Publications

Simon, D. and Zimmerly, S. (2008) A diversity of uncharacterized retroelements in bacteria. Nucleic Acids Research 36: 7219-7229.  [Abstract] [PDF]

Simon, D. M., Clarke, N. A. C., McNeil, B. A., Johnson, I., Pantuso, D., Dai, L., Chai, D. and Zimmerly, S. (2008). Group II introns in Eubacteria and Archaea: ORF-less introns and new varieties. RNA 14: 1704-1713.  [Abstract] [PDF]

Dai, L.,* Chai, D.,* Gu, S-Q., Gabel, J., Noskov, S. Y., Blocker, F. J. H., Lambowitz, A. M. and Zimmerly, S. (2008). A three-dimensional model of a group II intron RNA and its interaction with the intron-encoded reverse transcriptase. Molecular Cell 30: 472-485. *Equal authorship.  [Abstract] [PDF]

Robart, A.R., Seo, W. and Zimmerly, S. (2007). Insertion of group II intron retroelements after intrinsic transcriptional terminators. PNAS 104: 6620-6625.  [Abstract] [PDF]

Toor, N., Robart, A.R., Christianson, J. and Zimmerly, S.  (2006). Self-splicing of a group IIC intron: 5 exon recognition and alternative 5 splicing events implicate the stem-loop motif of a transcriptional terminator. Nucleic Acids Research 34: 6461-6471.  [Abstract] [PDF]

Hausner, G., Olson, R., Simon, D., Johnson, I., Sanders, E. R., Karol, K. G., McCourt, R. M. and Zimmerly, S. (2006). Origin and evolution of the chloroplast trnK (matK) intron: a model for evolution of group II intron RNA structures. Molecular Biology and Evolution 23: 380-391.  [Abstract] [PDF]

Robart, A.R. and Zimmerly, S. (2005). Group II intron retroelements: function and diversity. Cytogenetic and Genome Research 110: 589-597. [Abstract] [PDF]

 Doulatov, S., Hodes, A., Dai, L., Mandhana, N., Liu, M., Deora, R., Simons, R.W., Zimmerly, S. and Miller, J.F. (2004). Tropism switching in Bordetella bacteriophage defines a family of diversity-generating retroelements. Nature 431: 476-481.  [Abstract] [PDF]

Lambowitz, A.M. and Zimmerly, S. (2004). Mobile group II introns. Annual Review of Genetics 38: 1-35.  [Abstract] [PDF]

Robart, A., Montgomery, N.K., Smith, K.L. and Zimmerly, S. (2004). Principles of 3' splice site selection and alternative splicing for an unusual group II intron from Bacillus anthracis. RNA 10: 854-862.  [Abstract] [PDF]

Dai, L. and Zimmerly, S. (2003). ORF-less and RT-encoding group II introns in archaebacteria, with a pattern of homing into related group II intron ORFs. RNA 9: 14-19.  [Abstract] [PDF]

Dai, L., Toor, N., Olson, R., Keeping, A., and Zimmerly, S. (2003). Database for mobile group II introns. Nucleic Acids Research 31: 424-426. [This database was highlighted in Science in 2004; Leslie, M. Molecular Outtakes. (2004). Science 303: 1115. ] [Abstract] [PDF] 

Toor, N. and  Zimmerly, S. (2002). Identification of a family of group II introns encoding LAGLIDADG ORFs typical of group I introns. RNA 8: 1373-1377.  [Abstract] [PDF]

Dai, L. and Zimmerly, S. (2002). The dispersal of five group II introns among natural populations of E. coli. RNA 8: 1294-1307.  [Abstract] [PDF]

Dai, L. and Zimmerly, S. (2002). Compilation and analysis of group II intron insertions in bacterial genomes: evidence for retroelement behavior.  Nucleic Acids Research 30: 1091-1102.  [Abstract] [PDF]

Morozova, T., Seo, W. and Zimmerly, S. (2002). Noncognate template usage and alternative priming by a group II intron-encoded reverse transcriptase. Journal of Molecular Biology 315: 951-963.  [Abstract] [PDF]

Toor, N., Hausner, G. and Zimmerly, S. (2001). Coevolution of group II intron RNA structures with their intron-encoded reverse transcriptases. RNA 7: 1142-1152.  [Abstract] [PDF]

Zimmerly, S., Hausner, G. and Wu, X. (2001). Phylogenetic relationships among group II intron ORFs. Nucleic Acids Research 29: 1238-1250.  [Abstract] [PDF]

Webpage Citation

Molecular Outtakes- Mobile group II intron database.  Science, 303:1115 [PDF]