Google Scholar Publication List

Recent Publications

2024

Hamilton, M., Ferrer-Gonzalez, F. X., Moran, M. A. Heterotrophic bacteria trigger transcriptome remodelling in the photosynthetic picoeukaryote Micromonas commoda. Environmental Microbiology Reports. 16, 3 (2024). https://doi.org/10.1111/1758-2229.13285

Veseli, I., DeMers, M. A., Cooper, Z. S. et al. Digital Microbe: a genome-informed data integration framework for team science on emerging model organisms. Scientific Data. 11, 967 (2024). https://doi.org/10.1038/s41597-024-03778-z

2023

Schroer, W.F., Kepner, H.E., Uchimiya, M. et al. Functional annotation and importance of marine bacterial transporters of plankton exometabolites. ISME Communications. 3, 37 (2023). https://doi.org/10.1038/s43705-023-00244-6

Jeremy Schreier, Christa B. Smith, Thomas R. Ioerger, and Mary Ann Moran. A mutant fitness assay identifies bacterial interactions in a model ocean hot spot. Proceedings of the National Academy of Sciences. https://www.pnas.org/doi/10.1073/pnas.2217200120

Brent Nowinski, Xiaoyuan Feng, Christina M. Preston, James M. Birch, Haiwei Luo, William B. Whitman and Mary Ann Moran. Ecological divergence of syntopic marine bacterial species is shaped by gene content and expression. The ISME Journal. https://www.nature.com/articles/s41396-023-01390-4

Ferrer-González, F. X., M. Hamilton, C.B. Smith, J.E. Schreier, M. Olofsson, and M.A. Moran. Bacterial transcriptional response to labile exometabolites from photosynthetic picoeukaryote Micromonas commoda. ISME Communications. https://www.nature.com/articles/s43705-023-00212-0

2022

Moran, M. A., E. B. Kujawinski, W. F. Schroer, S. A. Amin, N. R. Bates, E. M. Bertrand, R. Braakman, C. T. Brown, M. W. Covert, S. C. Doney, S. T. Dyhrman, A. S. Edison, A. M. Eren, N. M. Levine, L. Li, A. C. Ross, M. A. Saito, A. E. Santoro, D. Segré, A. Shade, M. B. Sullivan, and A. Vardi. Microbial metabolies in the marine carbon cycle. Nature Microbiology. https://rdcu.be/cKnTP

Moran, M. A., F. X. Ferrer-González, H. Fu, B. Nowinski, M. Olofsson, M. A. Powers, J. E. Schreier, W. F. Schroer, C. B. Smith, and M. Uchimiya. 2022. The ocean’s labile DOC supply chain. Limnology and Oceanography. In press.https://doi.org/10.1002/lno.12053

Olofsson, M., F. X. Ferrer-González, M. Uchimiya, J. E. Schreier, N. R. Holderman, C. B. Smith, A. S. Edison, and M. A. Moran. Growth-stage related shifts in diatom endometabolome composition set the stage for bacterial heterotrophy. 2022. ISME Communications 2:28. https://doi.org/10.1038/s43705-022-00116-5

2021

Uchimiya, M., W. Schroer, M. Olofsson, A. S. Edison, and M. A. Moran. 2021. Diel investments in metabolite production and consumption in a model microbial system. The ISME Journal. In press.https://doi.org/10.1038/s41396-021-01172-w

Ferrer-González, F. X.,  B. Widner, N. R. Holderman, J. Glushka, A. S. Edison, E. B. Kujawinski, and  M. A. Moran. 2020. Resource partitioning of phytoplankton metabolites that support bacterial heterotrophy. ISME Journal 15:762-773. https://doi.org/10.1038/s41396-020-00811-y

Damashek, J., A. O. Okotie-Oyekan, S. M. Gifford, A. Vorobev, M. A. Moran, and J. T. Hollibaugh. 2021. Transcriptional activity differentiates families of Marine Group II Euryarchaeota in the coastal ocean. ISME Communications 1: 5. https://doi.org/10.1038/s43705-021-00002-6

Nowinski, B. and M. A. Moran. 2021. Niche dimensions of a marine bacterium are identified using invasion studies in coastal seawater. Nature Microbiology 6:524-532. https://doi.org/10.1038/s41564-020-00851-2

Martinez-Varela, A., E. Cerro-Gálvez, A. Auladell, S. Sharma, M. A. Moran, R. P. Kiene, B. Piña, J. Dachs, and M. Vila-Costa. 2021. Bacterial responses to background organic pollutants in the northeast subarctic Pacific Ocean. Environ Microbiol 23:4532-4546. https://doi.org/10.1111/1462-2920.15646

Widner, B.,  M. C. Kido Soule, F. X. Ferrer-González, M. A. Moran, and E. B. Kujawinski. 2021. Quantification of amine- and alcohol-containing metabolites in saline samples using pre-extraction benzoyl chloride derivatization and Ultrahigh Performance Liquid Chromatography Tandem Mass Spectrometry (UHPLC MS/MS). Analytical Chemistry 93:4809-4817. https://doi.org/10.1021/acs.analchem.0c03769

2020

Nayfach, S., S. Roux, R. Seshadri, D. Udwary, N. Varghese, F. Schulz, et al. 2020. A genomic catalog of Earth’s microbiomes. Nature Biotechnology https://doi.org/10.1038/s41587-020-0718-6

Fu, H., M. Uchimiya, J. Gore, and M. A. Moran. 2020. Ecological drivers of bacterial community assembly in synthetic phycospheres. Proceedings of the National Academy of Sciences 117:3656-3662. https://doi.org/10.1073/pnas.1917265117

Fu, H., C. B. Smith, S. Sharma, and M. A. Moran. 2020. Genome sequences and metagenome-assembled genome sequences of microbial communities enriched on phytoplankton exometabolites. Microbiology Resource Announcements 9:e00724-20. https://doi.org/10.1128/MRA.00724-20

2019

Kiene, R. P., B. Nowinski, K. Esson, C. Preston, R. Marin III., J. Birch, C. Scholin, J. Ryan, and M. A. Moran. 2019.  Unprecedented DMSP concentrations in a massive dinoflagellate bloom in Monterey Bay, CA. Geophysical Research Letters 46: 12279-12288. https://doi.org/10.1029/2019GL085496

Damashek, J., C. F. Edwardson, B. B. Tolar, S. M. Gifford, M. A. Moran, and J. T. Hollibaugh. 2019. Coastal ocean metagenomes and curated metagenome-assembled genomes (MAGs) from Marsh Landing, Sapelo Island (Georgia, USA). Microbiology Resource Announcements 8: e000934-19. https://doi.org/10.1128/MRA.00934-19

Moran, M. A.and B. P. Durham. 2019. Sulfur metabolites in the pelagic ocean. Nature Reviews Microbiology 17: 665–678. https://doi.org/10.1038/s41579-019-0250-1

Nowinski, B., C. B. Smith, C. M. Thomas, K. Esson, R. Marin III, C. M. Preston, J. M. Birch, C. A. Scholin, M. Huntemann, A. Clum, B. Foster, B. Foster, S. Roux, K. Palaniappan, N. Varghese, S. Mukherjee, T.B.K. Reddy, C. Daum, A. Copeland, I.-M. A. Chen, N. N. Ivanova, N. C. Kyrpides, T. Glavina del Rio, W. B. Whitman, R. P. Kiene, E. A. Eloe-Fadrosh, and M. A. Moran. 2019. Data Descriptor: Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom. Scientific Data 6: 129. https://doi.org/10.1038/s41597-019-0132-4

Baltar, F., B. Bayer, N. Bednarsek, S. Deppeler, R. Escribano, C. Gonzalez R. Hansman, R. K. Mishra, M. A. Moran, D. Repeta, C. Rominson, E. Sintes, C. Tamburini, L. Valentin, and G. Herndl. 2019. Integrating evolution, metabolism and climate change studies of marine ecosystems. Trends in Ecology and Evolution, 34: 1022–1033. https://doi.org/10.1016/j.tree.2019.07.003

Landa, M., A. S. Burns, B. P. Durham, K. Esson, B. Nowinski, S. Sharma, A. Vorobev, T. Nielsen, R. P. Kiene, and M. A. Moran. 2019. Sulfur metabolites that facilitate oceanic phytoplankton-bacteria carbon flux. ISME Journal 13: 2536–2550. https://doi.org/10.1038/s41396-019-0455-3

Cavicchioli, R., K. Timmis, W. Ripple, F. Azam, L. Bakken, M. Baylis, M.Behrenfeld, A. Boetius, P. Boyd, A. Classen, T. Crowther, R. Danovaro, C. Foreman, J. Huisman, D. Hutchins, J. Jansson, D. Karl, B. Koskella, J. Martiny, M. A. Moran, V. Orphan, D. Reay, J. Remais, V. Rich, B. Singh, L. Stein, F. Stewart, M. Sullivan, M. van Oppen, S. Weaver, E. Webb, N. Webster, and D. M. Welch. 2019. Scientists’ Warning to Humanity: microorganisms and climate change. Nature Reviews Microbiology, 17: 569–586. https://doi.org/10.1038/s41579-019-0222-5

Nowinski, B., J. Motard-Côté, M. Landa, C. M. Preston, C. A. Scholin, J. M. Birch, R. P. Kiene, and M. A. Moran. 2019. Microdiversity and temporal dynamics of marine bacterial dimethylsulfoniopropionate genes. Environmental Microbiology 12:1687-1701. https://doi.org/10.1111/1462-2920.14560

2018

Wilmoth, J. L., M. A. Moran, and A. Thompson. 2018. Transient O₂ pulses direct Fe crystallinity and Fe(II)-reducer gene expression with a soil microbiome. Microbiome 6:189. https://doi.org/10.1186/s40168-018-0574-5

Vorobev, A., S. Sharma, M. Yu, J. Lee, B. J. Washington, W. B. Whitman^., F. Ballantyne IV, P. M. Medeiros, and M. A. Moran. 2018. Identifying labile DOM components in a coastal ocean through depleted bacterial transcripts and chemical signals. Environmental Microbiology 20:3021-3030. https://doi.org/10.1111/1462-2920.14344

Gómez-Consarnau, L., R. Sachdeva, S. M. Gifford, L. S. Cutter, J. Fuhrman, S. A. Sañudo-Wilhelmy, M. A. Moran. 2018.Mosaic patterns of B-vitamin synthesis and utilization in a natural marine microbial community. Environmental Microbiology 20:2809-2823. https://doi.org/10.1111/1462-2920.14133

2017

Coles, V. J., M. R. Stukel, M. T. Brooks, A. Burd, B. C. Crump, M. A. Moran, J. H. Paul, B. M. Satinsky, P. L. Yager, B. L. Zielinski, and R. R. Hood. 2017. Ocean biogeochemistry modeled with emergent trait-based genomics.Science 358:1149-1154. https://www.science.org/doi/full/10.1126/science.aan5712

Landa, M., A. S. Burns, S. J. Roth, and M. A. Moran.2017. Bacterial transcriptome remodeling during sequential co-culture with a marine dinoflagellate and diatom. ISME Journal 11:2677-2690. https://doi.org/10.1038/ismej.2017.117

Durham, B. P., S. P. Dearth, S. Sharma, S. A. Amin, C. B. Smith, S. R. Campagna, E. V. Armbrust, and M. A. Moran. 2017. Recognition cascade and metabolite transfer in a marine bacteria-phytoplankton model system. Environmental Microbiology19:3500-3513. https://doi.org/10.1111/1462-2920.13834

Doherty, M., P. L. Yager, M. A. Moran, V. J. Coles, C. S. Fortunato, A. V. Krusche, P. M. Medeiros, J. P. Payet, J. E. Richey, B. M. Satinsky, H. O. Sawakuchi, N. D. Ward, B. C. Crump. 2017. Bacterial biogeography across the Amazon river-ocean continuum. Frontiers in Microbiology8:882. https://doi.org/10.3389/fmicb.2017.00882

Sun, Y., K. E. Powell, W. Sung, M. Lynch, M. A. Moran, and H. Luo. 2017. Spontaneous mutations of a model heterotrophic marine bacterium. ISME Journal11:1713-1718. https://doi.org/10.1038/ismej.2017.20

Satinsky, B. M., C. B. Smith, S. Sharma, M. Landa, P. M. Medeiros, V. J. Coles, P. L. Yager, B. C. Crump, and M. A. Moran. 2017. Expression patterns of elemental cycling genes in the Amazon River plume. ISME Journal11:1852-1864. https://doi.org/10.1038/ismej.2017.46

Medeiros, P. M, M. Seidel, S. M Gifford, F. Ballantyne, T. Dittmar, W. B Whitman, and M. A. Moran. 2017. Microbially-mediated transformations of estuarine dissolved organic matter. Frontiers in Marine Science 4:69. https://doi.org/10.3389/fmars.2017.00069

2016

Moran, M. A., E. B. Kujawinski, A. Stubbins, R. Fatland, L. I. Aluwihare, A. Buchan, B. C. Crump, P. C. Dorrestein, S. T. Dyhrman, N. J. Hess, B. Howe, K. Longnecker, P. M. Medeiros, J. Niggemann, I. Obernosterer, D. J. Repeta, J. R. Waldbauer. 2016. Deciphering ocean carbon in a changing world. Proceedings of the National Academy of Sciences113:3143–3151. https://doi.org/10.1073/pnas.1514645113

Rivers, A. R., A. S. Burns, L.-K. Chan, and M. A. Moran. 2016. Experimental identification of small non-coding RNAs in the model marine bacterium Ruegeria pomeroyiDSS-3. Frontiers in Microbiology7:380. https://doi.org/10.3389/fmicb.2016.00380

Luo, H., Y. Sun, J. T. Hollibaugh, and M. A. Moran.2016. Low genome content diversity of marine planktonic Thaumarchaeota. Environmental Microbiology8: 501–507. https://doi.org/10.1111/1758-2229.12417

Burns, A.S., H. A. Bullock, C. B. Smith, Q. Huang, W. B. Whitman, and M. A. Moran. 2016. sRNAs expressed during DMSP degradation by a model marine bacterium. Environmental Microbiology Reports 8: 763–773. https://doi.org/10.1111/1758-2229.12437

Bendall, M. L., S. L. R. Stevens, L.-K. Chan, S. Malfatti, P. Schwientek, J. Tremblay, W. Schackwitz, J. Martin, A. Pati, B. Bushnell, J. Froula, D. Kang, S. Tringe, S. Bertilsson, A. Moran, M. A. Shade, R. Newton, K. D. McMahon and R. R. Malmstrom. 2016. Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations. ISME Journal10:1589–1601. https://doi.org/10.1038/ismej.2015.241

2015

Moran, M. A. 2015. The global ocean microbiome. Science350: aac845. https://www.science.org/doi/full/10.1126/science.aac8455

Durham, B. P., S. Sharma, H. Luo, C. B. Smith, S. A. Amin, S. J. Bender, S. P. Dearth, B. A. S. Van Mooy, S. R. Campagna, E. B. Kujawinski, E. V. Armbrust, and M. A. Moran. 2015. Cryptic carbon and sulfur cycling between surface ocean plankton. Proceedings of the National Academy of Sciences112: 453–457. https://doi.org/10.1073/pnas.1413137112

Luo, H. and M. A. Moran. 2015. How do divergent ecological strategies emerge among marine bacterioplankton lineages? Trends in Microbiology 23: 577–584. https://doi.org/10.1016/j.tim.2015.05.004

Satinsky, B. M., C. S. Fortunato, M. Doherty, C. B. Smith, S. Sharma, N. D. Ward, A. V. Krusche, P. L. Yager, J. E. Richey, M. A. Moran, and B. C. Crump. 2015. Metagenomic and metatranscriptomic inventories of the lower Amazon River, May 2011. Microbiome3:39. https://doi.org/10.1186/s40168-015-0099-0

Alivisatos, A. P., M. J. Blaser, E. L. Brodie, M. Chun, J. L. Dangl, T. J. Donohue, P. C. Dorrestein, J. A Gilbert, J. L. Green, J. K. Jansson, R. Knight, M. E. Maxon, M. J. McFall-Ngai, J. F. Miller, K. S. Pollard, E. G. Ruby, S. A. Taha and the Unified Microbiome Initiative Consortium. 2015. A unified initiative to harness Earth’s microbiomes: Transition from description to causality and engineering. Science350:507-508. https://www.science.org/doi/full/10.1126/science.aac8480

Amin, S. A., L. R. Hmelo, H. M. van Tol, B. P. Durham, L. T. Carlson, K. R. Heal, R. L. Morales, C. T. Berthiaume, M. S. Parker, B. Djunaedi, A. E. Ingalls, M. R. Parsek, M. A. Moran, and E. V. Armbrust. 2015. Interaction and signaling between a cosmopolitan phytoplankton and associated bacteria. Nature522: 98–101. https://doi.org/10.1038/nature14488

Beier, S., A. Rivers, M. A. Moran, and I. Obernosterer. 2015. Phenotypic plasticity in heterotrophic marine microbial communities in continuous cultures. ISME Journal9:1141-1151. https://doi.org/10.1038/ismej.2014.206

Varaljay, V. A., J. Robidart, C. M. Preston, S. M. Gifford, B. P. Durham, A. S. Burns, J. P. Ryan, R. Marin, R. P. Kiene, J. P. Zehr, C. A. Scholin, and M. A. Moran. 2015. Single-taxon field measurements of bacterial gene regulation controlling DMSP fate. ISME Journal9:1677-1686. https://doi.org/10.1038/ismej.2015.23

Chernyh, N. A., A. V. Mardanov, V. M. Gumerov, M. L. Miroshnichenko, A. V. Lebedinsky, A. Y. Merkel, D. Crowe, V. Pimenov, I. I. Rusanov, N. V. Ravin, M. A. Moran, and E. A. Bonch‐Osmolovskaya. 2015. Microbial life in Bourlyashchy, the hottest thermal pool of Uzon Caldera, Kamchatka. Extremophiles19: 1157-1171. https://doi.org/10.1007/s00792-015-0787-5

Medeiros, P. M., M. Seidel, T. Dittmar, W. B. Whitman, and M. A. Moran. 2015. Drought-induced variability in dissolved organic matter composition in a marsh-dominated estuary. Geophysical Research Letters42:6446–6453. https://doi.org/10.1002/2015GL064653