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Thesis

Meredith, L. K. (2013).��Field measurement of the fate of atmospheric H₂ in a forest environment : from canopy to soil [Massachusetts Institute of Technology].��

Preprints

Mitchison-Field, L. M. Y., Vargas-Muñiz, J. M., Stormo, B. M., Vogt, E. J. D., Van Dierdonck, S., Ehrlich, C., Lew, D. J., Field, C. M., & Gladfelter, A. S. (2019). Unconventional cell division cycles from marine-derived yeasts.��BioRxiv, 657254.��

Fiebig, A. (2019). The role of Caulobacter cell surface structures in colonization of the air-liquid interface.��BioRxiv, 524058.��

Journal articles

Yang, T., Teske, A., Ambrose, W., Salman-Carvalho, V., Bagnell, R., & Nielsen, L. P. (2019). Intracellular calcite and sulfur dynamics of Achromatium cells observed in a lab-based enrichment and aerobic incubation experiment.��Antonie van Leeuwenhoek,��112(2), 263–274.��

Mitchison-Field, L. M. Y., Vargas-Muñiz, J. M., Stormo, B. M., Vogt, E. J. D., Van Dierdonck, S., Pelletier, J. F., Ehrlich, C., Lew, D. J., Field, C. M., & Gladfelter, A. S. (2019). Unconventional Cell Division Cycles from Marine-Derived Yeasts.��Current Biology,��29(20), 3439-3456.e5.��

Fiebig, A. (2019). Role of Caulobacter Cell Surface Structures in Colonization of the Air-Liquid Interface.��Journal of Bacteriology,��201(18).��

Guzman, M. S., Kuse, J. C., Santiago-Merced, N., & Bose, A. (2019). Draft Genome Sequences of Two Closely Related Marichromatium Isolates, Photosynthetic Gammaproteobacteria from Marine Ecosystems.��Microbiology Resource Announcements,��8(2).��

Kee, H. L., Mikheyeva, I. V., Mickol, R. L., Dawson, S. C., Newman, D. K., & Leadbetter, J. R. (2019). Draft Genome Sequence of the Iridescent Marine Bacterium Tenacibaculum discolor Strain IMLK18.��Microbiology Resource Announcements,��8(5).��

Perry, E. K., & Newman, D. K. (2019). The transcription factors ActR and SoxR differentially affect the phenazine tolerance of Agrobacterium tumefaciens.��Molecular Microbiology, mmi.14263.��

Perry, E. K., & Newman, D. K. (2019). The transcription factors ActR and SoxR differentially affect the phenazine tolerance of Agrobacterium tumefaciens.��Molecular Microbiology, mmi.14263.��

Huang, Y. Y., Martínez-del Campo, A., & Balskus, E. P. (2018). Anaerobic 4-hydroxyproline utilization: Discovery of a new glycyl radical enzyme in the human gut microbiome uncovers a widespread microbial metabolic activity.��Gut Microbes, 1–16.��

Wilbanks, E. G., Salman-Carvalho, V., Jaekel, U., Humphrey, P. T., Eisen, J. A., Buckley, D. H., & Zinder, S. H. (2017). The Green Berry Consortia of the Sippewissett Salt Marsh: Millimeter-Sized Aggregates of Diazotrophic Unicellular Cyanobacteria.��Frontiers in Microbiology,��8.��

Guzman, M. S., McGinley, B., Santiago-Merced, N., Gupta, D., & Bose, A. (2017). Draft Genome Sequences of Three Closely Related Isolates of the Purple Nonsulfur Bacterium Rhodovulum sulfidophilum.��Genome Announcements,��5(11).��

Alexiev, A., Krusor, M. L., Jospin, G., Lang, J. M., Eisen, J. A., & Coil, D. A. (2016). Draft Genome Sequence of Cobetia sp. UCD-24C, Isolated from Roots and Leaves of the Seagrass Zostera marina.��Genome Announcements,��4(2).��

Liu, X.-L., De Santiago Torio, A., Bosak, T., & Summons, R. E. (2016). Novel archaeal tetraether lipids with a cyclohexyl ring identified in Fayetteville Green Lake, NY, and other sulfidic lacustrine settings.��Rapid Communications in Mass Spectrometry,��30(10), 1197–1205.��

Alexiev, A., Krusor, M. L., Jospin, G., Lang, J. M., Eisen, J. A., & Coil, D. A. (2016). Draft Genome Sequences of Two Pseudoalteromonas Strains Isolated from Roots and Leaf Blades of the Seagrass Zostera marina.��Genome Announcements,��4(1).��

Thauer, R. K. (2015). My Lifelong Passion for Biochemistry and Anaerobic Microorganisms.��Annual Review of Microbiology,��69(1), 1–30.��

Pepe-Ranney, C., & Hall, E. K. (2015). The effect of carbon subsidies on marine planktonic niche partitioning and recruitment during biofilm assembly.��Frontiers in Microbiology,��6.��

Rowe, A. R., Chellamuthu, P., Lam, B., Okamoto, A., & Nealson, K. H. (2015). Marine sediments microbes capable of electrode oxidation as a surrogate for lithotrophic insoluble substrate metabolism.��Frontiers in Microbiology,��5.��

Mariita, R. M., Bhatnagar, S., Hanselmann, K., Hossain, M. J., Korlach, J., Boitano, M., Roberts, R. J., Liles, M. R., Moss, A. G., Leadbetter, J. R., Newman, D. K., & Dawson, S. C. (2015). Complete Genome Sequence of Curtobacterium sp. Strain MR_MD2014, Isolated from Topsoil in Woods Hole, Massachusetts.��Genome Announcements,��3(6).��

Mariita, R. M., Bhatnagar, S., Hanselmann, K., Hossain, M. J., Korlach, J., Boitano, M., Roberts, R. J., Liles, M. R., Moss, A. G., Leadbetter, J. R., Newman, D. K., & Dawson, S. C. (2015). Complete Genome Sequence of Streptomyces sp. Strain CCM_MD2014, Isolated from Topsoil in Woods Hole, Massachusetts.��Genome Announcements,��3(6).��

Jones, D. S., Bailey, J. V., & Flood, B. E. (2015). Sedimenticola thiotaurini sp. nov., a sulfur-oxidizing bacterium isolated from salt marsh sediments, and emended descriptions of the genus Sedimenticola and Sedimenticola selenatireducens.��International Journal of Systematic and Evolutionary Microbiology,��65(8), 2522–2530.��

Kleindienst, S., Seidel, M., Ziervogel, K., Grim, S., Loftis, K., Harrison, S., Malkin, S. Y., Perkins, M. J., Field, J., Sogin, M. L., Dittmar, T., Passow, U., Medeiros, P. M., & Joye, S. B. (2015). Chemical dispersants can suppress the activity of natural oil-degrading microorganisms.��Proceedings of the National Academy of Sciences,��112(48), 14900–14905.��

Salman, V., Yang, T., Berben, T., Klein, F., Angert, E., & Teske, A. (2015). Calcite-accumulating large sulfur bacteria of the genus Achromatium in Sippewissett Salt Marsh.��The ISME Journal,��9(11), 2503–2514.��

Bräuer, S. L., Vuono, D., Carmichael, M. J., Pepe-Ranney, C., Strom, A., Rabinowitz, E., Buckley, D. H., & Zinder, S. H. (2014). Microbial Sequencing Analyses Suggest the Presence of a Fecal Veneer on Indoor Climbing Wall Holds.��Current Microbiology.��

Wilbanks, E. G., Jaekel, U., Salman, V., Humphrey, P. T., Eisen, J. A., Faccioti, M. T., Buckley, D. H., Zinder, S. H., Druschel, G. K., Fike, D. A., & Orphan, V. J. (2014). Microscale sulfur cycling in the phototrophic pink berry consortia of the sippewissett salt marsh.��Environmental Microbiology,��16(11), 3398–3415.��

Meredith, L. K., Rao, D., Bosak, T., Klepac-Ceraj, V., Tada, K. R., Hansel, C. M., Ono, S., & Prinn, R. G. (2014). Consumption of atmospheric hydrogen during the life cycle of soil-dwelling actinobacteria.��Environmental Microbiology Reports,��6(3), 226–238.��

Blasiak, L. C., Zinder, S. H., Buckley, D. H., & Hill, R. T. (2014). Bacterial diversity associated with the tunic of the model chordate Ciona intestinalis.��The ISME Journal,��8(2), 309–320.��

McNulty, N. P., Wu, M., Erickson, A. R., Pan, C., Erickson, B. K., Martens, E. C., Pudlo, N. A., Muegge, B. D., Henrissat, B., Hettich, R. L., & Gordon, J. I. (2013). Effects of Diet on Resource Utilization by a Model Human Gut Microbiota Containing Bacteroides cellulosilyticus WH2, a Symbiont with an Extensive Glycobiome.��PLoS Biology,��11(8).��

Armitage, D. W., Gallagher, K. L., Youngblut, N. D., Buckley, D. H., & Zinder, S. H. (2012). Millimeter-scale patterns of phylogenetic and trait diversity in a salt marsh microbial mat.��Frontiers in Microbiology,��3(AUG).��

Adebusoye, S. A., & Miletto, M. (2011). Characterization of multiple chlorobenzoic acid-degrading organisms from pristine and contaminated systems: Mineralization of 2,4-dichlorobenzoic acid.��Bioresource Technology,��102(3), 3041–3048.��

Shapiro, O. H., Hatzenpichler, R., Buckley, D. H., Zinder, S. H., & Orphan, V. J. (2011). Multicellular photo-magnetotactic bacteria.��Environmental Microbiology Reports,��3(2), 233–238.��

Burgin, A. J., & Hamilton, S. K. (2008). NO(3)(-)-driven SO(4)(2-) production in freshwater ecosystems: Implications for N and S cycling.��ECOSYSTEMS,��11(6), 908–922.��

Breznak, J. A., & Warnecke, F. (2008). Spirochaeta cellobiosiphila sp. nov., a facultatively anaerobic, marine spirochaete.��INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY,��58(12), 2762–2768.��

Lennon, J. T. (2007). Diversity and Metabolism of Marine Bacteria Cultivated on Dissolved DNA.��Applied and Environmental Microbiology,��73(9), 2799–2805.��

Saltikov, C. W., Cifuentes, A., Venkateswaran, K., & Newman, D. K. (2003). The ars Detoxification System Is Advantageous but Not Required for As(V) Respiration by the Genetically Tractable Shewanella Species Strain ANA-3.��Applied and Environmental Microbiology,��69(5), 2800–2809.��

Whittle, G., Whitehead, T. R., Hamburger, N., Shoemaker, N. B., Cotta, M. A., & Salyers, A. A. (2003). Identification of a New Ribosomal Protection Type of Tetracycline Resistance Gene, tet(36), from Swine Manure Pits.��Applied and Environmental Microbiology,��69(7), 4151–4158.��

Zaar, A., Fuchs, G., Golecki, J. R., & Overmann, J. (2003). A new purple sulfur bacterium isolated from a littoral microbial mat, Thiorhodococcus drewsii sp. nov.��Archives of Microbiology,��179(3), 174–183.��

Rajagopal, S., Eis, N., & Nickerson, K. W. (2003). Eight Gram-negative bacteria are 10 000 times more sensitive to cationic detergents than to anionic detergents.��Canadian Journal of Microbiology,��49(12), 775–779.��

Niggemyer, A., Spring, S., Stackebrandt, E., & Rosenzweig, R. F. (2001). Isolation and Characterization of a Novel As(V)-Reducing Bacterium: Implications for Arsenic Mobilization and the Genus Desulfitobacterium.��Applied and Environmental Microbiology,��67(12), 5568–5580.��

Whittle, G., Hund, B. D., Shoemaker, N. B., & Salyers, A. A. (2001). Characterization of the 13-KilobaseermF Region of the BacteroidesConjugative Transposon CTnDOT.��Applied and Environmental Microbiology,��67(8), 3488–3495.��

Shoemaker, N. B., Vlamakis, H., Hayes, K., & Salyers, A. A. (2001). Evidence for Extensive Resistance Gene Transfer among Bacteroides spp. and among Bacteroides and Other Genera in the Human Colon.��Applied and Environmental Microbiology,��67(2), 561–568.��

Whittle, G., Hund, B. D., Shoemaker, N. B., & Salyers, A. A. (2001). Characterization of the 13-KilobaseermF Region of the BacteroidesConjugative Transposon CTnDOT.��Applied and Environmental Microbiology,��67(8), 3488 LP – 3495.��

Barbieri, E., Paster, B. J., Hughes, D., Zurek, L., Moser, D. P., Teske, A., & Sogin, M. L. (2001). Phylogenetic characterization of epibiotic bacteria in the accessory nidamental gland and egg capsules of the squid Loligo pealei (Cephalopoda: Loliginidae).��Environmental Microbiology,��3(3), 151–167.��

Christner, B. C., Mosley‐Thompson, E., Thompson, L. G., & Reeve, J. N. (2001). Isolation of bacteria and 16S rDNAs from Lake Vostok accretion ice.��Environmental Microbiology,��3(9), 570–577.��

Spear, J. R., Figueroa, L. A., & Honeyman, B. D. (2000). Modeling Reduction of Uranium U(VI) under Variable Sulfate Concentrations by Sulfate-Reducing Bacteria.��Applied and Environmental Microbiology,��66(9), 3711–3721.��

Plugge, C. M., Zoetendal, E. G., & Stams, A. J. (2000). Caloramator coolhaasii sp. nov., a glutamate-degrading, moderately thermophilic anaerobe.��International Journal of Systematic and Evolutionary Microbiology,��50(3), 1155–1162.��

Glaeser, J., & Overmann, J. (1999). Selective enrichment and characterization of Roseospirillum parvum, gen. nov. and sp. nov., a new purple nonsulfur bacterium with unusual light absorption properties.��Archives of Microbiology,��171(6), 405–416.��

Salyers, A. (1999). Microbial diversity – the past and future of microbiology. In recognition of the centennial of the American Society for Microbiology.��Environmental Microbiology,��1(1), 5–7.��

Leonardo, M. R., Moser, D. P., Barbieri, E., Brantner, C. A., MacGregor, B. J., Paster, B. J., Stackebrandt, E., & Nealson, K. H. (1999). Shewanella pealeana sp. nov., a member of the microbial community associated with the accessory nidamental gland of the squid Loligo pealei.��International Journal of Systematic and Evolutionary Microbiology,��49(4), 1341–1351.��

Vetriani, C., Reysenbach, A.-L., & Doré, J. (1998). Recovery and phylogenetic analysis of archaeal rRNA sequences from continental shelf sediments.��FEMS Microbiology Letters,��161(1), 83–88.��

Sackett, M. J., Armitage, J. P., Sherwood, E. E., & Pitta, T. P. (1997). Photoresponses of the purple nonsulfur bacteria Rhodospirillum centenum and Rhodobacter sphaeroides.��Journal of Bacteriology,��179(21), 6764–6768.��

Ochs, C. A. (1997). Effects of UV radiation on grazing by two marine heterotrophic nanoflagellates on autotrophic picoplankton.��Journal of Plankton Research,��19(10), 1517–1536.��

Lie, T. J., Pitta, T., Leadbetter, E. R., Godchaux III., W., & Leadbetter, J. R. (1996). Sulfonates: novel electron acceptors in anaerobic respiration.��Archives of Microbiology,��166(3), 204–210.��