2013 Publications

2013        2012        2011        2010        2009        2008        2007        2006        2005        2004        2003        2002

Akerman, N. H., Butterfield, D. A., and Huber, J. A. (2013). “Phylogenetic diversity and functional gene patterns of sulfur-oxidizing subseafloor Epsilonproteobacteria in diffuse hydrothermal vent fluids.” Frontiers in Microbiology, 4.

Alliegro, M. A., and Alliegro, M. C. (2013). “Localization of rRNA transcribed spacer domains in the nucleolinus and maternal procentrosomes of surf clam (Spisula) oocytes.” RNA biology, 10(3).

Arkhipova, I. R., Yushenova, I. A., and Rodriguez, F. (2013). “Endonuclease-containing Penelope retrotransposons in the bdelloid rotifer Adineta vaga exhibit unusual structural features and play a role in expansion of host gene families.” Mobile DNA, 4(1), 19.

Arkhipova, I. R., and Rodriguez, F. (2013). “Genetic and epigenetic changes involving (retro)transposons in animal hybrids and polyploids.” Cytogenetic and genome research, 140(2-4), 295-311.

Eren, A. M., Morrison, H. G., Huse, S. M., and Sogin, M. L. (2013). “DRISEE overestimates errors in metagenomic sequencing data.” Briefings in Bioinformatics.

Eren, A. M., Maignien, L., Sul, W. J., Murphy, L. G., Grim, S. L., Morrison, H. G., and Sogin, M. L. (2013). “Oligotyping: Differentiating between closely related microbial taxa using 16S rRNA gene data.” Methods in Ecology and Evolution.

Eren, A. M., Vineis, J. H., Morrison, H. G., and Sogin, M. L. (2013). “A Filtering Method to Generate High Quality Short Reads Using Illumina Paired-End Technology.” PLoS ONE, 8(6), e66643.

Fischer, A. H. L., and Smith, J. (2012). “Evo-devo in the era of gene regulatory networks.” Integrative and comparative biology, 52(6), 842-9.

Fischer, A. H. L., Tulin, S., Fredman, D., and Smith, J. (2013). “Employing BAC-reporter constructs in the sea anemone Nematostella vectensis.” Integrative and comparative biology.

Flot, J. F., Hespeels, B., Li, X., Noel, B., Arkhipova, I., Danchin, E. G., Hejnol, A., Henrissat, B., Koszul, R., Aury, J. M., Barbe, V., Barthelemy, R. M., Bast, J., Bazykin, G. A., Chabrol, O., Couloux, A., Da Rocha, M., Da Silva, C., Gladyshev, E., Gouret, P., Hallatschek, O., Hecox-Lea, B., Labadie, K., Lejeune, B., Piskurek, O., Poulain, J., Rodriguez, F., Ryan, J. F., Vakhrusheva, O. A., Wajnberg, E., Wirth, B., Yushenova, I., Kellis, M., Kondrashov, A. S., Mark Welch, D. B., Pontarotti, P., Weissenbach, J., Wincker, P., Jaillon, O., and Van Doninck, K. (2013). “Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga.” Nature, 500(7463), 453-7.

Hanson, S. J., Schurko, A. M., Hecox-Lea, B., Mark Welch, D. B., Stelzer, C. P., and Logsdon, J. M., Jr. (2013). “Inventory and phylogenetic analysis of meiotic genes in monogonont rotifers.” The Journal of heredity, 104(3), 357-70.

Helm, R. R., Siebert, S., Tulin, S., Smith, J., and Dunn, C. W. (2013). “Characterization of differential transcript abundance through time during Nematostella vectensis development.” BMC Genomics, 14, 266.

Materna, S., Swartz, S., Smith, J. . (2013). “The transcriptional and signaling network for the specification of stem-like cells in the sea urchin.” Development, 140, 1796-806.

McLellan, S. L., Newton, R. J., Vandewalle, J. L., Shanks, O. C., Huse, S. M., Eren, A. M., and Sogin, M. L. (2013). “Sewage reflects the distribution of human faecal Lachnospiraceae.” Environmental Microbiology.

Merkel, A., Huber, J.A., Chernyh, N., Bonch-Osmolovskaya, E. and A. Lebedinsky. 2013. Detection of putatively thermophilic anaerobic methanotrophs (ANMEs) in diffuse hydrothermal vent fluidsApplied and Environmental Microbiology.79:915-923.

Meyer, J. L., Akerman, N. H., Proskurowski, G., and Huber, J. A. (2013). “Microbiological characterization of post-eruption “snowblower” vents at Axial Seamount, Juan de Fuca Ridge.” Frontiers in Microbiology, 4.

Newton, R. J., Bootsma, M. J., Morrison, H. G., Sogin, M. L., and McLellan, S. L. (2013). “A microbial signature approach to identify fecal pollution in the waters off an urbanized coast of Lake Michigan.” Microbial Ecology, 65(4), 1011-23.

Rozhkov, N. V., Schostak, N. G., Zelentsova, E. S., Yushenova, I. A., Zatsepina, O. G., and Evgen’ev, M. B. (2013). “Evolution and dynamics of small RNA response to a retroelement invasion in Drosophila.” Molecular Biology and Evolution, 30(2), 397-408.

Shanks, O. C., Newton, R. J., Kelty, C. A., Huse, S. M., Sogin, M. L., and McLellan, S. L. (2013). “Comparison of microbial community structure in untreated wastewater from different geographic locales.” Applied and Environmental Microbiology.

Sul, W.J., T.A. Oliver, H.W. Ducklow, L.A. Amaral-Zettler, M.L. Sogin. Marine bacteria exhibit a bipolar distribution. PNAS. 110(6) 2342-2347 (2013).

Taylor, R. C., Webb Robertson, B. J., Markillie, L. M., Serres, M. H., Linggi, B. E., Aldrich, J. T., Hill, E. A., Romine, M. F., Lipton, M. S., and Wiley, H. S. (2013). “Changes in translational efficiency is a dominant regulatory mechanism in the environmental response of bacteria.” Integrative biology : quantitative biosciences from nano to macro.

Thor Marteinsson, V., Runarsson, A., Stefansson, A., Thorsteinsson, T., Johannesson, T., Magnusson, S. H., Reynisson, E., Einarsson, B., Wade, N., Morrison, H. G., and Gaidos, E. (2013). “Microbial communities in the subglacial waters of the Vatnajokull ice cap, Iceland.” The ISME journal, 7(2), 427-37.

Tulin, S., Aguiar, D., Istrail, S., and Smith, J. (2013). “A quantitative reference transcriptome for Nematostella vectensis early embryonic development: a pipeline for de novo assembly in emerging model systems.” EvoDevo, 4(1), 16.

Vital, M., C.R Penton, Q. Wang, V.B. Young, D.A. Antonopoulos, M.L. Sogin, H.G. Morrison, L. Raffals, E. B. Chang, G.B. Huffnagle, T.M. Schmidt, J.R. Cole, J. M. Tiedje. A gene-targeted approach to investigate the intestinal butyrate-producing bacterial community. Microbiome. In press (2013).

Woodring, J. L., Bland, N. D., Ochiana, S. O., Campbell, R. K., and Pollastri, M. P. (2013). “Synthesis and assessment of catechol diether compounds as inhibitors of trypanosomal phosphodiesterase B1 (TbrPDEB1).” Bioorganic & medicinal chemistry letters, 23(21), 5971-74.

Young, V.B., L.H. Raffals, S.M. Huse, M.Vital, D. Dai, P.D. Schloss, J.M. Brulc, D.A. Antonopoulos, R.L. Arrieta, J.H. Kwon, K.G. Reddy, N.A. Hubert, S.L. Grim, J.H. Vineis, S. Dalal, H.G. Morrison, A.M. Eren, F. Meyer, T.M. Schmidt, J.M. Tiedje, E.B. Chang, M.L. Sogin. Multiphasic Analysis of the Temporal Development of the Distal Gut Microbiota in Patients Following Ileal Pouch Anal Anastomosis. Microbiome. In press (2013).

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