Publications

2024

Selden, C. R., Schilling, K., Godfrey, L., & Yee, N. (2024). Metal-binding amino acid ligands commonly found in metalloproteins differentially fractionate copper isotopes. Scientific reports, 14(1), 1902. DOI: 10.1038/s41598-024-52091-7

Sánchez, I. E., Galpern, E. A., & Ferreiro, D. U. (2024). Solvent constraints for biopolymer folding and evolution in extraterrestrial environments. Proceedings of the National Academy of Sciences, 121(21), e2318905121. DOI:  10.1073/pnas.2318905121

Bermanec, M., Vidović, N., Gavryliv, L., Morrison, S. M., & Hazen, R. M. (2024). Evolution of symmetry index in minerals. Geoscience Data Journal, 11(1), 69-85. DOI: 10.1002/gdj3.177

Moore, E. K., Li, J., Zhang, A., Hao, J., Morrison, S. M., Hummer, D. R., & Yee, N. (2024). Uranium redox and deposition transitions embedded in deep‐time geochemical models and mineral chemistry networks. Geochemistry, Geophysics, Geosystems, 25(2), e2023GC011267. DOI: 10.1029/2023GC011267

2023

Bermanec, M., Eleish, A. M., Morrison, S. M., Prabhu, A., Wong, M. L., & Hazen, R. M. (2023). The Evolution of Mineral Hardness Reveals Both Changing Parageneses and Preservational Bias in the Mineralogical Record. Minerals, 13(8), 1089. DOI:10.3390/min13081089

Hazen, R. M., Downs, R. T., Morrison, S. M., Tutolo, B. M., Blake, D. F., Bristow, T. F., … & Vaniman, D. T. (2023). On the diversity and formation modes of martian minerals. Journal of Geophysical Research: Planets, 128(9), e2023JE007865. DOI:10.1029/2023JE007865

Chiama, K., Gabor, M., Lupini, I., Rutledge, R., Nord, J. A., Zhang, S., … & Hazen, R. M. (2023). The secret life of garnets: A comprehensive, standardized dataset of garnet geochemical analyses integrating localities and petrogenesis. Earth System Science Data Discussions, 2023, 1-42. DOI:10.5194/essd-15-4235-2023

Wong, M. L., & Prabhu, A. (2023). Cells as the first data scientists. Journal of the Royal Society Interface, 20(199), 20220810. DOI:10.1098/rsif.2022.0810

Wong, M. L., Prabhu, A., Williams, J., Morrison, S. M., & Hazen, R. M. (2023). Toward Network‐Based Planetary Biosignatures: Atmospheric Chemistry as Unipartite, Unweighted, Undirected Networks. Journal of Geophysical Research: Planets, 128(6), e2022JE007658. DOI: 10.1029/2022JE007658

Cleaves, H. J., Hystad, G., Prabhu, A., Wong, M. L., Cody, G. D., Economon, S., & Hazen, R. M. (2023). A robust, agnostic molecular biosignature based on machine learning. Proceedings of the National Academy of Sciences, 120(41), e2307149120. DOI: 10.1073/pnas.230714912

Wong, M. L., Cleland, C. E., Arend Jr, D., Bartlett, S., Cleaves, H. J., Demarest, H., Prabhu, A., Lunine, J., & Hazen, R. M. (2023). On the roles of function and selection in evolving systems. Proceedings of the National Academy of Sciences, 120(43), e2310223120. DOI: 10.1073/pnas.23102231

McGuinness, K. N., Fehon, N., Feehan, R., Miller, M., Mutter, A. C., Rybak, L. A., … & Nanda, V. (2023).  The energetics and evolution of oxidoreductases in deep time. Proteins: Structure, Function, and Bioinformatics. 2023:1-8. DOI:10.1002/prot.26563

Ramakrishnan, P., & Bromberg, Y. (2023). Functional profiling of the sequence stockpile: a review and assessment of in silico prediction tools. bioRxiv. DOI:  10.1101/2023.07.12.548726

Morrison, S. M., Prabhu, A., Eleish, A., Hazen, R. M., Golden, J. J., Downs, R. T., … & Fox, P. (2023). Predicting new mineral occurrences and planetary analog environments via mineral association analysis. PNAS nexus, 2(5), pgad110. DOI: 10.1093/pnasnexus/pgad110

Moore, E. K., Ostroverkhova, A., Hummer, D., Morrison, S., Peralta, Y., & Spielman, S. J. (2023). The influence of oxygen and electronegativity on iron mineral chemistry throughout Earth’s history. Precambrian Research, 386, 106960. DOI: 10.1016/j.precamres.2022.106960

Prabhu, A., Morrison, S. M., Fox, P., Ma, X., Wong, M. L., Williams, J. R., … & Hazen, R. M. (2023). What is mineral informatics?. American Mineralogist, 108(7), 1242-1257. DOI: 10.2138/am-2022-8613

Hazen, R. M., Morrison, S. M., Prabhu, A. N., Walter, M. J., & Williams, J. R. (2023). An evolutionary system of mineralogy, Part VII: The evolution of the igneous minerals (> 2500 Ma). American Mineralogist, 108. DOI: 10.2138/am-2022-8539

Farr, O., Hao, J., Liu, W., Fehon, N., Reinfelder, J.R., & Falkowski, P.G. (2023) Archean phosphorus recycling facilitated by ultraviolet radiation. Proceedings of the National Academy of Sciences, 120 (30) e2307524120. DOI: 10.1073/pnas.2307524120

Hazen, R. M., Morrison, S. M., Prabhu, A., Williams, J. R., Wong, M. L., Krivovichev, S. V., & Bermanec, M. (2023). On the attributes of mineral paragenetic modes. Can Mineral, 61.

Prabhu, A., Morrison, S. M., & Hazen, R. M. (2023). Mineral Informatics: Origins. In Celebrating the International Year of Mineralogy: Progress and Landmark Discoveries of the Last Decades (pp. 39-68). Cham: Springer Nature Switzerland. DOI: 10.1007/978-3-031-28805-0_3 Electronic ISSN 2366-1593

Hazen, R. M., Morrison, S. M., & Prabhu, A. (2023). The evolution of mineral evolution. In Celebrating the International Year of Mineralogy: Progress and Landmark Discoveries of the Last Decades (pp. 15-37). Cham: Springer Nature Switzerland. DOI: 10.1007/978-3-031-28805-0_2 Electronic ISSN 2366-1593

Timm, J., Pike, D. H., Mancini, J. A., Tyryshkin, A. M., Poudel, S., Siess, J. A., … & Nanda, V. (2023). Design of a minimal di-nickel hydrogenase peptide. Science Advances, 9(10), eabq1990. DOI: 10.1126/sciadv.abq1990

Morrison, S. M., Prabhu, A., & Hazen, R. M. (2023). An evolutionary system of mineralogy, Part VI: Earth’s earliest Hadean crust (> 4370 Ma). American Mineralogist, 108(1), 42-58. DOI: 10.2138/am-2022-8329

2022

Hoarfrost, A., Aptekmann, A., Farfañuk, G., & Bromberg, Y. (2022). Deep learning of a bacterial and archaeal universal language of life enables transfer learning and illuminates microbial dark matter. Nature communications, 13(1), 2606. DOI: 10.1038/s41467-022-30070-8

Mahlich, Y., Zhu, C., Chung, H., Velaga, P. K., de Paolis Kaluza, M. C., Radivojac, P., Friedberg, I., & Bromberg, Y. (2022). Rethinking bacterial relationships in light of their molecular abilities. bioRxiv, 2022-11. DOI: 10.1101/2022.11.28.518265

Large, R. R., Hazen, R. M., Morrison, S. M., Gregory, D. D., Steadman, J. A., & Mukherjee, I. (2022). Evidence that the GOE was a prolonged event with a peak around 1900 Ma. Geosystems and Geoenvironment, 1(2), 100036. DOI: 10.1016/j.geogeo.2022.100036

Prabhu, A., Morrison, S. M., Fox, P., Ma, X., Wong, M. L., Williams, J., McGuinness, K.N., Krivovichev, S., Lehnert, K., Ralph, J., Lafuente, B., Downs, R.T., Walter, M.J.,  & Hazen, R. M. (2022). What is Mineral Informatics?. Authorea Preprints. DOI:  10.1002/essoar.10511201/v2

Ravindran, S., 2022. Profile of Paul G. Falkowski. Proceedings of the National Academy of Sciences, 119(31), p.e2209110119. DOI: 10.1073/pnas.2209110119

Spangler, L. C., Yao, Y., Cheng, G., Yao, N., Chari, S. L., Scholes, G. D., & Hecht, M. H. (2022). A de novo protein catalyzes the synthesis of semiconductor quantum dots. Proceedings of the National Academy of Sciences, 119(51), e2204050119. DOI: 10.1073/pnas.2204050119

Farr, O., Elzinga, E.J., Yee, N. (2022) Effect of Ni2+, Zn2+, and Co2+ on green rust transformation to magnetite. Geochemical Transactions, 23, 3 DOI: 10.1186/s12932-022-00080-y

Banuchi, V. R., Liu, W., Yee, N., Legett, C., Glotch, T. D., & Chemtob, S. M. (2022). Ultraviolet Photooxidation of Smectite‐Bound Fe (II) and Implications for the Origin of Martian Nontronites. Journal of Geophysical Research: Planets, e2021JE007150. DOI: 10.1029/2021JE007150

Hu, J., Li, J., Jiang, J., Wang, L., Roth, J., McGuinness, K. N., … & Xu, F. (2022). Design of synthetic collagens that assemble into supramolecular banded fibers as a functional biomaterial testbed. Nature communications, 13(1), 1-13. DOI: 0.1038/s41467-022-34127-6

Zhu, J., Avakyan, N., Kakkis, A., Hoffnagle, A. M., Han, K., Li, Y., … & Tezcan, F. A. (2021). Protein assembly by design. Chemical reviews, 121(22), 13701-13796. DOI: 10.1021/acs.chemrev.1c00308

Choi, T. S., & Tezcan, F. A. (2022). Design of a Flexible, Zn-Selective Protein Scaffold that Displays Anti-Irving–Williams Behavior. Journal of the American Chemical Society, 144(39), 18090-18100. DOI: 10.1021/jacs.2c08050

Rutledge, H. L., Field, M. J., Rittle, J., Green, M. T., & Tezcan, F. A. (2022). Role of Serine Coordination in the Structural and Functional Protection of the Nitrogenase P-Cluster. Journal of the American Chemical Society. DOI: 10.1021/jacs.2c09480

McGuinness, K. N., Klau, G. W., Morrison, S. M., Moore, E. K., Seipp, J., Falkowski, P. G., & Nanda, V. (2022). Evaluating Mineral Lattices as Evolutionary Proxies for Metalloprotein Evolution. Origins of Life and Evolution of Biospheres, 1-13. DOI: 10.1007/s11084-022-09630-x

Sánchez, I. E., Galpern, E. A., Garibaldi, M. M., & Ferreiro, D. U. (2022). Molecular information theory meets protein folding. The Journal of Physical Chemistry B. DOI: 10.1021/acs.jpcb.2c04532

Galpern, E. A., Marchi, J., Mora, T., Walczak, A. M., & Ferreiro, D. U. (2022). From evolution to folding of repeat proteins. PNAS 119 (31) e2204131119. DOI: 10.1073/pnas.2204131119

Sanches, M., Parra, R., Viegas, R., Oliveira, A., Wolynes, P., Ferreiro, D., & Leite, V. (2022). Resolving the fine structure in the energy landscapes of repeat proteins. QRB Discovery, 3, E7. DOI : 10.1017/qrd.2022.4

Moore, E. K., Golden, J. J., Morrison, S. M., Hao, J., & Spielman, S. J. (2022). The expanding network of mineral chemistry throughout earth history reveals global shifts in crustal chemistry during the Proterozoic. Scientific reports, 12(1), 1-9. DOI: 10.1038/s41598-022-08650-x

Moore, E. K., Martinez, D. L., Srivastava, N., Morrison, S. M., & Spielman, S. J. (2022). Mineral Element Insiders and Outliers Play Crucial Roles in Biological Evolution. Life, 12(7), 951. DOI: 10.3390/life12070951

Hao, J., Glein, C.R., Huang, F., Yee, N., Catling, D.C., Postberg, F., Hillier, J.K. & Hazen, R.M. (2022). Abundant phosphorus expected for possible life in Enceladus’s ocean. Proceedings of the National Academy of Sciences. 119(39). DOI: 10.1073/pnas.2201388119

Aptekmann, A. A., Buongiorno, J., Giovannelli, D., Glamoclija, M., Ferreiro, D. U., & Bromberg, Y. (2022) mebipred: identifying metal-binding potential in protein sequence, Bioinformatics, Volume 38, Issue 14, 15 July 2022, Pages 3532–3540, DOI: 10.1093/bioinformatics/btac358

Hao, J., Liu, W., Goff, J. L., Steadman, J. A., Large, R. R., Falkowski, P. G., & Yee, N. (2022). Anoxic photochemical weathering of pyrite on Archean continents. Science Advances8(26), eabn2226. DOI: 10.1126/sciadv.abn222

Hazen, R. M., & Morrison, S. M. (2022). On the paragenetic modes of minerals: A mineral evolution perspective. American Mineralogist, 107(7), 1262-1287. DOI: 10.2138/am-2022-8099

Hazen, R. M., Morrison, S. M., Krivovichev, S. V., & Downs, R. T. (2022). Lumping and splitting: Toward a classification of mineral natural kinds. American Mineralogist, 107(7), 1288-1301. DOI: 10.2138/am-2022-8105

Rutledge, H.L., Cook, B.D., Nguyen, H.P., Herzik, M.A., & Tezcan, A. (2022). Structures of the nitrogenase complex prepared under catalytic turnover conditions. Science. 0(0): p. eabq7641. DOI: 10.1126/science.abq7641

Rutledge, H. L., Cook, B. D., Nguyen, H. P., Herzik, M. A., & Tezcan, A. (2022). CryoEM Structures of the Nitrogenase Complex During Catalytic Turnover. bioRxiv. DOI: 10.1101/2022.06.05.494884

Mancini, J. A., Pike, D. H., Poudel, S., Timm, J., Tyryshkin, A. M., Siess, J., Molinaro, P., McCann, J.J., Waldie, K.M., Koder, R.L., Falkowski, P.G., & Nanda, V. (2022). Design of a Minimal di-Nickel Hydrogenase Peptide. bioRxiv. DOI: 10.1101/2022.04.09.487740

Choi, T. S., & Tezcan, F. A. (2022). Overcoming universal restrictions on metal selectivity by protein design. Nature, 603(7901), 522-527. DOI: 10.1038/s41586-022-04469-8

Hystad, G., Boujibar, A., Liu, N., Nittler, L. R., & Hazen, R. M. (2022). Evaluation of the classification of pre-solar silicon carbide grains using consensus clustering with resampling methods: An assessment of the confidence of grain assignments. Monthly Notices of the Royal Astronomical Society, 510(1), 334-350. DOI: 10.1093/mnras/stab3478

Krivovichev, S.V., Krivovichev, V., Hazen, R.M., Aksenov, S.M., Avdontceva, M.S., Banaru, A.M., Gorelova, L.A., Ismagilova, R.M., Kornyakov, I.V., Kuporev, I.V., Morrison, S.M, Panikorovskii, T.L., & Starova, G.L. (2022) Structural and chemical complexity of minerals: An update. Mineralogical Magazine, 22 p. DOI: 10.1180/mgm.2022.23 

Hummer, D. R., Golden, J. J., Hystad, G., Downs, R. T., Eleish, A., Liu, C., … & Hazen, R. M. (2022). Evidence for the oxidation of Earth’s crust from the evolution of manganese minerals. Nature Communications, 13(1), 1-7. DOI: 10.1038/s41467-022-28589-x

Bromberg, Y., Aptekmann, A.A., Mahlich, Y., Cook, L., Senn, S., Miller, M., Nanda, V., Ferreiro, D.U. & Falkowski, P.G. (2022). Quantifying structural relationships of metal-binding sites suggests origins of biological electron transfer. Science advances, 8(2), eabj3984. DOI: 10.1126/sciadv.abj3984

2021

Zeng, Z., Aptekmann, A. A., & Bromberg, Y. (2021). Decoding the effects of synonymous variants. Nucleic acids research, 49(22), 12673-12691. DOI: 10.1093/nar/gkab1159

Srivastava, N., Spielman, S. J., Morrison, S. M., & Moore, E. K. (2021). Geological factors impacted cadmium availability and use as an alternative cofactor for zinc in the carbon fixation pathways of marine diatoms. Journal of Geophysical Research: Biogeosciences, e2020JG005966. DOI: 10.1029/2020JG005966

Hazen, R. M. (2021). Reply to “A comment on ‘An evolutionary system of mineralogy: Proposal for a classification of planetary materials based on natural kind clustering’”. American Mineralogist: Journal of Earth and Planetary Materials, 106(1), 154-156. DOI: 10.2138/am-2021-7773

Hazen, R. M., Morrison, S. M., & Prabhu, A. (2021). An evolutionary system of mineralogy. Part III: Primary chondrule mineralogy (4566 to 4561 Ma). American Mineralogist, 106(3), 325-350. DOI: 10.2138/am-2020-7564

Morrison, S. M., & Hazen, R. M. (2021). An evolutionary system of mineralogy, Part IV: Planetesimal differentiation and impact mineralization (4566 to 4560 Ma). American Mineralogist: Journal of Earth and Planetary Materials, 106(5), 730-761. DOI: 10.2138/am-2021-7632

Hazen, R. M., & Morrison, S. M. (2021). An evolutionary system of mineralogy, Part V: Aqueous and thermal alteration of planetesimals (~ 4565 to 4550 Ma). American Mineralogist: Journal of Earth and Planetary Materials, 106(9), 1388-1419. DOI: 10.2138/am-2021-7760

Wang, C., Hazen, R. M., Cheng, Q., Stephenson, M. H., Zhou, C., Fox, P., … & Schiffries, C. M. (2021). The Deep-Time Digital Earth program: data-driven discovery in geosciences. National Science Review, 8(9), nwab027. DOI:10.1093/nsr/nwab027

Hazen, R. M., & Morrison, S. M. (2021). Mineralogical Environments of the Hadean Eon: Rare Elements Were Ubiquitous in Surface Sites of Rock-Forming Minerals. In Prebiotic Chemistry and the Origin of Life (pp. 43-61). Springer, Cham. DOI: 10.1007/978-3-030-81039-9_2

Walton, C. R., Shorttle, O., Jenner, F. E., Williams, H. M., Golden, J., Morrison, S. M., … & Pasek, M. (2021). Phosphorus mineral evolution and prebiotic chemistry: From minerals to microbes. Earth-Science Reviews, 221, 103806. DOI: 10.1016/j.earscirev.2021.103806

Murphy, A. E., Jakubek, R. S., Steele, A., Fries, M. D., & Glamoclija, M. (2021). Raman spectroscopy provides insight into carbonate rock fabric based on calcite and dolomite crystal orientation. Journal of Raman Spectroscopy, 52(6), 1155-1166. DOI: 10.1002/jrs.6097 

Liu, X. M., Kah, L. C., Knoll, A. H., Cui, H., Wang, C., Bekker, A., & Hazen, R. M. (2021). A persistently low level of atmospheric oxygen in Earth’s middle age. Nature Communications, 12(1), 1-7. DOI: 10.1038/s41467-020-20484-7

Jagilinki, B. P., Paluy, I., Tyryshkin, A.M., Nanda, V. & Noy,D. (2021). Biophysical Characterization of Iron-Sulfur Proteins, Bio-protocol , 11(20, e4202. DOI: 10.21769/BioProtoc.4202 

Jagilinki, B. P., Paluy, I., Nanda, V., & Noy, D. (2021). Anaerobic Expression and Purification of Holo-CCIS, an Artificial Iron-sulfur Protein. Bio-protocol, 11(18), e4169-e4169. DOI: 10.21769/BioProtoc.4169 

James, J. K., & Nanda, V. (2021). A folding insulator defines cryptic domains in tropomyosin. Journal of Molecular Biology, 167281. DOI: 10.1016/j.jmb.2021.167281

Boujibar, A., Howell, S., Zhang, S., Hystad, G., Prabhu, A., Liu, N., … & Nittler, L. R. (2021). Cluster analysis of presolar silicon carbide grains: evaluation of their classification and astrophysical implications. The Astrophysical Journal Letters, 907(2), L39. DOI: 10.3847/2041-8213/abd102

Freiberger, M. I., Wolynes, P. G., Ferreiro, D. U., & Fuxreiter, M. (2021). Frustration in fuzzy protein complexes leads to interaction versatility. The Journal of Physical Chemistry B. DOI: 10.1021/acs.jpcb.0c11068

Tang, M., Chu, X., Hao, J., & Shen, B. (2021). Orogenic quiescence in Earth’s middle age. Science, 371(6530), 728. DOI: 10.1126/science.abf1876

Cleland, C. E., Hazen, R. M., & Morrison, S. M. (2021). Historical natural kinds and mineralogy: Systematizing contingency in the context of necessity. Proceedings of the National Academy of Sciences, 118(1). DOI: 10.1073/pnas.2015370118

2020

Hao, J., Knoll, A. H., Huang, F., Schieber, J., Hazen, R. M., & Daniel, I. (2020). Cycling phosphorus on the Archean Earth: Part II. Phosphorus limitation on primary production in Archean ecosystems. Geochimica et Cosmochimica Acta, 280, 360-377. DOI: 10.1016/j.gca.2020.04.005

Campbell, I. J., Kahanda, D., Atkinson, J. T., Sparks, O. N., Kim, J., Tseng, C. P., … & Silberg, J. J. (2020). Recombination of 2Fe-2S ferredoxins reveals differences in the inheritance of thermostability and midpoint potential. ACS Synthetic Biology, 9(12), 3245-3253. DOI: 10.1021/acssynbio.0c00303

Boujibar, A., Zhang, S., Howell, S., Prabhu, A., Narkar, S., Hystad, G., Morrison S.M., Hazen R.M., et al. (2020). Cluster analysis and classification of presolar silicon carbide grains. in LPSC, 2070. Bibcode: 2020LPI….51.2070B

Chiama, K., Rutledge, R., Gabor, M., Lupini, I., Hazen, R. M., Zhang, S., et al. (2020). Garnet: a comprehensive, standardized, geochemical database incorporating locations and paragenesis. in Geological Society of America Abstracts with Programs DOI:10.1130/abs/2020se-344505.

Spielman, S. J., and Moore, E. K. (2020). dragon: A New Tool for Exploring Redox Evolution Preserved in the Mineral Record. Front. Earth Sci. 8. DOI:10.3389/feart.2020.585087.

Hoarfrost, A., Aptekmann, A., Farfanuk, G., & Bromberg, Y. (2020). Shedding light on microbial dark matter with a universal language of life. bioRxiv. DOI: 10.1101/2020.12.23.424215 

LaRowe, D. E., Arndt, S., Bradley, J. A., Estes, E. R., Hoarfrost, A., Lang, S. Q., Lloyd, K., Mahmoudi, N., Orsi, W., Shah Walter, S., Steen, A. & Zhao, L. (2020). The fate of organic carbon in marine sediments-New insights from recent data and analysis. Earth-Science Reviews, 204, 103146. DOI: 10.1016/j.earscirev.2020.103146

Morrison, S. M., & Hazen, R. M. (2020). An evolutionary system of mineralogy. Part II: Interstellar and solar nebula primary condensation mineralogy (> 4.565 Ga). American Mineralogist, 105(10), 1508-1535. DOI: 10.2138/am-2020-7447

Prabhu, A., Morrison, S., Eleish, A., Zhong, H., Huang, F., Golden, J., Perry, S., Hummer, D., Runyon, S., Fontaine, K., Krivovichev, S., Downs, R., Hazen, R., & Fox, P. (2020) Global Earth mineral inventory: A data legacy. Geoscience Data Journal. DOI:  10.1002/gdj3.106

Poudel, S., Pike, D. H., Raanan, H., Mancini, J. A., Nanda, V., Rickaby, R. E., & Falkowski, P. G. (2020). Biophysical analysis of the structural evolution of substrate specificity in RuBisCO. Proceedings of the National Academy of Sciences, 117(48), 30451-30457. DOI: 10.1073/pnas.2018939117

Jagilinki, B.P., Ilic, S., Trncik, C., Tyryshkin, A.M., Pike, D.H., Lubitz, W., Bill, E., Einsle, O., Birrell, J.A., Akabayov, B. & Noy, D.(2020). In Vivo Biogenesis of a De Novo Designed Iron–Sulfur Protein. ACS Synthetic Biology. DOI: 10.1021/acssynbio.0c00514

Kakkis, A., Gagnon, D., Esselborn, J., Britt, R. D., & Tezcan, F. A. (2020). Metal‐Templated Design of Chemically Switchable Protein Assemblies with High‐Affinity Coordination Sites. Angewandte Chemie. DOI: 10.1002/anie.202009226

Murphy, A. E., Wieman, S. T., Gross, J., Stern, J. C., Steele, A., & Glamoclija, M. (2020). Preservation of organic carbon in dolomitized cambrian stromatolites and implications for microbial biosignatures in diagenetically replaced carbonate rock. Sedimentary Geology, 105777. DOI: 10.1016/j.sedgeo.2020.105777

Fornaro, T., Brucato, J., Poggiali, G., Corazzi, M. A., Biczysko, M., Jaber, M., Foustoukos, D., Hazen, R.M.,   & Steele, A. (2020). UV Irradiation and Near Infrared Characterization of Laboratory Mars Soil Analog Samples: the case of Phthalic Acid, Adenosine 5’-Monophosphate, L-Glutamic Acid and L-Phenylalanine Adsorbed onto the Clay Mineral Montmorillonite in the presence of Magnesium Perchlorate. DOI: 10.20944/preprints202003.0172.v1

Hao, J., Knoll, A. H., Huang, F., Hazen, R. M., & Daniel, I. (2020). Cycling phosphorus on the Archean Earth: Part I. Continental weathering and riverine transport of phosphorus. Geochimica et Cosmochimica Acta, 273, 70-84. DOI: 10.1016/j.gca.2020.01.027

Hazen, R. M., & Morrison, S. M. (2020). An evolutionary system of mineralogy. Part I: Stellar mineralogy (> 13 to 4.6 Ga). American Mineralogist: Journal of Earth and Planetary Materials, 105(5), 627-651. DOI: 10.2138/am-2019-7173

Johnson, S. S., Graham, H. V., Des Marais, D. J., Hazen, R. M., Meadows, V., Arney, G. N., Schmidt, B.E, & Des Marais, D. J. (2020). Detecting life on Earth and the limits of analogy. Planetary Astrobiology, 121-150.  ISBN: 9780816540068

Liu, W., Hao, J., Elzinga, E. J., Piotrowiak, P., Nanda, V., Yee, N., & Falkowski, P. G. (2020). Anoxic photogeochemical oxidation of manganese carbonate yields manganese oxide. Proceedings of the National Academy of Sciences, 117(37), 22698-22704. DOI: 10.1073/pnas.2002175117

Mancini, J. A., Pike, D. H., Tyryshkin, A. M., Haramaty, L., Wang, M. S., Poudel, S., Hecht, M., & Nanda, V. (2020). Design of a Fe (4) S (4) cluster into the core of ade novofour-helix bundle. Biotechnology and Applied Biochemistry. DOI: 10.1002/bab.2003

Morrison, S. M., Buongiorno, J., Downs, R. T., Eleish, A., Fox, P., Giovannelli, D., Golden, J.J., Hummer, D.R., Hystad, G., Kellogg, L.H. & Kreylos, O. (2020). Exploring carbon mineral systems: Recent advances in C mineral evolution, mineral ecology, and network analysis. Frontiers in Earth Science, 8, 208. DOI: 10.3389/feart.2020.00208

Campbell, I.J., Olmos, J.L., Xu, W., Kahanda, D., Atkinson, J.T., Sparks, O.N., Miller, M.D., Phillips, G.N., Bennett, G.N. and Silberg, J.J., (2020). Prochlorococcus phage ferredoxin: structural characterization and electron transfer to cyanobacterial sulfite reductases. Journal of Biological Chemistry, pp.jbc-RA120. DOI: 10.1074/jbc.RA120.013501

ElAbd, H., Bromberg, Y., Hoarfrost, A. et al.(2020). Amino acid encoding for deep learning applications. BMC Bioinformatics 21, 235. DOI: 10.1186/s12859-020-03546-x

Raanan, H., Poudel, S., Pike, D. H., Nanda, V., & Falkowski, P. G. (2020). Small protein folds at the root of an ancient metabolic network. Proceedings of the National Academy of Sciences. DOI: 10.1073/pnas.1914982117

Moore, E. K., Hao, J., Spielman, S. J., & Yee, N. (2020). The evolving redox chemistry and bioavailability of vanadium in deep time. Geobiology. DOI: 10.1111/gbi.12375

2019

Marchi, J., Galpern, E. A., Espada, R., Ferreiro, D. U., Walczak, A. M., & Mora, T. (2019). Size and structure of the sequence space of repeat proteins. PLOS Computational Biology, 15(8), e1007282. DOI: 10.1371/journal.pcbi.1007282

Buongiorno, J., Fullerton, K., Rogers, T., Giovannelli, D., DeMoor, M., Barry, P., Morrison S.M., Hazen R.M et al. (2019a). Interactions between microbial communities and their geologic environment at the Costa Rica active margin. in Goldschmidt Annual Meeting.

Buongiorno, J., Herbert, L. C., Wehrmann, L. M., Michaud, A., Laufer, K., Røy, H., et al. (2019b). Complex microbial communities drive iron and sulfur cycling in Arctic fjord sediments. Appl. Environ. Microbiol., AEM.00949-19. doi:10.1128/AEM.00949-19.

Zhang, S., Morrison, S. M., Prabhu, A., Ma, C., Huang, F., Gregory, D., … & Hazen, R. (2019, December). Natural clustering of pyrite with implications for its formational environment. In AGU Fall Meeting Abstracts (Vol. 2019, pp. EP23D-2284). Bibcode: 2019AGUFMEP23D2284Z

Campbell, I. J., Bennett, G. N., & Silberg, J. J. (2019). Evolutionary relationships between low potential ferredoxin and flavodoxin electron carriers. Frontiers in Energy Research, 7, 79.DOI: 10.3389/fenrg.2019.00079

Hazen, R.M., Bromberg, Y., Downs, R.T., Eleish, A., Falkowski, P.G., Fox, P., Giovannelli, D., Hummer, D.R., Hystad, G., Golden, J.J., Knoll, A.H., Li, C., Liu, C., Moore, E.K., Morrison, S.M., Muscente, A.D., Prabhu, A., Ralph, J., Rucker, M.Y., Runyon, S.E., Warden, L.A., Zhong, H. (2019) Deep carbon through deep time: Data-driven insights. In: B. Orcutt, I. Danielle, R. Dasgupta [eds], Deep Carbon: Past to Present. Cambridge, UK: Cambridge University Press, pp.320-352. DOI: 1017/9781108677950.020

Hazen, R.M., Downs, R.T., Elesish, A., Fox, P., Gagné, O., Golden, J.J., Grew, E.S., Hummer, D.R., Hystad, G., Krivovichev, S.V., Li, C., Liu, C., ma, X., Morrison, S.M., Pan, F., Pires, A.J., Prabhu, A., Ralph, J., Runyon, S.E., & Zhong, H. (2019) Data-driven discovery in mineralogy: Recent advances in data resources, analysis, and visualization. DOI: 10.1016/j.eng.2019.03.006

Hystad, G., Eleish, A., Hazen, R. M., Morrison, S. M., & Downs, R. T. (2019). Bayesian estimation of Earth’s undiscovered mineralogical diversity using noninformative priors. Mathematical Geosciences, 51(4), 401-417. DOI: 1007/s11004-019-09795-8

Hazen, R.M. (2019) Symphony in C: Carbon and the Emergence of (Almost) Everything. New York: W.W. Norton. British edition (London: HarperCollins, 2019). ISBN: 978-0-393-60943-1

Grew, E. S., Hystad, G., Toapanta, M. P., Eleish, A., Ostroverkhova, A., Golden, J., & Hazen, R. M. (2019). Lithium mineral evolution and ecology: comparison with boron and beryllium. European Journal of Mineralogy, 31(4), 755-774. DOI: 10.1127/ejm/2019/0031-2862

Hystad, G., Morrison, S. M., & Hazen, R. M. (2019). Statistical analysis of mineral evolution and mineral ecology: The current state and a vision for the future. Applied Computing and Geosciences, 1, 100005. DOI: 10.1016/j.acags.2019.100005

Miller, M., Vitale, D., Kahn, P.C., Rost, B., & Bromberg, Y. (2019). fuNTRp: Identifying protein positions for variation driven functional tuning. Nucleic Acids Research, , gkz818, DOI:10.1093/nar/gkz818

Chan, M.A., Hinman, N.W., Potter-McIntyre, S.L., Schubert, K.E., Gillams, R.J., Awramik, S.M., Boston, P.J., Bower, D.M., Des Marais, D.J., Farmer, J.D., Jia, T.Z., King, P.L., Hazen, R.M., Leveille, R.J., Papineau, D., Rempfert, K.R., Sanchez-Roman, M., Spear, J.R., Southam, G., Stern, J.C., and Cleaves, H.J. II (2019) Deciphering biosignatures in planetary contexts. Astrobiology, 19, 28 p.   DOI:10.1089/ast.2018.1903

Hazen, R.M. (2019) An evolutionary system of mineralogy: Proposal for a classification based on natural kind clustering. American Mineralogist, 104, 810-816. DOI:10.2138/am-2019-6709CCBYNCND

Andrew C. Mutter, Alexei M. Tyryshkin, Ian J. Campbell, Saroj Poudel, George N. Bennett, Jonathan J. Silberg, Vikas Nanda, and Paul G. Falkowski. 2019. De novo design of symmetric ferredoxins that shuttle electrons in vivo. Proceedings of the National Academy of Sciences, 116(29), pp.14557-14562.  DOI:10.1073/pnas.1905643116

Price R. E. and Giovannelli D. (2019). Marine Shallow-Water Hydrothermal Vents: Geochemistry, in Encyclopedia of Ocean Sciences (Third Edition), eds. J. K. Cochran, H. J. Bokuniewicz, and P. L. Yager (Oxford: Academic Press), 346–352. DOI:10.1016/B978-0-12-409548-9.11015-2

Freiberger, M. I., Guzovsky, A. B., Wolynes, P. G., Parra, R. G., & Ferreiro, D. U. (2019). Local frustration around enzyme active sites. Proceedings of the National Academy of Sciences, 116(10), 4037-4043. DOI:10.1073/pnas.1819859116

Hazen, R. M. (2019). Earth in five reactions: Grappling with meaning and value in science. American Mineralogist, 104(4), 468-470. DOI:10.2138/am-2019-6745

Merino, N., Aronson, H. S., Bojanova, D. P., Feyhl-Buska, J., Wong, M. L., Zhang, S., Giovannelli, D. (2019). Living at the Extremes: Extremophiles and the Limits of Life in a Planetary Context. Frontiers in Microbiology, 10, 780. DOI:10.3389/fmicb.2019.00780

Estrada, C., Sverjensky, D. A., and Hazen, R. M. (2019). Selective Adsorption of Aspartate Facilitated by Calcium on Brucite [Mg(OH)2]. ACS Earth Space Chem, 3(1), 1-7. DOI:10.1021/acsearthspacechem.8b00081

2018

Morrison, S., Runyon, S., and Hazen, R. (2018). The Paleomineralogy of the Hadean Eon Revisited. Life, 8(4), 64. DOI:10.3390/life8040064

Loell, K. and Nanda, V. (2018). Marginal protein stability drives subcellular proteome isoelectric point. Proceedings of the National Academy of Sciences, 115(46), 11778-11783. DOI:10.1073/pnas.1809098115

Turjanski, P. and Ferreiro, D. U. (2018). On the Natural Structure of Amino Acid Patterns in Families of Protein Sequences. The Journal of Physical Chemistry B, 122(49), 11295-11301. DOI:10.1021/acs.jpcb.8b07206

Kim, J. D., Pike, D. H., Tyryshkin, A. M., Swapna, G. V. T., Raanan, H., Montelione, G. T., … and Falkowski, P. G. (2018). Minimal Heterochiral de Novo Designed 4Fe–4S Binding Peptide Capable of Robust Electron Transfer. Journal of the American Chemical Society, 140(36), 11210-11213. DOI:10.1021/jacs.8b07553