©2018 by Barel Weiner

barelkess.w@gmail.com

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Articles since 2015

 

 Research Articles 

 

Gophna, U, Kristensen, DM, Wolf YI, Popa O, Drevet C, Koonin EV (2015). evidence of inhibition of horizontal gene transfer by CRISPR-Cas on evolutionary timescales. ISME Journal. (9), 2021–2027.

 

Reshef, L., Kovacs, A., Ofer, A., Yahav, L.,  Keren, N., Maharshak, N., Konikoff, F.M., Tulchinsky, H., Gophna, U.* and Dotan, I*. (accepted) Pouch Inflammation is Associated with a Decrease in Specific Bacterial taxa. Gastroenterology.  *Corresponding authors

 

Dan, M., Yair, Y., Samosav, A., Gottesman, T., Yossepowitch, O. Harari-Schwartzd, O., Tsivian, E., Schreiber, R., Gophna, U. (2015) Escherichia coli isolates from patients with bacteremic urinary tract infection are genetically distinct from those derived from sepsis following prostate transrectal biopsy. International Journal of Medical Microbiology.(4-5):464-8.

 

Roterman, Y.R., Benayahu, Y., Reshef, L., Gophna, U. (2015) The gill microbiota of invasive and indigenous Spondylus oysters from the Mediterranean Sea and northern Red Sea. Environmental Microbiology Reports. 7 (6), 860-867

 

Keren, N., Konikoff, F.M., Paitan, Y.,  Gabay, G., Reshef, L., Naftali, T., Gophna, U. (2015) Interactions between the intestinal microbiota and bile-acids in gallstones patients. Environmental Microbiology Reports. 7 (6), 874-880.

 

Oberhardt, M.A., Zarecki, R., Gronow, S., Lang, E., Klenk, H.P., Gophna, U*., and Ruppin, E*. (2015) Harnessing the landscape of microbial culture media to predict new organism-media pairings. Nature Communications. 13;6:8493.* Corresponding authors.

 

Ninio, N., Adato, O., Gophna, U. and Snir, S. Detecting Horizontal Gene Transfer Between Closely Related Taxa. (2015). PLoS Computational Biology 6;11(10):e1004408.

 

Naftali, T., Reshef, L., Kovacs, A., Porat, R., Amir, I., Konikoff, F.M., and Gophna, U. (2016) Distinct microbiotas are associated with ileum-restricted and colon-involving Crohn's Disease. Inflammatory Bowel Diseases. 22(2):293-302

 

Oberhardt, M.A., Zarecki, R., Reshef, L., Xia, F., Duran-Frigola, M., Schreiber, R., Henry, C.S., Ben-Tal, N., Dwyer, D.J*., Gophna, U*., and Ruppin, E* (2016). Systems-wide prediction of enzyme promiscuity reveals a new underground alternative route for pyridoxal 5’-phosphate production in E. coli. PLoS Computational Biology 12(1):e1004705.

 

Yanuka-Golub, K., Reshef, L., Rishpon, Y. and Gophna, U. (2016) Community structure dynamics during startup in microbial fuel cells–the effect of phosphate concentrations. Bioresource Technology 6;212:151-159


Naor, A., Altman-Price, N., Soucy, S.M., Green, A.G., Mityagin, Y., Turgeman, I., Davidovich, N., Gogarten, J.P.*,  and Gophna, U*. Impact of a homing intein on recombination frequency and organismal fitness (2016). PNAS. 113(32): E4654–E4661. * Corresponding authors

 
Maharshak, N., Cohen, N.A., Reshef, L., Tulchinsky, H., Gophna, U. and Dotan, I. (2017) Alterations of enteric microbiota in patients with a normal ileal pouch are predictive of pouchitis. Journal of Crohn's and Colitis. 11(3):314-320.

 
Gophna, U., Konikoff, T, and Nielsen, H.B. (2017) Oscillospira and related bacteria – from metagenomic species to metabolic features. Environmental Microbiology 19(3):835-841

 
Stachler, A.E., Turgeman-Grott, I., Shtifman-Segal, E., Allers, T., Marchfelder, A. *, Gophna, U.*   (2017) High tolerance to self-targeting of the genome by the endogenous CRISPR-Cas system in an archaeon. Nucleic Acids Research. 45(9):5208-5216. * Equal contribution

 
Artieri, C.G., Naor, A., Turgeman-Grott, I., Zhou, Y., York, R., Gophna, U., Fraser H.B. (2017) Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids. Scientific Reports 7(1):3986.

 

Shalev Y., Turgeman-Grott I., Tamir A., Eichler J., and Gophna U. (2017) Cell Surface Glycosylation Is Required for Efficient Mating of Haloferax volcanii. Frontiers in Microbiology. 2017 Jul 5;8:1253. 

 

Shulman A., Yair Y., Biran D., Sura T., Otto A., Gophna U., Becher D., Hecker M., Ron E.Z.. (2018). The Escherichia coli Type III Secretion System 2 Has a Global Effect on Cell Surface. MBio. 2018 3;9(4). pii: e01070-18.

 

Yitzhaki S., Reshef L., Gophna U., Rosenberg M., Sterer N. (2018) Microbiome associated with denture malodour. Journal of Breath Research. Jan 17;12(2):027103.

 

Turgeman-Grott, I., Joseph, S., Marton, S., Eizenshtein, K., Naor, A., Soucy, S.M., Stachler, A.E., Shalev, Y., Zarkor,M., Reshef, L., Altman-Price, N, Marchfelder, A., and Gophna, U. (2019). Pervasive acquisition of CRISPR memory driven by inter-species mating of archaea can limit gene transfer and influence speciation. Nature Microbiology. 4(1):177-186. Featured in Nature Microbiology News and Views.

 

Kolodny O., Weinberg M., Reshef L., Harten L., Hefetz A., Gophna U., Feldman M.W., Yovel Y. Coordinated change at the colony level in fruit bat fur microbiomes through time. Nature Ecology and Evolution. 2019 Jan;3(1):116-124. Featured in Nature’s Research Highlights and Nature Ecology and Evolution News and Views.

Lavy O., Gophna U., Gefen E., Ayali A. The Effect of Density-Dependent Phase on the Locust Gut Bacterial Composition. Frontiers in Microbiology 2019 18;9:3020.

 

 

Reviews

 

Lurie-Weinberger, M. N., and Gophna, U. (2015) Archaea in and on the human body - health implications and future directions PLoS Pathogens. 11;11(6):e1004833.

 

Konikoff, T, and Gophna, U. Oscillospira: a Central, Enigmatic Component of the Human Gut Microbiota (2016). Trends in Microbiology 24(7):523-4.

 

Gophna, U.,  Allers, T., and Marchfelder, A. (2017) Finally, Archaea Get Their CRISPR-Cas Toolbox‏ Trends in Microbiology 25(6):430-432.