Fierer Lab

Exploring the structure and function of microbial communities



Delgado-Baquerizo, M., D.J. Eldridge, Y. Liu, B. Sokoya, J. Wang, H. Hu, J. He, F. Bastida, J.L. Moreno, A.R. Bamigboye, J.L. Blanco-Pastor, C. Cano-Díaz, J.G. Illán, T.P. Makhalanyane, C. Siebe, P. Trivedi, E. Zaady, J.P. Verma, L. Wang, J. Wang, T. Grebenc, G.F. Peñaloza-Bojaca, T.U. Nahberger, A.L. Teixido, X. Zhou, M. Berdugo, J. Duran, A. Rodríguez, X. Zhou, F. Alfaro, S. Abades, C. Plaza, A. Rey, B.K. Singh, L. Tedersoo, N. Fierer. 2021. Global homogenization of the structure and function in the soil microbiome of urban greenspaces. Science Advances. 7: eabg5809. [pdf]

Dragone, N.B., M.A. Diaz, I.D. Hogg, W.B. Lyons, W.A. Jackson, D.H. Wall, B.J. Adams, N. Fierer. 2021. Exploring the boundaries of microbial habitability in soil. JGR-Biogeosciences. 126: e2020JG006052. doi: 10.1029/2020JG006052 [pdf]

Bueno de Mesquita, C.P., L.M. Nichols, M.J. Gebert, C. Vanderburgh, G. Bocksberger, J.D. Lester, A.K. Kalan, P. Dieguez, M.S. McCarthy, A. Agbor, PA. Varona, E.A. Ayimisin, M. Bessone, R. Chancellor, H. Cohen, C. Coupland, T. Deschner, V.E. Egbe, A. Goedmakers, A.C. Granjon, C.C. Grueter, J. Head, R.A. Hernandez-Aguilar, K.J. Jeffery, S. Jones, P. Kadam, M. Kaiser, J. Lapuente, B. Larson, S. Marrocoli, D. Morgan, B. Mugerwa, F. Mulindahabi, E. Neil, P. Niyigaba, L. Pacheco, A.K. Piel, M.M. Robbins, A. Rundus, C.M. Sanz, L. Sciaky, D. Sheil, V. Sommer, F.A. Stewart, E. Ton, J. van Schijndel, V. Vergnes, E.G. Wessling, R.M. Wittig, Y.G. Yuh, K. Yurkiw, K. Zuberbuhler, J.F. Gogarten, A. Heintz-Buschart,, A.N. Muellner-Riehl, C. Boesch, H.S. Kuhl, N. Fierer, M. Arandjelovic, R.R. Dunn. 2021. Structure of the chimpanzee gut microbiome across their range. mSystems. 6: e01269-20 doi: 10.1128/mSystems.01269-20 [pdf]

Lekberg, Y., C.A. Arnillas, E.T. Borer, L.S. Bullington, N. Fierer, P.G. Kennedy, J.W. Leff, A.D. Luis, E.W. Seabloom. J.A. Henning. 2021 Nitrogen and phosphorus fertilization consistently favor pathogenic over mutualistic fungi in grassland soils. Nature Communications. doi: 10.1038/s41467-021-23605-y [pdf]

Simonin, M., J.D. Rocca, J.R. Gerson, E. Moore, A.C. Brooks, L. Czaplicki, M.R.V. Ross, N. Fierer, J.M. Craine, E.S. Bernhardt. 2021. Consistent declines in aquatic biodiversity across diverse domains of life in rivers impacted by surface coal mining. Ecological Applications. e02389. doi: 10.1002/EAP.2389 [pdf]

Walsh, C.M., I. Becker-Uncapher, M. Carlson, N. Fierer. 2021. Variable influences of soil and seed-associated bacterial communities on the assembly of seedling microbiomes. ISME Journal. doi:10.1038/s41396-021-00967-1 [pdf]

Landis, E.A., A.M. Oliverio, E.A. McKenney, L.M. Nichols, N. Kfoury, M. Biango-Daniels, L.K. Shell, A.A. Madden, L.R. Shapiro, S.K. Sakunala, K. Drake, A. Robbat, M. Booker, R.R. Dunn, N. Fierer, B.E. Wolfe. 2021. The diversity and function of sourdough starter microbiomes. eLife. 10:e61644 DOI: 10.7554/eLife.61644 [pdf]

Holland-Moritz, H., J.E.M. Stuart, L.R. Lewis, S.N. Miller, M.C. Mack, J.M. Ponciano, S.F. McDaniel, N. Fierer. 2021. The bacterial communities of Alaskan mosses and their contributions to N2-fixation. Microbiome. 9, 53 [pdf]

Fierer, N., S.A. Wood, C.P. Bueno de Mesquita. 2021. How microbes can, and cannot, be used to assess soil health. Soil Biology & Biochemistry. 153: 108111. [pdf]

George, S.F., N. Fierer, J.S. Levy, B.J. Adams. 2021. Antarctic water tracks: microbial community responses to variation in soil moisture, pH, and salinity. Frontiers in Microbiology. 12: 616730. [pdf]

Nielsen, D.A., N. Fierer, J.L. Geoghegan, M.R. Gillings, V. Gumerov, JS Madin,, L. Moore, I.T. Paulsen, T.B.K. Reddy, S.G. Tetu, M. Westoby. 2021. Aerobic bacteria and archaea tend to have larger and more versatile genomes. Oikos. 130: 501-511 [pdf]

Diaz, M.A., C.B. Gardner, S.A. Welch, W.A. Jackson, B.J. Adams, D.H. Wall, I.D. Hogg, N. Fierer, W.B. Lyons. 2021. Geochemical zones and environmental gradients for soils from the Central Transantarctic Mountains, Antarctica. Biogeosciences. 18, 1629-1644 [pdf]


Oliverio, A.M., A. Bissett, K. McGuire, K. Saltonstall, B.L. Turner, N. Fierer. 2020. The role of phosphorus limitation in shaping soil bacterial communities and their metabolic capabilities. mBio. 11: e01718-20 [pdf]

Hammer, T.J., J. Dickerson, W.O. McMillan, N. Fierer. 2020. Heliconius butterflies host characteristic and phylogenetically structured adult-stage microbiomes. Applied and Environmental Microbiology. 86: e02007-20. [pdf]

Delgado-Baquerizo, M., P.B. Reich, R.D. Bardgett, D.J. Eldridge, H. Lambers, D.A. Wardle, S.C. Reed, C. Plaza, G.K. Png, S. Neuhauser, A.A. Berhe, S.C. Hart, H.W. Hu, J.Z. He, F. Bastida, S. Abades, F.D. Alfaro, N.A. Cutler, A. Gallardo, L. Garcia-Velazquez, P.E. Hayes, Z.Y. Hseu, C.A. Perez, F. Santos, C. Siebe, P. Trivedi, B.W. Sullivan, L. Weber-Grullon, M.A. Williams, N. Fierer. 2020. The influence of soil age on ecosystem structure and function across biomes. Nature Communications. 11:4721 [pdf]

Dove, N.C., K. Arogyaswamy, S.A. Billings, J.K. Bothoff, C.J. Carey, C. Cisco, J. L. DeForest, D. Fairbanks, N. Fierer, R.E. Gallery, J.P. Kaye, K.A. Lohse, M.R. Maltz, E. Mayorga, J. Pett-Ridge, W.H. Yang, S.C. Hart, E.L. Aronson. In Press. Continental-scale patterns of extracellular enzyme activity in the subsoil: an overlooked reservoir of microbial activity. Environmental Research Letters. [pdf]

Stuart, J.E.M., H. Holland-Moritz, L.R. Lewis, M. Jean, S.N Miller, S.F. McDaniel, N. Fierer, J.M. Ponciano, M.C. Mack. 2020. Host identity as a driver of moss-associated N2 fixation rates in Alaska. Ecosystems. doi: 10.1007/s10021-020-00534-3 [pdf]

Cano-Díaz, C., F.T. Maestre, D.J. Eldridge, B.K. Singh, R.D. Bardgett, N. Fierer, M. Delgado-Baquerizo. 2020. Contrasting environmental preferences of photosynthetic and non-photosynthetic soil cyanobacteria across the globe. Global Ecology and Biogeography. DOI: 10.1111/geb.13173 [pdf]

Diaz, M.A., J. Li, G. Michalski, T.HG. Darrah, B.J. Adams. D.H. Wall, I.D. Hogg, N. Fierer, S.A. Welch, C.B. Gardner, W.B. Lyons. 2020. Stable isotopes of nitrate, sulfate, and carbonate in soils from the Transantarctic Mountains, Antarctica: A record of atmospheric deposition and chemical weathering. Frontiers in Earth Science. 8:341. doi: 10.3389/feart.2020.00341 [pdf]

Brewer, T.E., M. Albertsen, A. Edwards, R. Kirkegaard, E. Rocha, N. Fierer. 2020. Unlinked rRNA genes are widespread among Bacteria and Archaea. ISME Journal. 14: 597-608.  [pdf]

Oliverio, A.M., S. Geisen, M. Delgado-Baquerizo, F.T. Maestre, B.L. Turner, N. Fierer. 2020. The global-scale distributions of soil protists and their contributions to belowground systems. Science Advances. 6, eaax8787. [pdf]

McBride, S.G., M.J. Choudoir, N. Fierer, M.S. Strickland. 2020. Volatile organic compounds from leaf litter decomposition alter soil microbial communities and carbon dynamics. Ecology. doi: 10.1002/ecy.3130 [pdf]

Allwood, J.S., N. Fierer, M. Breen, R.R. Dunn, M. Breen, B.J. Reich, E. B. Laber, J. Clifton, N.S. Grantham, S.A. Faith. 2020. Use of standardized bioinformatics for the analysis of fungal DNA signatures applied to sample provenance. Forensic Science International. 310: 110250 [pdf]

Carini, P., M. Delgado-Baquerizo, E.S. Hinckley, H. Holland-Moritz, T.E. Brewer, G. Rue, C. Vanderburgh, D. McKnight, N. Fierer. 2020. The effects of spatial variability and relic DNA removal on the detection of temporal dynamics in soil microbial communities. mBio. 11: e02776-19 [pdf]

Allwood, J.S., N. Fierer, R.R. Dunn. 2020. The future of environmental DNA in forensic science. Applied & Environmental Microbiology. 86: e01504-19 [pdf]

Madin, J.S., D.A. Nielsen, M. Brbic, R. Corkrey, D. DAnko, K. Edwards, M.K.M. Engqvist, N. Fierer, J.L. Geoghegan, M. Gillings, N.C. Kyrpides, E. Litchman, C.E. Mason, L. Moore, S.L. Nielsen, I.T. Paulsen, N.D. Price, T.B.K. Reddy, M.A. Richards, E.P.C. Rocha, T.M. Schmidt, H. Shaaban, M. Shukla, F. Supek, S.G. Tetu, S. Vieira-Silva, A.R. Wattam, D.A. Westfall, M. Westoby. 2020. A synthesis of bacterial and archaeal phenotypic trait data. Scientific Data. 7: 170. [pdf]

Grantham, N.S., B.J. Reich, E.B. Laber, K. Pacifici, R.R. Dunn, N. Fierer, M. Gebert, J.S. Allwood, S.A. Faith. 2020. Global forensic geolocation with deep neural networks. Journal of the Royal Statistical Society. 69: 909 [pdf]


Brewer, T.E., E. L. Aronson, K. Arogyaswamy, S.A. Billings, J.K. Botthoff, A. N. Campbell, N.C. Dove, D. Fairbanks, R. E. Gallery, S. C. Hart, J. Kaye, G. King, G. Logan, K. A. Lohse, M. R. Maltz, E. Mayorga, C. O’Neill, S. M. Owens, A. Packman, J. Pett-Ridge, A. F. Plante, D. D. Richter, W. L. Silver, W. H. Yang, N. Fierer. 2019. Ecological and genomic attributes of novel bacterial taxa that thrive in subsurface soil horizons. mBio. 10: e01318-19. DOI: 10.1128/mBio.01318-19 [pdf]

Fierer, N. 2019. Earthworms’ place on Earth. Science. 366: 425-426 [pdf]

Nottingham, A.T., J. Whitaker, N.J. Ostle, R.D. Bardgett, N.P. McNamara, N. Fierer, N. Salinas, A.J.Q. Ccahuana, B.L. Turner, P. Meir. 2019. Microbial responses to warming enhance soil carbon loss following soil translocation across a tropical forest elevation gradient. Ecology Letters. doi: 10.1111/ele.13379 [pdf]

Dietzel, K., D. Valle, N. Fierer, J.M. U’Ren, A. Barberán. 2019. Geographical distribution of fungal plant pathogens in dust across the United States. Frontiers in Ecology and Evolution.7: 304 doi: 10.3389/fevo/2019/00304 [pdf]

Walsh, C.M., M.J. Gebert, M. Delgado-Baquerizo, F.T. Maestre, N. Fierer. 2019. A global survey of mycobacterial diversity in soil. Applied & Environmental Microbiology. 85: e01180-19 [pdf]

Hammer, T.J., J.G. Sanders, N. Fierer. 2019. Not all animals need a microbiome. FEMS Microbiology Letters. 366: fnz117 [pdf]

Steen, A.D., A. Crits-Cristoph, P. Carini, K.M. DeAngelis, N. Fierer, K.G. Lloyd, J.C. Thrash. 2019. High proportions of bacteria and archaea across most biomes remain uncultured. ISME Journal. doi: 10.1038/s41396-019-0484-y [pdf]

Bastida, F., C. García, N. Fierer, D.J. Eldridge, M.A. Bowker, S. Abades, F.D. Alfaro, A.A. Berhe, N.A. Cutler, A. Gallardo, L. García-Velázquez, S.C. Hart, P.E. Hayes, T. Hernández, Z. Hseu, N. Jehmlich, M. Kirchmair, H. Lambers, S. Neuhauser, V.M. Peña-Ramírez, C.A. Pérez, S.C. Reed, F. Santos, C. Siebe, B.W. Sullivan, P. Trivedi, A. Vera, M.A. Williams, J.L. Moreno, M. Delgado-Baquerizo. 2019. Global ecological predictors of the soil priming effect. Nature Communications. 10: 3481 [pdf]

Webster, T.M., N. Fierer. 2019. Microbial dynamics of biosand filters and contributions of the microbial food web to effective treatment of wastewater-impacted water sources. Applied & Environmental Microbiology. 85: e01142-19 [pdf]

Zinger, L., A. Bonin, I.G. Alsos, M. Balint, H. Bik, F. Boyer, A.A. Chariton, S. Creer, E. Coissac, B.E. Deagle, M. DeBarba, I.A. Dickie, A.J. Dumbrell, G.F. Ficetola, N. Fierer, L. Fumagalli, M.T.P. Gilbert, S. Jarman, A. Jumpponen, L. Orlando, J. Pansu, J. Pawlowski, L. Tedersoo, P.F. Thomsen, E. Willerslev, P. Taberlet. 2019. DNA metabarcoding – Need for robust experimental designs to draw sound ecological conclusions. Molecular Ecology. DOI: 10.1111/mec.15060 [pdf]

Lyke, M.M., A. DiFiore, N. Fierer, A.E. Madden, J.E. Lambert. 2019. Metagenomic analyses reveal previously unrecognized variation in the diets of sympatric Old World monkey species. PLoS One. 14(6): e0218245. DOI: 10.1371/journal.pone.0218245 [pdf]

Delgado-Baquerizo, M., R.D. Bardgett, P. Vitousek, F.T. Maestre, M.A. Williams, D.J. Eldridge, H. Lambers, S. Neuhauser, A. Gallardo, L. Garcia-Velazquez, O. Sala, S. Abades, F.D. Alfaro, A.A. Berhe, M.A. Bowker, C. Currier, N.A. Cutler, S.C. Hart, P.E. Hayes, Z-Y. Hseu, M. Kirchmair, V.M. Pena-Ramirez, C.A. Perez, S.C. Reed, F. Santos, C. Siebe, B.W. Sullivan, L. Weber-Grullon, N. Fierer. 2019. Changes in belowground biodiversity during ecosystem development. Proc. Natl. Acad. Sci. USA. 116: 6891-6896. [pdf]

Bradford, M.A., R.L. McCulley, T.W. Crowther, E.E. Oldfield, S.A. Wood, N. Fierer. 2019. Cross-biome patterns in soil microbial respiration predictable from evolutionary theory on thermal adaptation. Nature Ecology & Evolution. 3: 223-231 [pdf]

Choudoir, M., S. Rossabi, M. Gebert, D. Helmig, N. Fierer. 2019. A phylogenetic and functional perspective on volatile organic compound production by Actinobacteria. mSystems. 4: e00295-18. [pdf]


Gebert, M.J., M. Delgado-Baquerizo, A.M. Oliverio, T.M. Webster, L.M. Nichols, J.R. Honda, E.D. Chan, J. Adjemian, R.R. Dunn, N. Fierer. 2018. Ecological analyses of mycobacteria in showerhead biofilms and their relevance to human health. mBio. 9:e01614-18 [pdf]

Semchenko, M., J.W. Leff, Y.M. Lozano, S. Saar, J. Davison, A. Wilkinson, B.G. Jackson, W.J. Pritchard, J.R. DeLong, S. Oakley, K.E. Mason, N.J. Ostle, E.M. Baggs, D. Johnson, N. Fierer, R.D. Bardgett. 2018. Fungal diversity regulates plant-soil feedbacks in temperate grassland. Science Advances. 4:eaau4578 [pdf]

Rath, K., N. Fierer, D. Murphy, J. Rousk. 2018. Linking bacterial community composition to soil salinity along environmental gradients. ISME Journal. [pdf]

Ladau, J., Y. Shi, X. Jing, J. He, L. Chen, X. Lin, N. Fierer, J.A. Gilbert, K. Pollard, H. Chu. 2018. Existing climate change will lead to pronounced shifts in the diversity of soil prokaryotes. mSystems. 3:e00167-18 [pdf]

Holland-Moritz, H., J. Stuart, L.R. Lewis, S. Miller, M.C. Mack, S.F. McDaniel, N. Fierer. 2018. Novel bacterial lineages associated with boreal moss species. Environmental Microbiology. 20: 2625-2638. [pdf]

Oliverio, A.M., H. Gan, K. Wickings, N. Fierer. 2018. A DNA metabarcoding approach to characterize soil arthropod communities. Soil Biology & Biochemistry.125: 37-43. [pdf]

Rossabi, S., M.J. Choudoir, D. Helmig, J. Hueber, N. Fierer. 2018. Volatile organic compound emissions from soil following wetting events. JGR-Biogeosciences. 123: 1988-2001. [pdf]

Bowman, W.D., A. Asma, C. Bueno de Mesquita, N. Fierer, T. Potter, S. Sternagel. 2018. Limited ecosystem recovery from simulated chronic nitrogen deposition. Ecological Applications. 28: 1762-1772. [pdf]

Nottingham, A., N. Fierer, B.L. Turner, J. Whittaker, N. Ostle, N. McNamara, R. Bardgett, J.W. Leff, N. Salinas, M.R. Silman, L. Kruuk, P. Meir. 2018. Microbes follow Humboldt: temperature drives plant and soil microbial diversity patterns from the Amazon to the Andes. Ecology. 99: 2455-2466. [pdf]

Oliverio, A.M., J.F. Power, A. Washburne, S.C. Cary, M.B. Stott, N. Fierer. 2018. The ecology and diversity of microbial eukaryotes in geothermal springs. ISME Journal. 12: 1918-1928 [pdf]

Clements, N., P. Keady, J.B. Emerson, N. Fierer, S.L. Miller. 2018. Seasonal variability of airborne particulate and bacterial concentrations in Colorado homes. Atmosphere. 9, 133 doi:10.3390/atmos9040133 [pdf]

Rosario, K., N. Fierer, M. Breitbart. 2018. Near complete genome sequence of a novel single-stranded RNA virus discovered in indoor air. Genome Announcements. 6: e00198-18 [pdf]

Delgado-Baquerizo, M., A.M. Oliverio, T.E. Brewer, A. Benavent-Gonzalez, D.J. Eldridge, R. D. Bardgett, F.T. Maestre, B.K. Singh, N. Fierer. 2018. A global atlas of the dominant bacteria found in soil. Science. 359: 320-325.[pdf]

Leff, J.W., R.D. Bardgett, A. Wilkinson, B.G. Jackson, W.J. Pritchard, J.R. DeLong, S. Oakley, K.E. Mason, N.J. Ostle, D. Johnson, E.M. Baggs, N. Fierer. 2018. Predicting the structure of soil communities from plant community taxonomy, phylogeny, and traits. ISME Journal. doi:10.1038/s41396-018-0089-x [pdf]

Ortiz-Álvarez, R., N. Fierer, A. de los Ríos, E.O. Casamayor, A. Barberán. 2018. Consistent changes in the taxonomic structure and functional attributes of bacterial communities during primary succession. ISME Journal. 12: 1658-1667 [pdf]

Choudoir, M.J., A. Barberán, H.L. Menninger, R.R. Dunn, N. Fierer. 2018. Variation in range size and dispersal capabilities of microbial taxa. Ecology. 99: 322-334.[pdf]

Rosario, K., N. Fierer, S.L. Miller, J. Luongo, M. Breitbart. 2018. Diversity of DNA and RNA viruses in indoor air as assessed via metagenomic sequencing. Environmental Science & Technology 52: 1014-1027 [pdf]

Robeson, M.S., K. Khanipov, G. Golovko, S.M. Wisely, M. White, M. Bodenchuck, T.J. Smyser, Y. Fofanov, N. Fierer, A. Piaggio. 2018. Assessing the utility of metabarcoding for diet analyses of the omnivorous wild pig (Sus scrofa). Ecology and Evolution. 8: 185-196 [pdf]

Brewer, T.E. and N. Fierer. 2018. Tales from the tomb: the microbial ecology of exposed rock surfaces. Environmental Microbiology. 20: 958-970 [pdf]


Fierer, N. 2017. Embracing the unknown: disentangling the complexities of the soil microbiome. Nature Reviews Microbiology. 15: 579-590. [pdf]

Hammer, T.J., D.H. Janzen, W. Hallwachs, S.P. Jaffe, N. Fierer. 2017. Caterpillars lack a resident gut microbiome. Proc. Natl. Acad. Sci. USA. 36: 9641-9646.[pdf]

Thompson, L. R. et al. (N. Fierer is one of 42 authors). 2017. A communal catalogue reveals Earth’s multiscale microbial diversity. Nature. 551: 457-463.

Delgado-Baquerizo, M., A. Bissett, D.J. Eldridge, F.T. Maestre, J. He, J. Wang, K. Hamonts, Y. Liu, B.K. Singh, N. Fierer. 2017. Paleoclimate explains a unique proportion of the global variation in soil bacterial communities. Nature Ecology & Evolution. 1: 1339-1347.[pdf]

Barberán, A., H.C. Velazquez, S. Jones, N. Fierer. 2017. Hiding in plain sight: mining bacterial species records for phenotypic trait information. mSphere. 2: e00237-17 [pdf]

Strickland, M.S., M.A. Callaham, E.S. Gardiner, J. A. Stanturf, J. W. Leff, N. Fierer, M. A. Bradford. 2017. Response of soil microbial community composition and function to a bottomland forest restoration intensity gradient. Applied Soil Ecology. 119: 317-326.[pdf]

Lear, G., K. Lau, A. Perchec, H.L. Buckley, B.S. Case, M. Neale, N. Fierer, J.W. Leff, K.M. Handley, G. Lewis. 2017. Following Rapoport’s Rule: The geographic range and genome size of bacterial taxa decline at warmer latitudes. Environmental Microbiology. 19: 3152-3162. [pdf]

Wood, S.A., J.A. Gilbert, J.W. Leff, N. Fierer, H. D’Angelo, C. Bateman, S.M. Gedallovich, C.M. Gillikin, M.R. Gradoville, P. Mansor, A. Massmann, N. Yang, B.L. Turner, F.Q. Brearley, K.L. McGuire. 2017. Consequences of tropical forest conversion to oil palm on soil bacterial community network structure. Soil Biology & Biochemistry.112: 258-268. [pdf]

Bowers, R.M. et al. (N. Fierer is one of 53 authors). 2017. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology. 35: 725-731. [pdf]

Zapka, C., J. Leff, J. Henley, J. Tittl, E. DeNardo, M. Butler, R. Griggs, N. Fierer, S. Edmonds-Wilson. 2017. Comparison of methods for evaluation of hygiene effects on the hand microbiome: standard culture-based versus culture-independent methods. mBio 8:e00093-17. [pdf]

Madden, A.A., S.D. Boyden, J.N. Soriano, T.B. Corey, J.W. Leff, N. Fierer, P.T. Starks. 2017. The emerging contribution of social wasps to grape rot disease ecology. PeerJ. 5: e3223, DOI 10.7717/peerj.3223[pdf]

Washburne, A.D., J.D. Silverman, J.W. Leff, D.J. Bennett, J.L. Darcy, S. Mukherjee, N. Fierer, L.A. David. 2017. Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets. PeerJ: e2969. doi: 10.7717/peerj.2969 [pdf]

Rempfert, K.R., H.M. Miller, N. Bompard, D. Nothaft, J.M. Matter, P. Kelemen, N. Fierer, A.S. Templeton. 2017. Geological and geochemical controls on subsurface microbial life in the Samail Ophiolite, Oman. Frontiers in Microbiology. 8:56. [pdf]

Craine, J.M., A. Barberán, R.C. Lynch, H.L. Menninger, R.R. Dunn, N. Fierer. 2017. Molecular analysis of environmental plant DNA in house dust across the United States. Aerobiologia. 33:71-86. [pdf]


Carini, P., P.J. Marsden, J.W. Leff, E. E. Morgan, M.S. Strickland, N. Fierer. 2016. Relic DNA is abundant in soil and obscures estimates of soil microbial diversity. Nature Microbiology. 2: 16242. doi: 10.1038/nmicrobiol.2016.242 [pdf]

Oliverio, A., M.A. Bradford, N. Fierer. 2016. Identifying the microbial taxa that consistently respond to soil warming across time and space. Global Change Biology. doi: 10.1111/gcb.13557 [pdf]

Madden, A.A., A. Barberán, M.A. Bertone, H.L. Menninger, R.R. Dunn, N. Fierer. 2016.  The diversity of arthropods in homes across the United States as determined by environmental DNA analyses. Molecular Ecology doi: 10.1111/mec.13900 [pdf]

Brewer, T.E., K.M. Handley, P. Carini, J.A. Gilbert, N. Fierer.2016. Genome reduction in an abundant and ubiquitous soil bacterium, ‘Candidatus Udaeobacter copiosus’. Nature Microbiology. 2: 16198 [pdf]

Leff, J.W., R.C. Lynch, N.C. Kane. N. Fierer. 2016. Plant domestication and the assembly of bacterial and fungal communities associated with strains of the common sunflower, Helianthus annuus L. New Phytologist. doi: 10.1111/nph.14323 [pdf]

Emerson, J.B., P.B. Keady, N. Clements, E.E. Morgan, J. Awerbuch, S.L. Miller, N. Fierer. 2016. High temporal variability in airborne bacterial diversity and abundance inside single-family residences. Indoor Air. doi: 10.1111/ina.12347 [pdf]

Adams, R.I., S. Bhangar, K.C. Dannemiller, J.A. Eisen, N. Fierer, J.A. Gilbert, J.L. Green, L.C. Marr, S.L. Miller, J.A. Siegel, B. Stephens, M.S. Waring, K. Bibby. 2016. Ten questions concerning the microbiomes of buildings. Building and Environment. 109: 224-234. [pdf]

Gornish, E.S., N. Fierer, A. Barberán. 2016. Associations between an invasive plant (Taeniatherum caput-medusae, medusahead) and soil microbial communities. PLoS One. e0163930. doi:10.1371/journal.pone.0163930 [pdf]

Shelton, J.L., D.M. Akob, J.C McIntosh, N. Fierer, J.R. Spear, P.D. Warwick, J.E. McCray. 2016. Environmental drivers of differences in microbial community structure in crude oil reservoirs across a methanogenic gradient. Frontiers in Microbiology. [pdf]

Bradford, M.A., W.R. Wieder, G.B. Bonan, N. Fierer, P.A. Raymond, T.W. Crowther. 2016. Managing uncertainty in soil carbon feedbacks to climate change. Nature Climate Change. doi: 10.1038/NCLIMATE3071 [pdf]

Pointing, S.B., N. Fierer, G.J.D. Smith, P.D. Steinberg, M. Wiedmann. 2016. Quantifying human impact on Earth’s microbiome. Nature Microbiology. 1: 16145. doi:10.1038/nmicrobiol.2016.145 [pdf]

Craine, J.M., J.P. Angerer, A. Elmore, N. Fierer. 2016. Continental-scale patterns reveal potential for warming-induced shifts in cattle diet. PLoS One. 11:e0161511 [pdf]

Hammer, T.J., N. Fierer, B. Hardwick, A. Simojoki, E. Slade, J. Taponen, H. Viljanen, T. Roslin. 2016. Treating cattle with antibiotics affects greenhouse gas emissions and microbiota in dung and dung beetles. Proceedings of the Royal Society B: Biological Sciences. 283: 20160150. [pdf]

Luongo, J.C., A. Barberán, R. Hacker-Cary, E.E. Morgan, S.L. Miller, N. Fierer. 2016. Microbial analyses of airborne dust collected from dormitory rooms predict the sex of occupants. Indoor Air. doi:10.1111/ina.12302 [pdf]

Tripp, EA, J.C. Lendemer, A. Barberán, R.R. Dunn, N. Fierer. 2016. Biodiversity gradients in obligate symbiotic organisms: exploring the diversity and traits of lichen propagules across the United States. Journal of Biogeography. 43: 1667-1678 [pdf]

Smets, W., J.W. Leff, M.A. Bradford, R.L. McCulley, S. Lebeer, N. Fierer. 2016. A method for simultaneous measurement of soil bacterial abundances and community composition via 16S rRNA gene sequencing. Soil Biology & Biochemistry. 96: 145-151. [pdf]

Miller, H.M., J.M. Matter, P. Kelemen, E.T. Ellison, M.E. Conrad, N. Fierer, T. Ruchala, M. Tominaga, A.S. Templeton. 2016. Modern water/rock reactions in Oman hyperalkaline peridotite aquifers and implications for microbial habitability. Geochimica et Cosmichima Acta. 179: 217-241. [pdf]

Rojas, X., J. Guo, J.W. Leff, D.H. McNear, N. Fierer, R.L. McCulley. 2016. Infection with a shoot-specific fungal endophyte (Epichloe) alters tall fescue soil microbial communities. Microbial Ecology. 72: 197-206 [pdf]

Planet, P.J., D. Parker, T.S. Cohen, H. Smith, J.D. Leon, C. Ryan, T.J. Hammer, N. Fierer, E.I. Cheng, A.S. Prince. 2016. Lambda interferon restructures the nasal microbiome and increases susceptibility to Staphylococcus aureus superinfection. mBio. 7: e01939-15 doi: 10.1128/mBio.01939-15 [pdf]

Barberán, A., T.J. Hammer, A.A. Madden, N. Fierer. 2016. Microbes should be central to ecological education and outreach. Journal of Microbiology & Biology Education. March issue: 23-28. DOI: [pdf]

Hinckley, E.S., S.P. Anderson, J.S. Baron, P.D. Blanken, G.B. Bonan, W.D. Bowman, S.C. Elmendorf, N. Fierer, A. Fox, K. Goodman, K. Jones, D. Lombardozzi, C. Lunch, J.C. Neff, M. SanClements, K. Suding, W.R. Wieder. 2016. Optimizing available network resources to address questions in environmental biogeochemistry. Bioscience. DOI: 10.1093/biosci/biw005 [pdf]


Bergmann, G., M.S. Robeson, J.M. Craine, N. Fierer. 2015. Seasonal shifts in diet and gut microbiota of the American bison (Bison bison). PLoS One. 10(11):e0142409. [pdf]

Barberán, A., K.L. McGuire, J.A. Wolf, F.A. Jones, S.J. Wright, B.L. Turner, A. Essene, S.P. Hubbell, B.C. Faircloth, N. Fierer. 2015. Relating belowground microbial composition to the taxonomic, phylogenetic, and functional trait distributions of trees in a tropical forest. Ecology Letters. 18: 1397-1405. [pdf]

Craine, J. M., E. G. Towne, M. Miller, N. Fierer. 2015. Climatic warming and the future of bison as grazers. Scientific Reports. 5: 16838 [pdf]

Barberán, A., R.R. Dunn, B.J. Reich, K. Pacifici, E.B. Laber, H.L. Menninger, J.M. Morton, J.B. Henley, J.W. Leff, S.L. Miller, N. Fierer. 2015. The ecology of microscopic life in household dust. Proceedings of the Royal Society B: Biological Sciences.  DOI: 10.1098/rspb.2015.1139 [pdf]

Leff, J.W., S. Jones, S.M. Prober, A. Barberán, E.T. Borer, J. Firn, W.S. Harpole, S.E. Hobbie, K.S. Hofmockel, J.M.H. Knops, R.L. McCulley, K.J. LaPierre, A.C. Risch, E.W. Seabloom, M. Schutz, C. Steenbock, C.J. Stevens, N. Fierer.2015. Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe. Proc. Natl. Acad. Sci. USA. 112: 10967-10972.[pdf]

Hammer, T.J., J.C. Dickerson, N. Fierer. 2015. Evidence-based recommendations on storing and handling specimens for analyses of insect microbiota. PeerJ. 3:e1190; DOI 10.7717/peerj.1190 [pdf]

Edmonds-Wilson, S.L., N.I. Nurinova, C.A. Zapka, N. Fierer, M. Wilson. 2015. Review of human hand microbiome research. Journal of Dermatological Science. 80: 3-12. [pdf]

Barberán, A., J. Ladau, J.W. Leff*, K.S. Pollard, H. Menninger, R.R. Dunn, N. Fierer. 2015. Continental-scale distributions of dust-associated bacteria and fungi. Proc. Nat. Acad. Sci. USA. doi/10.1073/pnas.1420815112.[pdf]

Beasley, D.E., A.M. Koltz, J.E. Lambert, N. Fierer, R.R. Dunn. 2015. The evolution of stomach acidity and its relevance to the human microbiome. PLoS One. 10: e0134116  [pdf]

Gray, C.M., D. Helmig, N. Fierer. 2015. Bacteria and fungi associated with isoprene consumption in soil. Elementa. 3: 000053 doi: 10.12952/journal.elementa.000053[pdf]

Stopnisek, N.,  D. Zühlke, A. Carlier, A. Barberán, N. Fierer, D. Becher, K. Riedel, L. Eberl, L. Weisskopf. 2015. Molecular mechanisms underlying the close association between soil Burkholderia and fungi. ISME Journal. doi:10.1038/ismej.2015.73 [pdf]

Grantham, N.S., B.J. Reich, K. Pacifici, E.B. Laber, H.L. Menninger, J. B. Henley, J.W. Leff, A. Barberan, N. Fierer, R.R. Dunn. 2015. Fungi identify the geographic origin of dust samples. PLoS One. 10(4): e0122605. doi:10.1371/journal.pone.0122605 [pdf]

Aleklett, K., J.W. Leff, N. Fierer, M. Hart. 2015. Wild plant species growing closely connected in a subalpine meadow host distinct root-associated bacterial communities. PeerJ. 3:e804; doi:10.7717/peerj.804 [pdf]

Emerson, J., P. Keady, T. Brewer, N. Clements, E. Morgan, J. Awerbuch, S.L. Miller, N. Fierer. 2015. Impacts of flood damage on airborne bacteria and fungi in homes after the 2013 Colorado Front Range Flood. Environmental Science & Technology. 49: 2675-2684[pdf]

Aanderud, Z., S. Jones, N. Fierer, N. Fierer. 2015. Resuscitation of the rare biosphere contributes to pulses of ecosystem activity. Frontiers in Microbiology. doi: 10.3389/fmicb.2015.00024 [pdf]

Leff, J.W., P. Del Tredici, W. E. Friedman, N. Fierer. 2015. Spatial structuring of bacterial communities within individual Ginkgo biloba trees. Environmental Microbiology. 17: 2352-2361 [pdf]

McGuire, K.L., H. D’Angelo, F.Q Brearley, S.M. Gedallovich, N. Babar, N. Yang, C.M. Gillikin, R. Gradoville, C. Bateman, B.L. Turner, P. Mansor, J.W. Leff, N. Fierer. 2015. Responses of soil fungi to logging and oil palm agriculture in Southeast Asian tropical forests. Microbial Ecology. 69:733-747  [pdf]

Prober, S.M., J.W. Leff, S.T. Bates, E.T. Borer, J. Firn, W.S. Harpole, E.M. Lind, E.W. Seabloom, P.B. Adler, J.D. Bakker, E.E. Cleland, N.M. DeCrappeo, E. DeLorenze, N. Hagenah, Y. Hautier, K. S. Hofmockel, K.P. Kirkman, J.M.H. Knops, K. J. La Pierre, A.S. MacDougall, R. L. McCulley, C. E. Mitchell, A.C. Risch, M. Schuetz, C. J. Stevens, R.J. Williams, N. Fierer. 2015. Plant diversity predicts beta but not alpha diversity of soil microbes across grasslands worldwide. Ecology Letters. 18: 85-95[pdf]


Cary, S.C. and N. Fierer. 2014. The importance of sample archiving in microbial ecology. Nature Reviews Microbiology. 12: 790 [pdf]

Fierer, N., A. Barberán, D. Laughlin. 2014. Seeing the forest for the genes: Using metagenomics to infer the aggregated traits of microbial communities. Frontiers in Microbiology. doi: 10.3389/fmicb.2014.00614 [pdf]

Flores, G.E., S. Seité, J.B. Henley, R. Martin, H. Zelenkova, L. Aguilar, N. Fierer. 2014. Microbiome of affected and unaffected skin of patients with atopic dermatitis before and after emollient treatment. Journal of Drugs in Dermatology. 13: 1365-1372 [pdf]

Ramirez, K.S., J.W. Leff, A. Barberán, S.T. Bates, J. Betley, T. W. Crowther, E. F. Kelly, E. E. Oldfield, E. A. Shaw, C. Steenbock, M. A. Bradford, D. H. Wall, N. Fierer. 2014. Biogeographic patterns in belowground diversity in New York City’s Central Park are similar to those observed globally. Proceedings of the Royal Society B: Biological Sciences. 281: 20141988 [pdf]

Flores, G.E., J.G. Caporaso, J.B. Henley, J.R. Rideout, D. Domogala, J.W. Leff, Y. Vazquez-Baeza, A. Gonzalez, R. Knight, R. Dunn, N. Fierer. 2014. Temporal variability is a personalized feature of the human microbiome. Genome Biology. 15: 531 [pdf]

Fierer, N., C. Cary. 2014. Archiving: Don’t let microbial samples perish. Nature. 512: 253. doi:10.1038/512253b[pdf]

Shade, A., S.E. Jones, J.G. Caporaso, J. Handelsman, R. Knight, N. Fierer, J.A. Gilbert. 2014. Conditionally rare taxa disproportionately contribute to temporal changes in microbial diversity. mBio. doi:10.1128/mBio.01371-14.[pdf]

Forsberg, K.J., S. Patel, M.K. Gibson, C.L. Lauber, R. Knight, N. Fierer, G. Dantas. 2014. Bacterial phylogeny structures soil resistomes across habitats. Nature. [pdf]

Parfrey, L.W., W.A. Walters, C.L. Lauber, J.C. Clemente, D. Berg-Lyons, J.M. Brunelle, C.Teiling, D.P. Kodira, M. Mohiuddin, M. Driscoll, N. Fierer, J.A. Gilbert, R. Knight. 2014. Defining the diversity of microbial eukaryotic communities in the mammalian gut within the context of environmental eukaryotic diversity. Frontiers in Microbiology. doi: 10.3389/fmicb.2014.00298 [pdf]

Treseder, K.K., M.R. Maltz, B.A. Hawkins, N. Fierer, J. E. Stajich, K.L. McGuire. 2014. Evolutionary histories of soil fungi are reflected in their large-scale biogeography. Ecology Letters. doi: 10.1111/ele.12311 [pdf]

Barberán, A., E.O. Casamayor, N. Fierer. 2014. The microbial contribution to macroecology. Frontiers in Microbiology. doi: 10.3389/fmicb.2014.00203 [pdf]

Crowther, T.W., D.S. Maynard, J.W. Leff, E.E. Oldfield, R. L. McCulley, N. Fierer, M.A. Bradford. 2014. Predicting the responsiveness of soil biodiversity to deforestation: a cross-biome study. Global Change Biology. doi: 10.1111/gcb.12565 [pdf]

Barberán, A., J. Henley, N. Fierer, E.O. Casamayor. 2014. Structure, inter-annual recurrence, and global-scale connectivity of airborne microbial communities. Science of the Total Environment. 487: 187–195. [pdf]

Gray, C.M., R.K. Monson, N. Fierer. 2014. Biotic and abiotic controls on biogenic volatile organic compound fluxes from a subalpine forest floor. JGR-Biogeosciences. 119: 547-556. [pdf]

Barberán, A, K.S. Ramirez, J. W. Leff, M.A. Bradford, D. H. Wall, N. Fierer. 2014. Why are some microbes more ubiquitous than others? Predicting the habitat breadth of soil bacteria. Ecology Letters. 17: 794-802. [pdf]

Hinckley, E.S., W. Wieder, N. Fierer, E.A. Paul. 2014. Digging into the world beneath our feet: bridging across scales in the age of global change. EOS (Transactions, American Geophysical Union). 95: 96-97. [pdf]

Stopnisek, N., N. Bodenhausen, B. Frey, N. Fierer, L. Eberl, L. Weisskopf. 2014. Genus-wide acid tolerance accounts for the biogeographical distribution of soil Burkholderia populations. Environmental Microbiology. 16: 1503-1512. [pdf]

Hammer, T.J., W.O. McMillan, N. Fierer. 2014. Metamorphosis of a butterfly-associated bacterial community. PLoS One. 9(1): e86995 [pdf]

Gabor, R.S., K. Eilers, D.M. McKnight, N. Fierer, S.P. Anderson. 2014. From the litter layer to the saprolite: chemical changes in water-soluble soil organic matter and their correlation to microbial community composition. Soil Biology & Biochemistry. 68: 166-176. [pdf]


Fierer, N., J. Ladau, J.C. Clemente, J. Leff, S.M. Owens, K.S. Pollard, R. Knight, J.A. Gilbert, R.L. McCulley. 2013. Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the United States. Science. 342: 621-624. [pdf]

Neher, D., T.R. Weicht, S.T. Bates, J.W. Leff, N. Fierer. 2013. Changes in bacterial and fungal communities across compost recipes, preparation methods, and composting times. PLoS One. [pdf]

Portillo, M.C., J.W. Leff, C.L. Lauber, N. Fierer. 2013. Cell size distributions of soil bacterial and archaeal taxa. Applied & Environmental Microbiology. 79: 7610-7617. [pdf]

Bowers, R.M., N. Clements, J.B. Emerson, C. Wiedinmyer, M.P. Hannigan, N. Fierer. 2013. Seasonal variability in bacterial and fungal diversity of the near-surface atmosphere. Environmental Science & Technology. 47: 12097-12106 [pdf]

Metcalf, J.L., L.W. Parfrey, A. Gonzalez, C.L. Lauber, D. Knights, G. Ackermann, G.C. Humphrey, M.J. Gebert, W. van Treuren, D. Berg-Lyons, K. Keepers, N. Fierer, D.O. Carter, R. Knight. 2013. A microbial clock provides an accurate estimate of the postmortem interval in a mouse model system. eLife. DOI: 10.7554/eLife.01104 [pdf]

Dunn, R.R., N. Fierer, J.B. Henley, J.W. Leff, H.L. Menninger. 2013. Home life: factors structuring the bacterial diversity found within and between homes. PLoS One. 8: e64133. [pdf]

McGuire, K.L., S.D. Allison, N. Fierer, K.K. Treseder. 2013. Ectomycorrhizal-dominated boreal and tropical forests have distinct fungal communities, but analogous spatial patterns across soil horizons. PLoS One. 8:e68278 [pdf]

Jones, R.T., L. Sanchez, N. Fierer. 2013. A cross-taxon analysis of insect-associated bacterial diversity. PLoS One. 8(4): e61218. [pdf]

Bates, S.T., S. Ahrendt, H. Bik, T. Bruns, J.G. Caporaso, J. Cole, M. Dwan, N. Fierer, D. Gu, S. Houston, R. Knight, J. Leff, C. Lewis, D. McDonald, H. Nilsson, A. Porras-Alfaro, V. Robert, C. Schoch, J. Scott, L. Taylor, L. Wegener-Parfrey, J.E. Stajich. 2013. Meeting report: Fungal ITS workshop (October 2012). Standards in Genomic Sciences. 8:1 (doi:10.4056/sigs.3737409 [pdf]

Serna-Chavez, H., N. Fierer, P.M. van Bodegom. 2013. Global drivers and patterns of microbial abundance in soil. Global Ecology and Biogeography. 22: 1162-1172. [pdf]

Song, S., C. Lauber, E.K. Costello, C.A. Lozupone, G. Humphrey, D. Berg-Lyons, J.G. Caporaso, D. Knights, J.C. Clemente, S. Nakielny, J.I. Gordon, N. Fierer, R. Knight. 2013. Cohabiting family members share microbiota with one another and with their dogs. eLife. 2:e00458. DOI: 10.7554/eLife.00458 [pdf]

Shade, A., J.G. Caporaso, J. Handelsman, R. Knight, N. Fierer. 2013. A meta-analysis of changes in bacterial and archaeal communities with time. ISME Journal.7: 1493-1506 [pdf]

Lauber, C.L., K.S. Ramirez, Z. Aanderud, J. Lennon, N. Fierer. 2013. Temporal variability in soil microbial communities across land-use types. ISME Journal.7: 1641-1650 [pdf]

Leff, J.W., N. Fierer. 2013. Bacterial communities associated with the surfaces of fresh fruits and vegetables. PLoS One. 8: e59310 [pdf]

McGuire, K.L., S.G. Payne, M.I. Palmer, C.M. Gillikin, D. Keefe, S.J. Kim, S.M. Gedallovich, J. Discenza, R. Rangamannar, J.A. Kosher, A.L. Massmann, G. Orazi, A. Essene, J.W. Leff, N. Fierer. 2013. Digging the New York City skyline: Soil fungal communities in green roofs and city parks. PLoS One. 8: e58020 [pdf]


Fierer, N., J.W. Leff, B.J. Adams, U.N. Nielsen, S.T. Bates, C.L. Lauber, S. Owens, J.A. Gilbert, D.A. Wall, J.G. Caporaso. 2012. Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc. Natl. Acad. Sci. USA. 109: 21390-21395 [pdf]

Flores, G.E., S. Bates, J.G. Caporaso, C.L. Lauber, J.W. Leff, R. Knight, N. Fierer. 2013. Diversity, distribution and sources of bacteria in residential kitchens. Environmental Microbiology. 15: 588-596 [pdf]

Bates, S.T., J.C. Clemente, G.E. Flores, W.A. Walters, L.W. Parfrey, R. Knight, N. Fierer. 2013. Global biogeography of highly diverse protistan communities in soil. ISME Journal. 7:652-659 [pdf]

Bradford, M.A., N. Fierer. 2012. The biogeography of microbial communities and ecosystem processes: Implications for soil and ecosystem models. Soil Ecology and Ecosystem Services. ed. D.H. Wall, Oxford University Press, Oxford, U.K. pgs. 189-200. [pdf]

Fierer, N., J. Ladau. 2012. Predicting microbial distributions in space and time. Nature Methods. 9: 549-551. [pdf]

Flores, G.E., J.B. Henley, N. Fierer. 2012. A direct PCR approach to accelerate analyses of human-associated microbial communities. PLoS One. 7(9): e44563. [pdf]

Fierer, N., S. Ferrenberg, G.E. Flores, A. Gonzalez, J. Kueneman, T. Legg, R.C. Lynch, D. McDonald, J.R. Mihaljevic, S.P. O’Neill, M.E. Rhodes, S. Song, W.A. Walters. 2012. From animalcules to an ecosystem: application of ecological concepts to the human microbiome. Annual Review of Ecology, Evolution, and Systematics. 43:137-155 [pdf]

Craine, J.M., N. Fierer, K. McLauchlan, A. Elmore. 2013. Reduction of the temperature sensitivity of soil organic matter decomposition with sustained temperature increase. Biogeochemistry. 113: 359-368 [pdf]

Peterse, F., J. van der Meer, S. Schouten, J.W.H. Weijers, N. Fierer, R. Jackson, J.S.S. Damste. 2012. Revised calibration of the MBT-CBT paleotemperature proxy based on branched tetraether membrane lipids in suface soils. Geochemica et Cosmochemica Acta. 96: 215-229.

Hulcr, J., J.B. Henley, N.R. Rountree, N. Fierer, A. Lucky, M.D. Lowman, A.M. Latimer, R.R. Dunn. 2012. A jungle in there: bacteria in belly buttons are highly diverse, but predictable. PLoS One. 7(11): e47712 [pdf]

Aanderud, Z.T., S.E. Jones, D. Schoolmaster, N. Fierer, J.T. Lennon. 2013. Sensitivity of soil respiration and microbial communities to altered snowfall. Soil Biology & Biochemistry. 57:217-227 [pdf]

Shade, A., J.S. Read, N.D. Youngblut, N. Fierer, R. Knight, T.K. Kratz, N.R. Lottig, E.E. Roden, E.H. Stanley, J. Stombaugh, R.J. Whitaker, C.H. Wu, K.D. McMahon. 2012. Lake microbial communities are resilient after a whole-ecosystem disturbance. ISME Journal. 6: 2153-2167. [pdf]

Portillo, M.C., S.P. Anderson, N. Fierer. 2012. Temporal variability in the diversity and composition of stream bacterioplankton communities. Environmental Microbiology. 14: 2417-2428 [pdf]

Hulcr, J., N.R. Rountree, S.E. Diamond, L.L. Stelinski, N. Fierer, R.R. Dunn. 2012. Mycangia of ambrosia beetles host specialized communities of bacteria. Microbial Ecology. 64: 784-793 [pdf]

Knight, R., J. Jansson, D. Field, N. Fierer, N. Desai, J. Fuhrman, P. Hugenholtz, F. Meyer, R. Stevens, M. Bailey, J.I. Gordon, G. Kowalchuk, J.A. Gilbert. 2012. Unlocking the potential of metagenomics through replicated experimental design. Nature Biotechnology. 30: 513-520. [pdf]

Eilers, K.G., S. Debenport, S. Anderson. N. Fierer. 2012. Digging deeper to find unique microbial communities: the strong effect of depth on the structure of bacterial and archaeal communities. Soil Biology & Biochemistry. 50: 58-65. [pdf]

Caporaso, J.G., C.L. Lauber, W.A. Walters, D. Berg-Lyons, J. Huntley, N. Fierer, J. Betley, L. Fraser, M. Bauer, N. Gormley, G. Smith, R. Knight. 2012. Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME Journal. [pdf]

McGuire, K.L., N. Fierer, B.L. Turner, C. Bateman, K.K. Treseder. In Press. Fungal community composition in Neotropical rain forests: the influence of tree diversity and precipitation. Microbial Ecology.DOI: 10.1007/s00248-011-9973-x [pdf]

Ramirez, K.S., J.M. Craine, N. Fierer. 2012. Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes. Global Change Biology. doi: 10.1111/j.1365-2486.2012.02639.x [pdf]

Bowers, R.M., I.B. McCubbin, A.G. Hallar, N. Fierer. 2012. Seasonal variability in airborne bacterial communities at a high-elevation site in the Colorado Rocky Mountains. Atmospheric Environment. 50:41-49. [pdf]

Barberán, A., S.T. Bates, E.O. Casamayor, N. Fierer. 2012. Using network analysis to explore co-occurrence patterns in soil microbial communities. ISME Journal. 6: 343-351. [pdf]

Fierer, N., C.L. Lauber, K.S. Ramirez, J. Zaneveld, M.A. Bradford, R. Knight. 2012. Comparative metagenomic, phylogenetic, and physiological analyses of soil microbial communities across nitrogen gradients. ISME Journal.  doi:10.1038/ismej.2011.159 [pdf]

McKenzie, V.J., R. Bowers, N. Fierer, R. Knight, C. Lauber. 2012. Co-habiting amphibian species harbor unique skin bacterial communities in wild populations. ISME Journal. 6: 588-596. [pdf]

Bates, S.T., W.A. Walters, R. Knight, N. Fierer. 2012. A pyrosequencing survey of lichen associated eukaryotes. The Lichenologist. 44: 137-146. [pdf]

Gray, C.M., N. Fierer. 2012. Impacts of nitrogen fertilization on volatile organic compound emissions from decomposing plant litter. Global Change Biology. 18: 739-748 [pdf]


Gonzalez, A., J. Stombaugh, C.L. Lauber, N. Fierer, R. Knight. 2011. SitePainter: A tool for exploring biogeographical patterns. Bioinformatics. doi: 10.1093/bioinformatics/btr685

Flores, G.E., S.T. Bates, D. Knights, C.L. Lauber, J. Stombaugh, R. Knight, N. Fierer. 2011. Microbial biogeography of public restroom surfaces. PLoS One. 6: e28132. [pdf]

Jones, R.T., A. Bressan, A.M. Greenwell, N. Fierer. 2011. Bacterial communities of two parthenogenetic aphid species co-colonizing two host plants across the Hawaii Islands. Applied and Environmental Microbiology. 77:8345-8349 [pdf]

Bowers, R.M., A.P. Sullivan, E.K. Costello, J.L. Collett, R. Knight, N. Fierer. 2011. Sources of bacteria in outdoor air across cities in the midwestern United States. Applied & Environmental Microbiology. 77:6350-6356. [pdf]

Bergmann, G.T., S.T. Bates, K.G. Eilers, C.L. Lauber, J.G. Caporaso, W.A. Walters, R. Knight. N. Fierer. 2011. The under-recognized dominance of Verrucomicrobia in soil bacterial communities. Soil Biology & Biochemistry. 43: 1450-1455 [pdf]

Caporaso, J.G., C.L. Lauber, E.K. Costello, D. Berg-Lyons, A. Gonzalez, J. Stombaugh, D. Knights, P. Gajer, J. Ravel, N. Fierer, J.I. Gordon, R. Knight. 2011. Moving pictures of the human microbiome. Genome Biology. 12: R50. [pdf]

Keiser, A.D., M.S. Strickland, N. Fierer, M.A. Bradford. 2011. The effect of resource history on the functioning of soil microbial communities is maintained across time. Biogeosciences. 8: 1477-1486. [pdf]

Bradford, M.A., N. Fierer. In Press.The biogeography of microbial communities and ecosystem processes: Implications for soil and ecosystem models. Oxford Handbook of Soil Ecology and Ecosystem Services. eds.: D. Wall, D. Strong, V. Behan-Pelletier. [pdf]

Fierer, N., J. Lennon. 2011. The generation and maintenance of diversity in microbial communities. American Journal of Botany. 98: 439-448 (special issue – invited review). [pdf]

Bates, S., G. Cropsey, G. Caporaso, R. Knight, N. Fierer. 2011. Bacterial communities associated with the lichen symbiosis. Applied Environ. Microbiol. 77: 1309-1314 [pdf]

Fierer, N., C.M. McCain, P. Meir, M. Zimmermann, J.M. Rapp, M.R. Silman, R. Knight. 2011. Microbial elevational diversity does not follow the biogeographical trends of plants and animals. Ecology. 92: 797-804. [pdf]

Walters, W.A., J.G. Caporaso, C.L. Lauber, D. Berg-Lyons, N. Fierer, R. Knight. 2011. PrimerProspector: de novo design and taxonomic analysis of barcoded PCR primers. Bioinformatics. 27(8): 1159-1161 [pdf]

Bowers, R.M., S. McLetchie, R. Knight, N. Fierer. 2011. Spatial variability in airborne bacterial communities across land-use types and their relationship to potential sources. ISME Journal. 5: 601-612 [pdf]


Craine, J.M., K. McLauchlan, N. Fierer. 2010. Widespread coupling between the rate and temperature sensitivity of organic matter decay. Nature Geosciences. doi:10.1038/NGEO1009 [pdf]

Bates, S., J.G. Caporaso, W.A. Walters, R. Knight, N. Fierer. 2010. Examining the global distribution of dominant archaeal populations in soil. ISME Journal. doi:10.1038/ismej.2010.171 [pdf]

Ramirez, K.S., C.L. Lauber, R. Knight, M. A. Bradford, N. Fierer. 2010. Consistent effects of nitrogen fertilization on the phylogenetic composition of soil bacterial communities in contrasting systems. Ecology. 91: 3463-3470. [pdf]

Kuczynski, J., Z. Liu, C. Lozupone, D. McDonald, N. Fierer, R. Knight. 2010. Microbial community resemblance methods differ in their ability to detect biologically relevant patterns. Nature Methods. 7: 813-819. [pdf]

Ramirez, K.S., J.M. Craine, N. Fierer. 2010. Nitrogen fertilization inhibits soil microbial respiration regardless of the form of nitrogen applied. Soil Biology amp; Biochemistry. 42: 2336-2338. [pdf]

Rousk, J., E. Bååth, P.C. Brookes, C.L. Lauber, C. Lozupone, J.G. Caporaso, R. Knight, N. Fierer. 2010.  Soil bacterial and fungal communities across a pH gradient in an arable soil. ISME Journal. doi:10.1038/ismej.2010.58 [pdf]

Nemergut, D.R., E.K. Costello, M. Hamady, C. Lozupone, L. Jiang, L. Stanish, S. Schmidt, N. Fierer, C. Cleveland, A. Townsend, R. Knight. 2010. Global patterns in the biogeography of bacterial taxa. Environmental Microbiology. 13: 135-144. [pdf]

Fierer, N., D.R. Nemergut, R. Knight, J.M. Craine. 2010. Changes through time: integrating microorganisms into the study of succession. Research in Microbiology. 161: 635-642. [pdf]

Dominguez-Bello, M.G., E.K. Costello, M. Contreras, M. Magris, G. Hidalgo, N. Fierer, R. Knight. 2010. Delivery mode shapes the acquisition and structure of the founder microbiota across multiple body habitats in newborns. Proc. Natl. Acad. Sci. USA. 107:11971-11975. [pdf]

Caporaso, J.G., C.L. Lauber, W.A. Walters, D. Berg-Lyons, C.A. Lozupone, P. Turnbaugh, N. Fierer, R. Knight. 2010. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc. Natl. Acad. Sci. USA. 108: 4516-4522. [pdf]

Chu, H., N. Fierer, C.L. Lauber, J.G. Caporaso, R. Knight, P. Grogan. 2010. Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes. Environmental Microbiology. DOI: 0.1111/j.1462-2920.2010.02277.x  [pdf]

Caporaso, J.G., J. Kuczynski, J. Stombaugh, K. Bittinger, F. D. Bushman, E. K. Costello, N. Fierer, A. Gonzalez Peña, J. K. Goodrich, J. I. Gordon, G. A. Huttley, S. T. Kelley, D. Knights, J. E. Koenig, R. E. Ley, C.A. Lozupone, D. McDonald, B. D. Muegge, M. Pirrung, J. Reeder, J. R. Sevinsky, P. J. Turnbaugh, W. van Treuren, W.A. Walters, J. Widmann, T. Yatsunenko, J. Zaneveld and R. Knight. 2010. QIIME allows integration and analysis of high-throughput community sequencing data. Nature Methods. 7: 335-336.

Redford, A.*, R. Bowers*, R. Knight, Y. Linhart, N. Fierer. 2010. The ecology of the phyllosphere: geographic and phylogenetic variability in the distribution of bacteria on tree leaves. Environmental Microbiology. DOI: 10.1111/j.1462-2920.2010.02258.x [pdf]

Gray, C.M.*, R.K. Monson, N. Fierer. 2010. Emissions of volatile organic compounds during the decomposition of plant litter. JGR-Biogeosciences. doi:10.1029/2010JG001291 [pdf]

Meier, C.L., J. Rapp, R.M. Bowers, M. Silman, N. Fierer. 2010. Fungal growth on a common wood substrate across a tropical elevation gradient: temperature sensitivity, community composition, and potential for above-ground decomposition. Soil Biology & Biochemistry.42:11083-1090. [pdf]

Lauber, C.L., N. Zhou, R. Knight, J. Gordon, N. Fierer. 2010. Effect of storage conditions on the assessment of bacterial community structure in soil and human-associated samples. FEMS Microbiology Letters.. DOI: 10.1111/j.1574-6968.2010.01965.x [pdf]

Fisk, M.C., R.D. Yanai. N. Fierer. 2010. A molecular approach to quantify root community composition in a northern hardwood forest: testing effects of root diameter and species. Canadian Journal of Forest Research. 40: 836-841. [pdf]

Kuczynski, J., E.K. Costello, D.R. Nemergut, J. Zaneveld, C.L. Lauber, D. Knights, O. Koren, N. Fierer, S.T. Kelley, R.E. Ley, J.I. Gordon, R. Knight. 2010. Direct sequencing of the human microbiome readily reveals community differences. Genome Biology. doi:10.1186/gb-2010-11-5-210 [pdf]

Eilers, K.G., C.L. Lauber, R. Knight, N. Fierer. 2010. Shifts in bacterial community structure associated with inputs of low molecular weight carbon compounds to soil. Soil Biology & Biochemistry. 42: 896-903. [pdf]

Hofmockel, K.S., N. Fierer, B.P. Colman, R.B. Jackson. 2010. Amino acid abundance and proteolytic potential in North American soils. Oecologia. doi: 10.1007/s00442-010-1601-9 [pdf]

Ramirez, K., C.L. Lauber, N. Fierer. 2010. Microbial consumption and production of volatile organic compounds at the soil-litter interface. Biogeochemistry. 99:97-107. [pdf]

Fierer, N., C.L. Lauber, N. Zhou, D. McDonald, E.K. Costello, R. Knight. 2010. Forensic identification using skin bacterial communities. Proc. Natl. Acad. Sci. USA. 107: 6477-6481.[pdf]

Craine, J.M., R. Spurr, K. McLauchlan, N. Fierer. 2010. Landscape-level variation in the temperature sensitivity of soil organic carbon decomposition. Soil Biology & Biochemistry. 42: 373-375. [pdf]

Strickland, M.S., M.A. Callaham, C.A. Davies, C.L. Lauber, K. Ramirez, D.D. Richter, N. Fierer, M.A. Bradford. 2010. Rates of in situ carbon mineralization in relation to land-use, microbial community and edaphic characteristics. Soil Biology & Biochemistry. 42:260-269.


Costello, E.K., C.L. Lauber, M. Hamady, N. Fierer, J.I. Gordon, R. Knight. 2009. Bacterial variation in human body habitats across space and time. Science. 326: 1694-1697. [pdf]

Fierer, N., M.S. Strickland, D. Liptzin, M.A. Bradford, C.C. Cleveland. 2009. Global patterns in belowground communities. Ecology Letters. 12: 1238-1249. [pdf]

Wiedinmyer, C., R. Bowers, N. Fierer, E. Horanyi, M. Hannigan, A.G. Hallar, I. McCubbin, K. Baustian.2009. The contribution of biological particles to observed particulate organic carbon at a remote high altitude site. Atmospheric Environment. 43: 4278-4282. [pdf]

Bowers, R., C.L. Lauber, M. Hamady, R. Knight, C. Wiedinmyer, R. Fall, G. Hallar, N. Fierer. 2009. Characterization of airborne microbial communities at a high elevation site and their potential to act as atmospheric ice nuclei. Applied and Environmental Microbiology. 75: 5121-5130. [pdf]

Fierer, N., A.S. Grandy, J. Six, E.A. Paul. 2009. Searching for unifying principles in soil ecology. Soil Biology & Biochemistry. 41: 2249-2256.[pdf]

Lauber, C.L., R. Knight, M. Hamady, N. Fierer. 2009. Soil pH as a predictor of soil bacterial community structure at the continental scale: a pyrosequencing-based assessment. Applied and Environmental Microbiology. 75: 5111-5120 [pdf]

Hamilton, H.C., M.S. Strickland, K. Wickings, M.A. Bradford, N. Fierer. 2009. Surveying soil faunal communities using a direct molecular approach. Soil Biology & Biochemistry. 41:1311-1314. [pdf]

Strickland, M., C.L.  Lauber, N. Fierer , M.A. Bradford. 2009. Testing the functional significance of microbial community composition. Ecology. 90: 441-451 [pdf]

Fierer, N., K. Carney, M.C. Horner-Devine, J.P. Megonigal. 2009. The biogeography of ammonia-oxidizing bacterial communities in soil. Microbial Ecology. DOI 10.1007/s00248-009-9517-9 [pdf]

Grandy, A.S., M.S. Strickland, C.L. Lauber, M.A. Bradford, N. Fierer. 2009. The influence of microbial communities, management, and soil texture on soil organic matter chemistry. Geoderma. 150: 278-286. [pdf]

Redford, A.J., N. Fierer. 2009. Bacterial succession on the leaf surface: a novel system for studying successional dynamics. Microbial Ecology.58: 189-198.[pdf]

Jones, R.T., M.S. Robeson, C.L.. Lauber, M. Hamady, R. Knight, N. Fierer. 2009. A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses. The ISME Journal. doi:10.1038/ismej.2008.127 [pdf]

Colman, B.P., N. Fierer, J.P. Schimel. 2008. Abiotic nitrate incorporation, anaerobic microsites, and the ferrous wheel. Biogeochemistry.DOI 10.1007/s10533-008-9281-9 [pdf]

Strickland, M., E. Osbourn, C.L. Lauber, N. Fierer, M.A. Bradford. 2009. Litter quality is in the eye of the beholder: initial decomposition rates as a function of inoculum characteristics. Functional Ecology. doi: 10.1111/j.1365-2435.2008.01515.x [pdf]


Fierer, N. M. Hamady, C.L. Lauber, R. Knight. 2008. The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc. Natl. Acad. Sci, USA. 105: 17994-17999. [pdf]

Lauber, C.L., M.S. Strickland, M.A. Bradford, N. Fierer. 2008. The influence of soil properties on the structure of bacterial and fungal communities across land-use types. Soil Biology & Biochemistry. 40: 2407-2415. [pdf]

Nemergut,D.R., A.R. Townsend, S.R. Sattin, K.R. Freeman, N. Fierer, J.C. Neff, W.D. Bowman, C.W. Schadt, M. N. Weintraub, S.K. Schmidt.2008. The effects of chronic nitrogen fertilization on alpine tundra soil microbial communities: implications for carbon and nitrogen cycling. Environmental Microbiology.10: 3093-3105 [pdf]

M.A. Bradford, N. Fierer, R.B. Jackson, T.R. Maddox, J.F. Reynolds. 2008. Nonlinear root-derived carbon sequestration across a gradient of nitrogen and phosphorous deposition in experimental mesocosms. Global Change Biology. 14: 1113-1124. [pdf]

J.W. Leff, N. Fierer. 2008. Volatile organic compound (VOC) emissions from soil and litter samples. Soil Biology & Biochemistry. 40: 1629-1636.[pdf]

M.A. Bradford, N. Fierer, J.F. Reynolds. 2008. Soil carbon stocks in experimental mesocosms are dependent on the rate of labile carbon, nitrogen and phosphorous inputs to soils. Functional Ecology. doi:10.1111/j.1365-2435.2008.01404.x [pdf]

N. Fierer  2008. Microbial biogeography: patterns in microbial diversity across space and time. In: Accessing Uncultivated Microorganisms: from the Environment to Organisms and Genomes and Back. K. Zengler (editor). ASM Press, Washington, DC. pgs. 95-115. [pdf]

N. Fierer, Z. Liu, M. Rodríguez-Hernández, R. Knight, M. Henn, M. T. Hernandez. 2008. Short-term temporal variability in airborne bacterial and fungal populations. Applied & Environmental Microbiology. 74:200-207. [pdf]


N. Fierer, M. Breitbart, J. Nulton, P. Salamon, C. Lozupone, R. Jones, M. Robeson, R. Edwards, B. Felts, S. Rayhawk, R. Knight, F. Rohwer, R. B. Jackson. 2007. Metagenomic and small-subunit RNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Applied & Environmental Microbiology. 73: 7059-7066. [pdf]

N. Fierer, J. Morse, S. Berthrong, E.S. Bernhardt, R.B. Jackson. 2007. Environmental controls on the landscape-scale biogeography of stream bacterial communities. Ecology. 88: 2162-2173. [pdf]

N. Fierer. 2007. Tilting at windmills: A response to a recent critique of terminal restriction fragment length polymorphism (T-RFLP) data [letter to the editor]. Applied & Environmental Microbiology. 73: 8041-8042. [pdf]

J.M. Craine, C. Morrow. N. Fierer. 2007. Microbial N limitation increases decomposition. Ecology. 88: (8): 2105-2113. [pdf]

N. Fierer. 2007. Finding a place for microorganisms in the field of ecology [book review] Ecology 88 (5): 1336-1337 [pdf]

R.B. Jackson, N. Fierer, J.P. Schimel. 2007. New directions in microbial ecology. Ecology 88 (6): 1343-1344.

N. Fierer, M.A. Bradford, R.B. Jackson. 2007. Toward an ecological classification of soil bacteria. Ecology 88 (6): 1354-1364 [pdf]

B.P. Colman, N. Fierer, J.P. Schimel. 2007. Abiotic nitrate incorporation in soil: is it real? Biogeochemistry. 84: 161-169 [pdf]

2006 and earlier

N. Fierer, B.P. Colman, J.P. Schimel, R.B. Jackson. 2006. Predicting the temperature dependence of microbial respiration in soil: A continental-scale analysis. Global Biogeochemical Cycles. 20, GB3026, doi: 10.1029/2005GB002644. [pdf]

N. Fierer, R.B. Jackson. 2006. The diversity and biogeography of soil bacterial communities. PNAS. 103 (3): 626-631. [pdf]

E.J. Gabet, N. Fierer, O.A. Chadwick. 2005. Prediction of sediment-bound nutrient delivery from semi-arid California watersheds. J. Geophysical Research. 110, G02001, doi: 10.1029/2005JG000032.

N. Fierer, O.A. Chadwick, S.E. Trumbore. 2005. Production of CO2 in soil profiles of a California annual grassland. Ecosystems. 8: 412-429.[pdf]

N. Fierer, J.A. Jackson, R. Vilgalys, R.B. Jackson. 2005. Assessment of soil microbial community structure by use of taxon-specific quantitative PCR assays. Applied & Environmental Microbiology. 71 (7): 4117-4120. [pdf]

N. Fierer, J. Craine, K. McLauchlan, J.P. Schimel. 2005. Litter quality and the temperature sensitivity of  decomposition. Ecology. 86 (2): 320-326. [pdf]

P.A. Holden, N. Fierer. 2005. Microbial processes in the vadose zone. Vadose Zone Journal. 4: 1-21. [pdf]

J.P. Schimel, J. Bennett, N. Fierer. 2005. Microbial community composition and soil N cycling: Is there really a connection? In: Biological Diversity and Function in Soils, R.D. Bardgett, D.W. Hopkins, M.B. Usher (Editors). Cambridge University Press, Cambridge, UK. pp. 171-188.

P.A. Holden, N. Fierer. 2004. Vadose Zone Microbial Ecology. In: Encyclopedia of Soils in the Environment, D. Hillel (Editor). p 216-224. Elsevier Press, Oxford, UK.

N. Fierer, J.P. Schimel, P.A. Holden. 2003. Controls on microbial CO2 production in surface and subsurface soil horizons of a California grassland. Global Change Biology. 9: 1322-1332. [pdf]

N. Fierer, J.P. Schimel. 2003. A proposed mechanism for the pulse in CO2 production commonly observed following the rapid rewetting of a dry soil. Soil Science Society of America Journal. 67: 798-805. [pdf]

N. Fierer, J.P. Schimel, P.A. Holden. 2003. Variation in microbial community composition through two soil depth profiles. Soil Biology & Biochemistry. 35: 167-176. [pdf]

N. Fierer, J.P. Schimel, P.A. Holden. 2003.  Influence of drying-rewetting frequency on soil bacterial community structure. Microbial Ecology. 45: 63-71. [pdf]

N. Fierer, E.J. Gabet. 2002. Carbon and nitrogen losses by surface runoff following changes in vegetation. Journal of Environmental Quality. 31: 1207-1213. [pdf]

N. Fierer, J.P. Schimel. 2002. Effects of drying-rewetting frequency on soil carbon and nitrogen transformations. Soil Biology & Biochemistry. 34: 777-787. [pdf]

N. Fierer, J.P. Schimel, R.G. Cates, J. Zou. 2001. The influence of balsam poplar tannin fractions on carbon and nitrogen dynamics in Alaskan taiga floodplain soils. Soil Biology and Biochemistry. 33: 1827-1839. [pdf]