Microbiome Bioinformatics
- Microbiome Bioinformatics
- Microbiome Bioinformatics
Dr. Itai Sharon
Mining marine metagenomes revealed a quorum-quenching lactonase with improved biochemical properties that inhibits the food spoilage bacteria Pseudomonas fluorescens
Haramati, R., Dor, S., Gurevich, D., Levy, D., Freund, D., Rytwo, G., Sharon, I., Afriat-Jurnou, L.
2021
Post-antibiotic gut mucosal microbiome reconstitution is impaired by probiotics and improved by autologous FMT
Suez, J., Zmora, N., Zilberman-Schapira, G., Mor, U., Dori-Bachash, M., Bashiardes, S., Zur, M., Regev-Lehavi, D., Ben-Zeev Brik, R., Federici, S., Horn, M., Cohen, Y., Moor, A.E., Zeevi, D., Korem, T., Kotler, E., Harmelin, A., Itzkovitz, S., Maharshak, N., Shibolet, O., Pevsner-Fischer, M., Shapiro, H., Sharon, I., Halpern, Z., Segal, S. and Elinav, E.
2018
Personalized gut mucosal colonization resistance to empiric probiotics is associated with unique host and microbiome features
Zmora, N., Zilberman-Schapira, G., Suez, J., Mor, U., Dori-Bachash, M., Bashiardes, S., Kotler, E., Zur, M., Regev-Lehavi, D., Ben-Zeev Brik, R., Federici, S., Cohen, Y., Linevsky, R., Rothschild, D., Moor, A.E., Ben-Moshe, S., Harmelin, A., Itzkovitz, S., Maharshak, N., Shibolet, O., Shapiro, H., Pevsner-Fischer, M., Sharon, I., Halpern, Z., Segal, E. and Elinav, E.
2018
RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria.
Wrighton, K.C., Castelle, C.J., Varaljay, V.A., Satagopan, S., Brown, C.T., Wilkins, M.J., Thomas, B.C., Sharon, I., Williams, K.H., Tabita, F.R., Banfield, J.F.
ISME J. 2016
2016
Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages.
Hug, L.A., Thomas, B.C., Sharon, I., Brown, C.T., Sharma, R., Hettich, R.L., Wilkins, M.J., Williams, K.H., Singh, A., Banfield, J.F.
Environ Microbiol. 2016 Volume 18 Issue 1 Pages 159-173
2016
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
Anantharaman, K., Brown, C.T., Hug, L.A., Sharon, I., Castelle, C.J., Probst, A.J., Thomas, B.C., Singh, A., Wilkins, M.J., Karaoz, U., Brodie, E.L., Williams, K.H., Hubbard, S.S., Banfield, J.F.
Nat Commun 2016 Issue 13219 (2016)
2016
Evidence for persistent and shared bacterial strains against a background of largely unique gut colonization in hospitalized premature infants.
Raveh-Sadka, T., Firek, B., Sharon, I., Baker, R., Brown, C.T., Thomas, B.C., Morowitz, M.J., Banfield, J.F.
ISME J. 2016
2016
Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO2 concentrations.
Probst, A.J., Castelle, C.J., Singh, A., Brown, C.T., Anantharaman, K., Sharon, I., Hug, L.A., Burstein, D., Emerson, J.B., Thomas, B.C., Banfield, J.F.
Eviron Microbiol. 2016
2016
Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems.
Burstein, D., Sun, C.L., Brown, C.T., Sharon, I., Anantharaman, K., Probst, A.J., Thomas, B.C., Banfield, J.F.
Nat Commun, 2016
2016
Gut bacteria are rarely shared by cohospitalized premature infants, regardless of necrotizing enterocolitis development
Raveh-Sadka, T., Thomas, B.C., Singh, A., Firek, B., Brooks, B., Castelle, C.J., Sharon, I., Baker, R., Good, M., Morowitz, M.J., Banfield, J.F.
eLife 2015 Volume 4 Pages e05477
2015
Unusual biology across a group comprising more than 15% of domain Bacteria
Brown, C.T., Hug, L.A., Thomas, B.C., Sharon, I., Castelle, C.J., Singh, A., Wilkins, M.J., Wrighton, K.C., Williams, K.H. and Banfield, J.F.
Nature 2015
2015
Accurate, multi-kb reads resolve complex populations and detect rare microorganisms
Sharon, I., Kertesz, M., Hug, L.A., Pushkarev, D., Blauwkamp, T.A., Castelle, C.J., Amirebrahimi, M., Thomas, B.C., Burstein, D., Tringe, S.G., Williams, K.H., Banfield, J.F.
Genome Res 2015 Volume 25 Pages 534-543
2015
CRISPR immunity drives rapid phage genome evolution.
Paez-Espino, D., Sharon, I., Morovic, W., Stahl, B., Thomas, B.C., Barrangou, R., Banfield, J.F.
mBio 2015 Volume 6 Issue 2 Pages e00262-15
2015
Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages
Hug, L.A., Thomas, B.C., Sharon, I., Brown, C.T., Sharma, R., Hettich, R.L., Wilkins, M.J., Williams, K.H., Singh, A., Banfield, J.F.
Environ Microbiol 2015
2015
Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer
Wrighton, K.C., Castelle, C.J., Wilkins, M.J., Hug, L.A., Sharon, I., Thomas, B.C., Handley, K.M., Mullin, S.W., Nicora, C.D., Singh, A., Lipton, M.S., Long, P.E., Williams, K.H., Banfield, J.F.
ISME J 2014 Volume 8 Issue 7 Pages 1452-1463
2014
Microbes in the neonatal intensive care unit resemble those found in the gut of premature infants
Brooks, B., Firek, B.A., Miller, C.S., Sharon, I., Thomas, B.C., Baker, R., Morowitz, M.J., Banfield, J.F.
Microbiome 2014 Volume 2 Issue 1
2014
Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling
Hug, L.A., Castelle, C.J., Wrighton, K.C., Thomas, B.C., Sharon, I., Frischkorn, K.R., Williams, K.H., Tringe, S.G., Banfield, J.F
Microbiome 2013 Volume 1 Issue 22
2013
Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization
Sharon, I., Morowitz, M.J., Thomas, B.C., Costello, E.K., Relman, D.A., Banfield, J.F
Genome Res 2013 Volume 23 Issue 1 Pages 111-120
2013
Genome resolved analysis of a premature infant gut microbial community reveals a Varibaculum cambriense genome and a shift towards fermentation-based metabolism during the third week of life
Brown, C.T., Sharon, I., Thomas, B.C., Castelle, C.J., Morowitz, M.J., Banfield, J.F.
Microbiome 2013 Volume 1 Issue 30
2013
Perspective: Genomes from metagenomics
Sharon, I., Banfield, J.F.
Science 2013 Volume 342 Issue 6162 Pages 1057-1058
2013
Small genomes and sparse metabolisms of sediment-associated bacteria from four candidate phyla
Kantor, R.S., Wrighton, K.C., Handley, K.M., Sharon, I., Hug, L.A., Castelle, C.J., Thomas, B.C., Banfield, J.F
mBio 2013 Volume 4 Issue 5 Pages e00708-13
2013
The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria
Di Rienzi, S.C.*, Sharon, I.*, Wrighton, K.C., Koren, O., Hug, L.A., Thomas, B.C., Goodrich, J.K., Bell, J.T., Spector, T.D., Banfield, J.F., Ley, R.E.
eLife 2013 Volume 2 Pages e01102
2013
Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community
Handley, K.M., VerBerkmoes, N.C., Steefel, C.I., Williams, K.H., Sharon, I., Miller, C.S., Frischkorn, K.R., Chourey, K., Thomas, B.C., Shah, M.B., Long, P.E., Hettich, R.L., Banfield, J.F
ISME J 2012 Volume 7 Issue 4 Pages 800-816
2012
Fermentation, Hydrogen and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
Wrighton, K.C., Thomas, B.C., Sharon, I., Miller, C.S., Castelle, C.J., VerBerkmoes, N.C., Wilkins, M.J., Hettich, R.J., Lipton, M.S., Williams, K.H., Long, P.E., Banfield, J.F
Science 2012 Volume 337 Issue 6102 Pages 1661-1665
2012
Genomic island variability facilitates Prochlorococcus-virus coexistence
Avrani, S., Wurtzel, O., Sharon, I., Sorek, R., Lindell, D
Nature 2011 Volume 474 Pages 604-608
2011