@article{martin_he_meilleur_guenther_sit_lommel_heller_2013, title={New insight into the structure of RNA in red clover necrotic mosaic virus and the role of divalent cations revealed by small-angle neutron scattering}, volume={158}, ISSN={["0304-8608"]}, url={http://europepmc.org/abstract/med/23483344}, DOI={10.1007/s00705-013-1650-6}, number={8}, journal={ARCHIVES OF VIROLOGY}, publisher={Springer Science and Business Media LLC}, author={Martin, Stanton L. and He, Lilin and Meilleur, Flora and Guenther, Richard H. and Sit, Tim L. and Lommel, Steven A. and Heller, William T.}, year={2013}, month={Aug}, pages={1661–1669} }
 @article{brown_utturkar_klingeman_johnson_martin_land_lu_schadt_doktycz_pelletier_2012, title={Twenty-one genome sequences from pseudomonas species and 19 genome sequences from diverse bacteria isolated from the rhizosphere and endosphere of Populus deltoides}, volume={194}, number={21}, journal={Journal of Bacteriology}, author={Brown, S. D. and Utturkar, S. M. and Klingeman, D. M. and Johnson, C. M. and Martin, S. L. and Land, M. L. and Lu, T. Y. S. and Schadt, C. W. and Doktycz, M. J. and Pelletier, D. A.}, year={2012}, pages={5991–5993} }
 @article{kalamorz_keis_mcmillan_olsson_stanton_stockwell_black_klingeman_land_han_et al._2011, title={Draft Genome Sequence of the Thermoalkaliphilic Caldalkalibacillus thermarum Strain TA2.A1}, volume={193}, number={16}, journal={Journal of Bacteriology}, author={Kalamorz, F. and Keis, S. and McMillan, D. G. G. and Olsson, K. and Stanton, J. A. and Stockwell, P. and Black, M. A. and Klingeman, D. M. and Land, M. L. and Han, C. S. and et al.}, year={2011}, pages={4290–4291} }
 @article{martin_guenther_sit_swartz_meilleur_lommel_rose_section_2010, title={Crystallization and preliminary X-ray diffraction analysis of red clover necrotic mosaic virus}, volume={66}, ISSN={["2053-230X"]}, url={http://europepmc.org/abstract/med/21045294}, DOI={10.1107/s1744309110032483}, abstractNote={Red clover necrotic mosaic virus (RCNMV) is a species that belongs to the Tombusviridae family of plant viruses with a T = 3 icosahedral capsid. RCNMV virions were purified and were crystallized for X-ray analysis using the hanging-drop vapor-diffusion method. Self-rotation functions and systematic absences identified the space group as I23, with two virions in the unit cell. The crystals diffracted to better than 4 Å resolution but were very radiation-sensitive, causing rapid decay of the high-resolution reflections. The data were processed to 6 Å in the analysis presented here.}, number={Pt 11}, journal={ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS}, author={Martin, S.L. and Guenther, R.H. and Sit, T.L. and Swartz, P.D. and Meilleur, Flora and Lommel, S.A. and Rose, Robert and Section, F.}, year={2010}, month={Nov}, pages={1458–1462} }
 @article{yang_land_klingeman_pelletier_lu_martin_guo_smith_brown_2010, title={Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae}, volume={107}, number={23}, journal={Proceedings of the National Academy of Sciences of the United States of America}, author={Yang, S. H. and Land, M. L. and Klingeman, D. M. and Pelletier, D. A. and Lu, T. Y. S. and Martin, S. L. and Guo, H. B. and Smith, J. C. and Brown, S. D.}, year={2010}, pages={10395–10400} }
 @article{learman_yi_brown_martin_geesey_stevens_hochella_2009, title={Involvement of Shewanella oneidensis MR-1 LuxS in Biofilm Development and Sulfur Metabolism}, volume={75}, ISSN={["0099-2240"]}, DOI={10.1128/AEM.01393-08}, abstractNote={ABSTRACT}, number={5}, journal={APPLIED AND ENVIRONMENTAL MICROBIOLOGY}, author={Learman, Deric R. and Yi, Haakrho and Brown, Steven D. and Martin, Stanton L. and Geesey, Gill G. and Stevens, Ann M. and Hochella, Michael F., Jr.}, year={2009}, month={Mar}, pages={1301–1307} }
 @article{yang_tschaplinski_engle_carroll_martin_davison_palumbo_rodriguez_brown_2009, title={Transcriptomic and metabolomic profiling of Zymomonas mobilis during aerobic and anaerobic fermentations}, volume={10}, journal={BMC Genomics}, author={Yang, S. H. and Tschaplinski, T. J. and Engle, N. L. and Carroll, S. L. and Martin, S. L. and Davison, B. H. and Palumbo, A. V. and Rodriguez, M. and Brown, S. D.}, year={2009} }
 @article{kennerly_ballmann_martin_wolfinger_gregory_stoskopf_gibson_2008, title={A gene expression signature of confinement in peripheral blood of red wolves (Canis rufus)}, volume={17}, ISSN={["1365-294X"]}, DOI={10.1111/j.1365-294X.2008.03775.x}, abstractNote={Abstract}, number={11}, journal={MOLECULAR ECOLOGY}, author={Kennerly, Erin and Ballmann, Anne and Martin, Stanton and Wolfinger, Russ and Gregory, Simon and Stoskopf, Michael and Gibson, Greg}, year={2008}, month={Jun}, pages={2782–2791} }
 @article{thon_martin_goff_wing_dean_2004, title={BAC end sequences and a physical map reveal transposable element content and clustering patterns in the genome of Magnaporthe grisea}, volume={41}, ISSN={["1087-1845"]}, DOI={10.1016/j.fgb.2004.02.003}, abstractNote={Transposable elements (TEs) are viewed as major contributors to the evolution of fungal genomes. Genomic resources such as BAC libraries are an underutilized resource for studying genome-wide TE distribution. Using the BAC end sequences and physical map that are available for the rice blast fungus, Magnaporthe grisea, we describe a likelihood ratio test designed to identify clustering of TEs in the genome. A significant variation in the distribution of three TEs, MAGGY, MGL, and Pot2 was observed among the fingerprint contigs of the physical map. We utilized a draft sequence of M. grisea chromosome 7 to validate our results and found a similar pattern of clustering. By examining individual BAC end sequences, we found evidence for 11 unique integrations of MAGGY or MGL into Pot2 but no evidence for the reciprocal integration of Pot2 into another TE. This suggests that: (a) the presence of Pot2 in the genome predates that of the other TEs, (b) Pot2 was less transpositionally active than other TEs, or (c) that MAGGY and MGL have integration site preference for Pot2. High transition/transversion mutation ratios as well as bias in transition site context was observed in MAGGY and MGL elements, but not in Pot2 elements. These features are consistent with the effects of a Repeat-Induced Point (RIP) mutation-like process occurring in MAGGY and MGL elements. This study illustrates the general utility of a physical map and BAC end sequences for the study of genome-wide repetitive DNA content and organization. Index Descriptors: Transposon; Transposable element; Rice blast; Magnaporthe grisea; Pyricularia grisea; BAC library; Physical map}, number={7}, journal={FUNGAL GENETICS AND BIOLOGY}, author={Thon, MR and Martin, SL and Goff, S and Wing, RA and Dean, RA}, year={2004}, month={Jul}, pages={657–666} }