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Items: 1 to 50 of 52

1.

Editorial overview: Genome architecture and expression: Mobile elements at work.

Lisch D, Burns KH.

Curr Opin Genet Dev. 2018 Apr;49:iv-v. doi: 10.1016/j.gde.2018.05.003. No abstract available.

PMID:
29807645
2.

The long and short of doubling down: polyploidy, epigenetics, and the temporal dynamics of genome fractionation.

Wendel JF, Lisch D, Hu G, Mason AS.

Curr Opin Genet Dev. 2018 Apr;49:1-7. doi: 10.1016/j.gde.2018.01.004. Epub 2018 Feb 10. Review.

PMID:
29438956
3.

Patterns and Consequences of Subgenome Differentiation Provide Insights into the Nature of Paleopolyploidy in Plants.

Zhao M, Zhang B, Lisch D, Ma J.

Plant Cell. 2017 Dec;29(12):2974-2994. doi: 10.1105/tpc.17.00595. Epub 2017 Nov 27.

PMID:
29180596
4.

Natural antisense transcripts are significantly involved in regulation of drought stress in maize.

Xu J, Wang Q, Freeling M, Zhang X, Xu Y, Mao Y, Tang X, Wu F, Lan H, Cao M, Rong T, Lisch D, Lu Y.

Nucleic Acids Res. 2017 May 19;45(9):5126-5141. doi: 10.1093/nar/gkx085.

5.

Creating Order from Chaos: Epigenome Dynamics in Plants with Complex Genomes.

Springer NM, Lisch D, Li Q.

Plant Cell. 2016 Feb;28(2):314-25. doi: 10.1105/tpc.15.00911. Epub 2016 Feb 11. Review.

6.

RNA-directed DNA methylation enforces boundaries between heterochromatin and euchromatin in the maize genome.

Li Q, Gent JI, Zynda G, Song J, Makarevitch I, Hirsch CD, Hirsch CN, Dawe RK, Madzima TF, McGinnis KM, Lisch D, Schmitz RJ, Vaughn MW, Springer NM.

Proc Natl Acad Sci U S A. 2015 Nov 24;112(47):14728-33. doi: 10.1073/pnas.1514680112. Epub 2015 Nov 9.

7.

Mutator and MULE Transposons.

Lisch D.

Microbiol Spectr. 2015 Apr;3(2):MDNA3-0032-2014. doi: 10.1128/microbiolspec.MDNA3-0032-2014. Review.

PMID:
26104710
8.

A Solution to the C-Value Paradox and the Function of Junk DNA: The Genome Balance Hypothesis.

Freeling M, Xu J, Woodhouse M, Lisch D.

Mol Plant. 2015 Jun;8(6):899-910. doi: 10.1016/j.molp.2015.02.009. Epub 2015 Mar 3.

9.

Origin, inheritance, and gene regulatory consequences of genome dominance in polyploids.

Woodhouse MR, Cheng F, Pires JC, Lisch D, Freeling M, Wang X.

Proc Natl Acad Sci U S A. 2014 Apr 8;111(14):5283-8. doi: 10.1073/pnas.1402475111. Epub 2014 Mar 24. Erratum in: Proc Natl Acad Sci U S A. 2014 Apr 29;111(17):6527.

10.

Regulation of the Mutator system of transposons in maize.

Lisch D.

Methods Mol Biol. 2013;1057:123-42. doi: 10.1007/978-1-62703-568-2_9.

PMID:
23918425
11.

What is being written, and why?: comment on "How life changes itself: the Read-Write (RW) genome" by James Shapiro.

Lisch D.

Phys Life Rev. 2013 Sep;10(3):336-7. doi: 10.1016/j.plrev.2013.07.012. Epub 2013 Jul 18. No abstract available.

PMID:
23891466
12.

How important are transposons for plant evolution?

Lisch D.

Nat Rev Genet. 2013 Jan;14(1):49-61. doi: 10.1038/nrg3374. Review.

PMID:
23247435
13.

Regulation of transposable elements in maize.

Lisch D.

Curr Opin Plant Biol. 2012 Nov;15(5):511-6. doi: 10.1016/j.pbi.2012.07.001. Epub 2012 Jul 22. Review.

PMID:
22824142
14.

Fractionation mutagenesis and similar consequences of mechanisms removing dispensable or less-expressed DNA in plants.

Freeling M, Woodhouse MR, Subramaniam S, Turco G, Lisch D, Schnable JC.

Curr Opin Plant Biol. 2012 Apr;15(2):131-9. doi: 10.1016/j.pbi.2012.01.015. Epub 2012 Feb 14. Review.

PMID:
22341793
15.

POPcorn: An Online Resource Providing Access to Distributed and Diverse Maize Project Data.

Cannon EK, Birkett SM, Braun BL, Kodavali S, Jennewein DM, Yilmaz A, Antonescu V, Antonescu C, Harper LC, Gardiner JM, Schaeffer ML, Campbell DA, Andorf CM, Andorf D, Lisch D, Koch KE, McCarty DR, Quackenbush J, Grotewold E, Lushbough CM, Sen TZ, Lawrence CJ.

Int J Plant Genomics. 2011;2011:923035. doi: 10.1155/2011/923035. Epub 2011 Dec 27.

16.

Strategies for silencing and escape: the ancient struggle between transposable elements and their hosts.

Lisch D, Slotkin RK.

Int Rev Cell Mol Biol. 2011;292:119-52. doi: 10.1016/B978-0-12-386033-0.00003-7. Review.

PMID:
22078960
17.

Transposable element origins of epigenetic gene regulation.

Lisch D, Bennetzen JL.

Curr Opin Plant Biol. 2011 Apr;14(2):156-61. doi: 10.1016/j.pbi.2011.01.003. Epub 2011 Apr 4. Review.

PMID:
21444239
18.

Pack-Mutator-like transposable elements (Pack-MULEs) induce directional modification of genes through biased insertion and DNA acquisition.

Jiang N, Ferguson AA, Slotkin RK, Lisch D.

Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1537-42. doi: 10.1073/pnas.1010814108. Epub 2011 Jan 10.

19.

Epigenetic reprogramming during vegetative phase change in maize.

Li H, Freeling M, Lisch D.

Proc Natl Acad Sci U S A. 2010 Dec 21;107(51):22184-9. doi: 10.1073/pnas.1016884108. Epub 2010 Dec 6.

20.

Following tetraploidy in maize, a short deletion mechanism removed genes preferentially from one of the two homologs.

Woodhouse MR, Schnable JC, Pedersen BS, Lyons E, Lisch D, Subramaniam S, Freeling M.

PLoS Biol. 2010 Jun 29;8(6):e1000409. doi: 10.1371/journal.pbio.1000409.

21.

The B73 maize genome: complexity, diversity, and dynamics.

Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK.

Science. 2009 Nov 20;326(5956):1112-5. doi: 10.1126/science.1178534. Erratum in: Science. 2012 Aug 31;337(6098):1040.

22.

Loss of RNA-dependent RNA polymerase 2 (RDR2) function causes widespread and unexpected changes in the expression of transposons, genes, and 24-nt small RNAs.

Jia Y, Lisch DR, Ohtsu K, Scanlon MJ, Nettleton D, Schnable PS.

PLoS Genet. 2009 Nov;5(11):e1000737. doi: 10.1371/journal.pgen.1000737. Epub 2009 Nov 20.

23.

Distal expression of knotted1 in maize leaves leads to reestablishment of proximal/distal patterning and leaf dissection.

Ramirez J, Bolduc N, Lisch D, Hake S.

Plant Physiol. 2009 Dec;151(4):1878-88. doi: 10.1104/pp.109.145920. Epub 2009 Oct 23.

24.

Production and processing of siRNA precursor transcripts from the highly repetitive maize genome.

Hale CJ, Erhard KF Jr, Lisch D, Hollick JB.

PLoS Genet. 2009 Aug;5(8):e1000598. doi: 10.1371/journal.pgen.1000598. Epub 2009 Aug 14.

25.

The functional role of pack-MULEs in rice inferred from purifying selection and expression profile.

Hanada K, Vallejo V, Nobuta K, Slotkin RK, Lisch D, Meyers BC, Shiu SH, Jiang N.

Plant Cell. 2009 Jan;21(1):25-38. doi: 10.1105/tpc.108.063206. Epub 2009 Jan 9.

26.

Epigenetic regulation of transposable elements in plants.

Lisch D.

Annu Rev Plant Biol. 2009;60:43-66. doi: 10.1146/annurev.arplant.59.032607.092744. Review.

PMID:
19007329
27.

A new SPIN on horizontal transfer.

Lisch D.

Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):16827-8. doi: 10.1073/pnas.0809525105. Epub 2008 Oct 30. No abstract available.

28.

Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids.

Lyons E, Pedersen B, Kane J, Alam M, Ming R, Tang H, Wang X, Bowers J, Paterson A, Lisch D, Freeling M.

Plant Physiol. 2008 Dec;148(4):1772-81. doi: 10.1104/pp.108.124867. Epub 2008 Oct 24.

29.

A position effect on the heritability of epigenetic silencing.

Singh J, Freeling M, Lisch D.

PLoS Genet. 2008 Oct;4(10):e1000216. doi: 10.1371/journal.pgen.1000216. Epub 2008 Oct 10. Erratum in: PLoS Genet. 2009 Feb;5(2). doi: 10.1371/annotation/dd58c52f-161d-4a3f-b560-c9fd78307f85.

30.

Many or most genes in Arabidopsis transposed after the origin of the order Brassicales.

Freeling M, Lyons E, Pedersen B, Alam M, Ming R, Lisch D.

Genome Res. 2008 Dec;18(12):1924-37. doi: 10.1101/gr.081026.108. Epub 2008 Oct 3.

31.
32.

Mutator transposon in maize and MULEs in the plant genome.

Diao XM, Lisch D.

Yi Chuan Xue Bao. 2006 Jun;33(6):477-87.

PMID:
16800377
33.

Horizontal transfer of a plant transposon.

Diao X, Freeling M, Lisch D.

PLoS Biol. 2006 Jan;4(1):e5.

34.
35.

Heritable transposon silencing initiated by a naturally occurring transposon inverted duplication.

Slotkin RK, Freeling M, Lisch D.

Nat Genet. 2005 Jun;37(6):641-4. Epub 2005 May 22.

PMID:
15908951
36.

Pack-MULEs: theft on a massive scale.

Lisch D.

Bioessays. 2005 Apr;27(4):353-5.

PMID:
15770680
37.
39.

Mutator transposons.

Lisch D.

Trends Plant Sci. 2002 Nov;7(11):498-504. Review.

PMID:
12417150
40.

A mutation that prevents paramutation in maize also reverses Mutator transposon methylation and silencing.

Lisch D, Carey CC, Dorweiler JE, Chandler VL.

Proc Natl Acad Sci U S A. 2002 Apr 30;99(9):6130-5. Epub 2002 Apr 16.

41.

Biodiversity (Communications arising): maize transgene results in Mexico are artefacts.

Kaplinsky N, Braun D, Lisch D, Hay A, Hake S, Freeling M.

Nature. 2002 Apr 11;416(6881):601-2; discussion 600, 602. Epub 2002 Apr 4.

PMID:
11935145
42.

Perspective: transposable elements, parasitic DNA, and genome evolution.

Kidwell MG, Lisch DR.

Evolution. 2001 Jan;55(1):1-24. Review.

PMID:
11263730
43.

Mutator transposase is widespread in the grasses.

Lisch DR, Freeling M, Langham RJ, Choy MY.

Plant Physiol. 2001 Mar;125(3):1293-303.

44.

Reply from M.G. Kidwell and D.R. Lisch.

Kidwell M, Lisch D.

Trends Ecol Evol. 2000 Jul;15(7):288. No abstract available.

PMID:
10856953
45.

Transposable elements and host genome evolution.

Kidwell MG, Lisch DR.

Trends Ecol Evol. 2000 Mar;15(3):95-99.

PMID:
10675923
46.
48.

Hybrid genetics. Transposons unbound.

Kidwell MG, Lisch DR.

Nature. 1998 May 7;393(6680):22-3. No abstract available.

PMID:
9590685
49.

Transposable elements as sources of variation in animals and plants.

Kidwell MG, Lisch D.

Proc Natl Acad Sci U S A. 1997 Jul 22;94(15):7704-11.

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