeong, Haeyoung; Oh, Tae Kwang; Schneider, Dominique; Lenski, Richard E.; Kim, Jihyun F. (October 26, 2009). "Genome evolution and adaptation in a long-term experiment with Escherichia coli". Nature. 461 (7268): 1243–1247. Bibcode:2009Natur.461.1243B. doi:10.1038/nature08480. PMID 19838166 – via www.nature.com.
- ^ Rainey, PB (28 October 2009). "Arrhythmia of tempo and mode". Nature. 461 (7268): 1219–1221. doi:10.1038/4611219a. PMID 19865158.
- ^ "Dr. Jeffrey E. Barrick Joins Faculty". cm.utexas.edu.
- ^ "BARRICK, JEFFREY E - Molecular Biosciences - CNS Directory". ils.utexas.edu.
- ^ "The University of Texas at Austin :: iGEM Team". barricklab.org.
- ^ Google scholar page for Jeffrey E. Barrick
- ^ Fox, JW; Lenski, RE (June 23, 2015). "From Here to Eternity—The Theory and Practice of a Really Long Experiment". PLOS Biology. 13 (6): e1002185. doi:10.1371/journal.pbio.1002185. PMID 26102073.
- ^ breseq on Biowulf: High Performance Computing at the NIH
- ^ Tenaillon, Olivier; Barrick, Jeffrey E.; Ribeck, Noah; Deatherage, Daniel E.; Blanchard, Jeffrey L.; Dasgupta, Aurko; Wu, Gabriel C.; Wielgoss, Sébastien; Cruveiller, Stéphane; Médigue, Claudine; Schneider, Dominique; Lenski, Richard E. (August 26, 2016). "Tempo and mode of genome evolution in a 50,000-generation experiment". Nature. 536 (7615): 165–170. Bibcode:2016Natur.536..165T. doi:10.1038/nature18959. PMC 4988878. PMID 27479321.
- ^ Coghlan, A (17 March 2011). "Steady beats flashy in evolution death match". New Scientist.
- ^ Zimmer, C (21 March 2011). "Tortoise and Hare, in a Laboratory Flask". The New York Times.
- ^ Zimmer, Carl (January 6, 2014). "Evolution Hidden in Plain Sight".
- ^ Kliebenstein, DJ (December 15, 2015). "Metabolism: Evolution retraces its steps to advance". eLife. 4: e12386. doi:10.7554/eLife.12386. PMC 4749388. PMID 26670654.
- ^ "Centennial Awards honor outstanding GENETICS articles". EurekAlert!.
- ^ uz-Zaman, Md Hassan; D’Alton, Simon; Barrick, Jeffrey E.; Ochman, Howard (May 7, 2024). "Promoter recruitment drives the emergence of proto-genes in a long-term evolution experiment with Escherichia coli". PLOS Biology. 22 (5): e3002418. doi:10.1371/journal.pbio.3002418. PMC 11101190. PMID 38713714.
- ^ Van Oss, Stephen Branden; Carvunis, Anne-Ruxandra (May 23, 2019). "De novo gene birth". PLOS Genetics. 15 (5): e1008160. doi:10.1371/journal.pgen.1008160. PMC 6542195. PMID 31120894.
- ^ "Bacteria Engineered to Protect Bees from Pests and Pathogens | Department of Molecular Biosciences". molecularbiosci.utexas.edu.
- ^ Leonard, Sean P.; Powell, J. Elijah; Perutka, Jiri; Geng, Peng; Heckmann, Luke C.; Horak, Richard D.; Davies, Bryan W.; Ellington, Andrew D.; Barrick, Jeffrey E.; Moran, Nancy A. (31 January 2020). "Engineered symbionts activate honey bee immunity and limit pathogens". Science. 367 (6477): 573–576. Bibcode:2020Sci...367..573L. doi:10.1126/science.aax9039. PMC 7556694. PMID 32001655.
- ^ Paxton, RJ (31 January 2020). "A microbiome silver bullet for honey bees". Science. 367 (6477): 504–506. Bibcode:2020Sci...367..504P. doi:10.1126/science.aba6135. PMID 32001639.