*undergraduate researcher


Paul Carini. (2019) “A ‘cultural’ renaissance: Genomics breathes new life into an old craft.” mSystems. DOI: 10.1128/mSystems.00092-19


Becker K.W., J.R. Collins, B.P. Durham, R.D. Groussman, A.E. White, H.F. Fredricks, J.E. Ossolinsi, D.J. repeta, P. Carini, E.V. Armbrust, and B.A.S. Van Mooy. (2018) “Daily changes in phytoplankton lipidomes reveal mechanisms of energy storage in the open ocean.” Nature Communications.

Paul Carini, M. Delgado-Baquerizo, E.S. Hinckley, T.E. Brewer, G. Rue, C. Vanderburgh, D. McKnight, and N. Fierer. (2018). “Unraveling the effects of spatial variability and relic DNA on the temporal dynamics of soil microbial communities.” BioRxiv.doi:

Paul Carini, C. Dupont and A.E. Santoro. (2018). “Patterns of thaumarchaeal gene expression in culture and diverse marine environments.” Environmental Microbiology. bioRxiv preprint.


Paul Carini, P.J. Marsden*, J.W. Leff, E.E. Morgan, M.S. Strickland, and N. Fierer. (2016). “Relic DNA is abundant in soil and obscures estimates of microbial diversity” Nature Microbiology. doi:10.1038/nmicrobiol.2016.242. bioRxiv preprint. Behind the paper.

T. Brewer, K. Handley, P. Carini, J. Gibert and N. Fierer. (2016). “Genome reduction in an abundant and ubiquitous soil bacterium ‘Candidatus Udaeobacter copiosus’” Nature Microbiology. doi:10.1038/nmicrobiol.2016.198. bioRxiv preprint.

D.P. Smith, C.D. Nicora, P. Carini, M.S. Lipton, A.D. Norbeck, R.D. Smith, S.J. Giovannoni. (2016). “Proteome Remodeling in Response to Sulfur Limitation in ‘Candidatus Pelagibacter ubique” mSystems. doi:10.1128/mSystems.00068-16

Paul Carini. (2016). “Microbial oxidation of DMS to DMSO: a biochemical surprise with geochemical implications” Environmental Microbiology. doi:10.1111/1462-2920.13317


Paul Carini, B.A.S. Van Mooy, J.C. Thrash, A.E. White, Y. Zhao, E.O. Campbell*, H.F. Fredricks and S.J. Giovannoni. (2015). “SAR11 lipid renovation in response to phosphate starvation.” Proc. Natl. Acad. Sci. doi:10.1073/pnas.1505034112

Orsi, W.D., J.M. Smith, H.M. Wilcox, J.E. Swalwell, P. Carini, A.Z. Worden, and A.E. Santoro. (2015). “Ecophysiology of uncultivated marine euryarchaea is linked to particulate organic matter.” ISME J. doi: 10.1038/ismej.2014.260

Santoro, A.E., C.L. Dupont, R.A. Richter, M.T. Craig, P. Carini, M.R. McIlvin, Y. Yang, W. Orsi, D. Moran and M.A. Saito. (2015). “Genomic and proteomic characterization of ‘Candidatus Nitrosopelagicus brevis’: an ammonia-oxidizing archaeon from the open ocean” Proc. Natl. Acad. Sci. doi:10.1073/pnas.1416223112.


Paul Carini†, Angelicque E. White†, Emily O. Campbell*, and Stephen J. Giovannoni. (2014). “Methane production by phosphate starved SAR11 chemoheterotrophic marine bacteria” Nature Communications. doi:10.1038/ncomms5346. †Authors contributed equally to this work. 

Paul Carini, Emily O. Campbell*, Jeff Morré, Sergio A. Sañudo-Wilhelmy, J. Cameron Thrash, Samuel E. Bennett, Ben Temperton, Tadhg Begley and Stephen J. Giovannoni. (2014). “Discovery of a SAR11 growth requirement for thiamin’s pyrimidine  precursor and its distribution in the Sargasso Sea.” ISME J. doi:10.1038/ismej.2014.61  


Smith, D.P., J.C. Thrash, C.D. Nicora, M.S. Lipton, K.E. Burnum-Johnson, P. Carini, R.D. Smith, S.J. Giovannoni. (2013). “Proteomic and Transcriptomic Analyses of “Candidatus Pelagibacter ubique” Describe the First PII-Independent Response to Nitrogen Limitation in a Free-Living Alphaproteobacterium.” mBio 4(6). doi: 10.1128/mBio.00133-12

Paul Carini, L. Steindler, S. Beszteri and S. J. Giovannoni. (2013) “Nutrient requirements for growth of the extreme oligotroph ‘Candidatus Pelagibacter ubique’ HTCC1062 on a defined medium.” ISME J. vol. 7 pp. 592-602.


Grote J, Thrash JC, Huggett MJ, Landry ZC, P. Carini, Giovannoni SJ, et al. (2012). “Streamlining and Core Genome Conservation among Highly Divergent Members of the SAR11 Clade.” mBio 3(5). doi:10.1128/mBio.00252-12.


Thrash, J.C., A. Boyd, M. Huggett, J. Grote, P. Carini, R. J. Yoder, B. Robbertse, J. W. Spatafora, M. S. Rappé and S. J. Giovannoni.  (2011)  “Phylogenomic Evidence for a Common Ancestor of Mitochondria and the SAR11 Clade.”  Sci. Rep. (2011) vol. 1, Article 13.


Kratzer, C., P. Carini, R. Hovey and U. Deppenmeier. “Transcriptional Profiling of Methyltransferase Genes during Growth of Methanosarcina mazei on Trimethylamine.” (2009) Journal of Bacteriology. vol. 191 (16) pp. 5108-5115.