My Bibliography

select

Chory J, Voytas DF, Olszewski NE, Ausubel FM. Gibberellin-Induced Changes in the Populations of Translatable mRNAs and Accumulated Polypeptides in Dwarfs of Maize and Pea. Plant Physiol. 1987 Jan;83(1):15-23. doi: 10.1104/pp.83.1.15. PubMed PMID: 16665192; PubMed Central PMCID: PMC1056291.

select

Voytas DF, Ausubel FM. A copia-like transposable element family in Arabidopsis thaliana. Nature. 1988 Nov 17;336(6196):242-4. doi: 10.1038/336242a0. PubMed PMID: 2904123.

select

Voytas DF, Konieczny A, Cummings MP, Ausubel FM. The structure, distribution and evolution of the Ta1 retrotransposable element family of Arabidopsis thaliana. Genetics. 1990 Nov;126(3):713-21. PubMed PMID: 2174394; PubMed Central PMCID: PMC1204225.

select

Konieczny A, Voytas DF, Cummings MP, Ausubel FM. A superfamily of Arabidopsis thaliana retrotransposons. Genetics. 1991 Apr;127(4):801-9. PubMed PMID: 1709409; PubMed Central PMCID: PMC1204407.

select

Voytas DF, Cummings MP, Koniczny A, Ausubel FM, Rodermel SR. copia-like retrotransposons are ubiquitous among plants. Proc Natl Acad Sci U S A. 1992 Aug 1;89(15):7124-8. doi: 10.1073/pnas.89.15.7124. PubMed PMID: 1379734; PubMed Central PMCID: PMC49658.

select

Voytas DF, Boeke JD. Yeast retrotransposon revealed. Nature. 1992 Aug 27;358(6389):717. doi: 10.1038/358717a0. PubMed PMID: 1324434.

select

VanderWiel PL, Voytas DF, Wendel JF. Copia-like retrotransposable element evolution in diploid and polyploid cotton (Gossypium L.). J Mol Evol. 1993 May;36(5):429-47. doi: 10.1007/bf02406720. PubMed PMID: 7685393.

select

Ji H, Moore DP, Blomberg MA, Braiterman LT, Voytas DF, Natsoulis G, Boeke JD. Hotspots for unselected Ty1 transposition events on yeast chromosome III are near tRNA genes and LTR sequences. Cell. 1993 Jun 4;73(5):1007-18. doi: 10.1016/0092-8674(93)90278-x. PubMed PMID: 8388781.

select

Voytas DF, Boeke JD. Yeast retrotransposons and tRNAs. Trends Genet. 1993 Dec;9(12):421-7. doi: 10.1016/0168-9525(93)90105-q. Review. PubMed PMID: 8122309.

select

Wetzel CM, Jiang CZ, Meehan LJ, Voytas DF, Rodermel SR. Nuclear-organelle interactions: the immutans variegation mutant of Arabidopsis is plastid autonomous and impaired in carotenoid biosynthesis. Plant J. 1994 Aug;6(2):161-75. doi: 10.1046/j.1365-313x.1994.6020161.x. PubMed PMID: 7920709.

select

Keeney JB, Chapman KB, Lauermann V, Voytas DF, Aström SU, von Pawel-Rammingen U, Byström A, Boeke JD. Multiple molecular determinants for retrotransposition in a primer tRNA. Mol Cell Biol. 1995 Jan;15(1):217-26. doi: 10.1128/mcb.15.1.217. PubMed PMID: 7528326; PubMed Central PMCID: PMC231938.

select

Zou S, Wright DA, Voytas DF. The Saccharomyces Ty5 retrotransposon family is associated with origins of DNA replication at the telomeres and the silent mating locus HMR. Proc Natl Acad Sci U S A. 1995 Jan 31;92(3):920-4. doi: 10.1073/pnas.92.3.920. PubMed PMID: 7846079; PubMed Central PMCID: PMC42732.

select

Wright DA, Ke N, Smalle J, Hauge BM, Goodman HM, Voytas DF. Multiple non-LTR retrotransposons in the genome of Arabidopsis thaliana. Genetics. 1996 Feb;142(2):569-78. PubMed PMID: 8852854; PubMed Central PMCID: PMC1206989.

select

Zou S, Ke N, Kim JM, Voytas DF. The Saccharomyces retrotransposon Ty5 integrates preferentially into regions of silent chromatin at the telomeres and mating loci. Genes Dev. 1996 Mar 1;10(5):634-45. doi: 10.1101/gad.10.5.634. PubMed PMID: 8598292.

select

Voytas DF. Retroelements in genome organization. Science. 1996 Nov 1;274(5288):737-8. doi: 10.1126/science.274.5288.737. Review. PubMed PMID: 8966554.

select

Zou S, Kim JM, Voytas DF. The Saccharomyces retrotransposon Ty5 influences the organization of chromosome ends. Nucleic Acids Res. 1996 Dec 1;24(23):4825-31. doi: 10.1093/nar/24.23.4825. PubMed PMID: 8972872; PubMed Central PMCID: PMC146320.

select

Wright DA, Park SK, Wu D, Phillips GJ, Rodermel SR, Voytas DF. Recovery of YAC-end sequences through complementation of an Escherichia coli pyrF mutation. Nucleic Acids Res. 1997 Jul 1;25(13):2679-80. doi: 10.1093/nar/25.13.2679. PubMed PMID: 9185581; PubMed Central PMCID: PMC146780.

select

Zou S, Voytas DF. Silent chromatin determines target preference of the Saccharomyces retrotransposon Ty5. Proc Natl Acad Sci U S A. 1997 Jul 8;94(14):7412-6. doi: 10.1073/pnas.94.14.7412. PubMed PMID: 9207105; PubMed Central PMCID: PMC23835.

select

Ke N, Voytas DF. High frequency cDNA recombination of the saccharomyces retrotransposon Ty5: The LTR mediates formation of tandem elements. Genetics. 1997 Oct;147(2):545-56. PubMed PMID: 9335592; PubMed Central PMCID: PMC1208177.

select

Ke N, Irwin PA, Voytas DF. The pheromone response pathway activates transcription of Ty5 retrotransposons located within silent chromatin of Saccharomyces cerevisiae. EMBO J. 1997 Oct 15;16(20):6272-80. doi: 10.1093/emboj/16.20.6272. PubMed PMID: 9321406; PubMed Central PMCID: PMC1326311.

select

Kim JM, Vanguri S, Boeke JD, Gabriel A, Voytas DF. Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence. Genome Res. 1998 May;8(5):464-78. doi: 10.1101/gr.8.5.464. PubMed PMID: 9582191.

select

Wright DA, Voytas DF. Potential retroviruses in plants: Tat1 is related to a group of Arabidopsis thaliana Ty3/gypsy retrotransposons that encode envelope-like proteins. Genetics. 1998 Jun;149(2):703-15. PubMed PMID: 9611185; PubMed Central PMCID: PMC1460185.

select

Gai X, Voytas DF. A single amino acid change in the yeast retrotransposon Ty5 abolishes targeting to silent chromatin. Mol Cell. 1998 Jun;1(7):1051-5. doi: 10.1016/s1097-2765(00)80105-7. PubMed PMID: 9651588.

select

Voytas DF, Naylor GJ. Rapid flux in plant genomes. Nat Genet. 1998 Sep;20(1):6-7. doi: 10.1038/1652. PubMed PMID: 9731519.

select

Ke N, Voytas DF. cDNA of the yeast retrotransposon Ty5 preferentially recombines with substrates in silent chromatin. Mol Cell Biol. 1999 Jan;19(1):484-94. doi: 10.1128/mcb.19.1.484. PubMed PMID: 9858572; PubMed Central PMCID: PMC83906.

select

Wu D, Wright DA, Wetzel C, Voytas DF, Rodermel S. The IMMUTANS variegation locus of Arabidopsis defines a mitochondrial alternative oxidase homolog that functions during early chloroplast biogenesis. Plant Cell. 1999 Jan;11(1):43-55. doi: 10.1105/tpc.11.1.43. PubMed PMID: 9878631; PubMed Central PMCID: PMC144093.

select

Ke N, Gao X, Keeney JB, Boeke JD, Voytas DF. The yeast retrotransposon Ty5 uses the anticodon stem-loop of the initiator methionine tRNA as a primer for reverse transcription. RNA. 1999 Jul;5(7):929-38. doi: 10.1017/s1355838299990015. PubMed PMID: 10411136; PubMed Central PMCID: PMC1369817.

select

Zhu Y, Zou S, Wright DA, Voytas DF. Tagging chromatin with retrotransposons: target specificity of the Saccharomyces Ty5 retrotransposon changes with the chromosomal localization of Sir3p and Sir4p. Genes Dev. 1999 Oct 15;13(20):2738-49. doi: 10.1101/gad.13.20.2738. PubMed PMID: 10541559; PubMed Central PMCID: PMC317113.

select

Peterson-Burch BD, Wright DA, Laten HM, Voytas DF. Retroviruses in plants?. Trends Genet. 2000 Apr;16(4):151-2. doi: 10.1016/s0168-9525(00)01981-8. Review. PubMed PMID: 10729827.

select

Chen M, Choi Y, Voytas DF, Rodermel S. Mutations in the Arabidopsis VAR2 locus cause leaf variegation due to the loss of a chloroplast FtsH protease. Plant J. 2000 May;22(4):303-13. doi: 10.1046/j.1365-313x.2000.00738.x. PubMed PMID: 10849347.

select

Irwin PA, Voytas DF. Expression and processing of proteins encoded by the Saccharomyces retrotransposon Ty5. J Virol. 2001 Feb;75(4):1790-7. doi: 10.1128/JVI.75.4.1790-1797.2001. PubMed PMID: 11160677; PubMed Central PMCID: PMC114088.

select

Xie W, Gai X, Zhu Y, Zappulla DC, Sternglanz R, Voytas DF. Targeting of the yeast Ty5 retrotransposon to silent chromatin is mediated by interactions between integrase and Sir4p. Mol Cell Biol. 2001 Oct;21(19):6606-14. doi: 10.1128/mcb.21.19.6606-6614.2001. PubMed PMID: 11533248; PubMed Central PMCID: PMC99806.

select

Wright DA, Voytas DF. Athila4 of Arabidopsis and Calypso of soybean define a lineage of endogenous plant retroviruses. Genome Res. 2002 Jan;12(1):122-31. doi: 10.1101/gr.196001. PubMed PMID: 11779837; PubMed Central PMCID: PMC155253.

select

Gao X, Rowley DJ, Gai X, Voytas DF. Ty5 gag mutations increase retrotransposition and suggest a role for hydrogen bonding in the function of the nucleocapsid zinc finger. J Virol. 2002 Apr;76(7):3240-7. doi: 10.1128/jvi.76.7.3240-3247.2002. PubMed PMID: 11884548; PubMed Central PMCID: PMC136051.

select

Vigdal TJ, Kaufman CD, Izsvák Z, Voytas DF, Ivics Z. Common physical properties of DNA affecting target site selection of sleeping beauty and other Tc1/mariner transposable elements. J Mol Biol. 2002 Oct 25;323(3):441-52. doi: 10.1016/s0022-2836(02)00991-9. PubMed PMID: 12381300.

select

Peterson-Burch BD, Voytas DF. Genes of the Pseudoviridae (Ty1/copia retrotransposons). Mol Biol Evol. 2002 Nov;19(11):1832-45. doi: 10.1093/oxfordjournals.molbev.a004008. PubMed PMID: 12411593.

select

Havecker ER, Voytas DF. The soybean retroelement SIRE1 uses stop codon suppression to express its envelope-like protein. EMBO Rep. 2003 Mar;4(3):274-7. doi: 10.1038/sj.embor.embor773. PubMed PMID: 12634845; PubMed Central PMCID: PMC1315901.

select

Zhu Y, Dai J, Fuerst PG, Voytas DF. Controlling integration specificity of a yeast retrotransposon. Proc Natl Acad Sci U S A. 2003 May 13;100(10):5891-5. doi: 10.1073/pnas.1036705100. Epub 2003 May 1. PubMed PMID: 12730380; PubMed Central PMCID: PMC156297.

select

Laten HM, Havecker ER, Farmer LM, Voytas DF. SIRE1, an endogenous retrovirus family from Glycine max, is highly homogeneous and evolutionarily young. Mol Biol Evol. 2003 Aug;20(8):1222-30. doi: 10.1093/molbev/msg142. Epub 2003 May 30. PubMed PMID: 12777503.

select

Fuerst PG, Voytas DF. CEN plasmid segregation is destabilized by tethered determinants of Ty 5 integration specificity: a role for double-strand breaks in CEN antagonism. Chromosoma. 2003 Aug;112(2):58-65. doi: 10.1007/s00412-003-0243-7. Epub 2003 Jul 16. PubMed PMID: 12883945.

select

Gao X, Havecker ER, Baranov PV, Atkins JF, Voytas DF. Translational recoding signals between gag and pol in diverse LTR retrotransposons. RNA. 2003 Dec;9(12):1422-30. doi: 10.1261/rna.5105503. PubMed PMID: 14623998; PubMed Central PMCID: PMC1370496.

select

Havecker ER, Gao X, Voytas DF. The diversity of LTR retrotransposons. Genome Biol. 2004;5(6):225. doi: 10.1186/gb-2004-5-6-225. Epub 2004 May 18. Review. PubMed PMID: 15186483; PubMed Central PMCID: PMC463057.

select

Peterson-Burch BD, Nettleton D, Voytas DF. Genomic neighborhoods for Arabidopsis retrotransposons: a role for targeted integration in the distribution of the Metaviridae. Genome Biol. 2004;5(10):R78. doi: 10.1186/gb-2004-5-10-r78. Epub 2004 Sep 29. PubMed PMID: 15461796; PubMed Central PMCID: PMC545598.

select

Gao X, Voytas DF. A eukaryotic gene family related to retroelement integrases. Trends Genet. 2005 Mar;21(3):133-7. doi: 10.1016/j.tig.2005.01.006. PubMed PMID: 15734571.

select

Gao X, Vander Velden KA, Voytas DF, Gu X. SplitTester: software to identify domains responsible for functional divergence in protein family. BMC Bioinformatics. 2005 Jun 1;6:137. doi: 10.1186/1471-2105-6-137. PubMed PMID: 15929795; PubMed Central PMCID: PMC1181622.

select

Havecker ER, Gao X, Voytas DF. The Sireviruses, a plant-specific lineage of the Ty1/copia retrotransposons, interact with a family of proteins related to dynein light chain 8. Plant Physiol. 2005 Oct;139(2):857-68. doi: 10.1104/pp.105.065680. Epub 2005 Sep 23. PubMed PMID: 16183843; PubMed Central PMCID: PMC1256001.

select

Wright DA, Townsend JA, Winfrey RJ Jr, Irwin PA, Rajagopal J, Lonosky PM, Hall BD, Jondle MD, Voytas DF. High-frequency homologous recombination in plants mediated by zinc-finger nucleases. Plant J. 2005 Nov;44(4):693-705. doi: 10.1111/j.1365-313X.2005.02551.x. PubMed PMID: 16262717.

select

Wright DA, Thibodeau-Beganny S, Sander JD, Winfrey RJ, Hirsh AS, Eichtinger M, Fu F, Porteus MH, Dobbs D, Voytas DF, Joung JK. Standardized reagents and protocols for engineering zinc finger nucleases by modular assembly. Nat Protoc. 2006;1(3):1637-52. doi: 10.1038/nprot.2006.259. PubMed PMID: 17406455.

select

Sander JD, Zaback P, Joung JK, Voytas DF, Dobbs D. Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W599-605. doi: 10.1093/nar/gkm349. Epub 2007 May 25. PubMed PMID: 17526515; PubMed Central PMCID: PMC1933188.

select

Dai J, Xie W, Brady TL, Gao J, Voytas DF. Phosphorylation regulates integration of the yeast Ty5 retrotransposon into heterochromatin. Mol Cell. 2007 Jul 20;27(2):289-99. doi: 10.1016/j.molcel.2007.06.010. PubMed PMID: 17643377.