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Pathogen Trojan horse delivers bioactive host protein to alter maize (Zea mays) anther cell behavior in situ.

Van Der Linde K, Timofejeva L, Egger RL, Ilau B, Hammond R, Teng C, Meyers BC, Doehlemann G, Walbot V.

Plant Cell. 2018 Feb 15. pii: tpc.00238.2017. doi: 10.1105/tpc.17.00238. [Epub ahead of print]


Despacito: the slow evolutionary changes in plant microRNAs.

Baldrich P, Beric A, Meyers BC.

Curr Opin Plant Biol. 2018 Feb 12;42:16-22. doi: 10.1016/j.pbi.2018.01.007. [Epub ahead of print] Review.


Revisiting criteria for plant miRNA annotation in the era of big data.

Axtell MJ, Meyers BC.

Plant Cell. 2018 Jan 17. pii: tpc.00851.2017. doi: 10.1105/tpc.17.00851. [Epub ahead of print] No abstract available.


Coupling of microRNA-directed phased small interfering RNA generation from long noncoding genes with alternative splicing and alternative polyadenylation in small RNA-mediated gene silencing.

Ma W, Chen C, Liu Y, Zeng M, Meyers BC, Li J, Xia R.

New Phytol. 2018 Mar;217(4):1535-1550. doi: 10.1111/nph.14934. Epub 2017 Dec 8.


The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology.

Friesner J, Assmann SM, Bastow R, Bailey-Serres J, Beynon J, Brendel V, Buell CR, Bucksch A, Busch W, Demura T, Dinneny JR, Doherty CJ, Eveland AL, Falter-Braun P, Gehan MA, Gonzales M, Grotewold E, Gutierrez R, Kramer U, Krouk G, Ma S, Markelz RJC, Megraw M, Meyers BC, Murray JAH, Provart NJ, Rhee S, Smith R, Spalding EP, Taylor C, Teal TK, Torii KU, Town C, Vaughn M, Vierstra R, Ware D, Wilkins O, Williams C, Brady SM.

Plant Physiol. 2017 Dec;175(4):1499-1509. doi: 10.1104/pp.17.01490. No abstract available.


Overlapping RdDM and non-RdDM mechanisms work together to maintain somatic repression of a paramutagenic epiallele of maize pericarp color1.

Wang PH, Wittmeyer KT, Lee TF, Meyers BC, Chopra S.

PLoS One. 2017 Nov 7;12(11):e0187157. doi: 10.1371/journal.pone.0187157. eCollection 2017.


The asparagus genome sheds light on the origin and evolution of a young Y chromosome.

Harkess A, Zhou J, Xu C, Bowers JE, Van der Hulst R, Ayyampalayam S, Mercati F, Riccardi P, McKain MR, Kakrana A, Tang H, Ray J, Groenendijk J, Arikit S, Mathioni SM, Nakano M, Shan H, Telgmann-Rauber A, Kanno A, Yue Z, Chen H, Li W, Chen Y, Xu X, Zhang Y, Luo S, Chen H, Gao J, Mao Z, Pires JC, Luo M, Kudrna D, Wing RA, Meyers BC, Yi K, Kong H, Lavrijsen P, Sunseri F, Falavigna A, Ye Y, Leebens-Mack JH, Chen G.

Nat Commun. 2017 Nov 2;8(1):1279. doi: 10.1038/s41467-017-01064-8.


GC-rich coding sequences reduce transposon-like, small RNA-mediated transgene silencing.

Sidorenko LV, Lee TF, Woosley A, Moskal WA, Bevan SA, Merlo PAO, Walsh TA, Wang X, Weaver S, Glancy TP, Wang P, Yang X, Sriram S, Meyers BC.

Nat Plants. 2017 Nov;3(11):875-884. doi: 10.1038/s41477-017-0040-6. Epub 2017 Oct 30.


Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple.

Wai CM, VanBuren R, Zhang J, Huang L, Miao W, Edger PP, Yim WC, Priest HD, Meyers BC, Mockler T, Smith JAC, Cushman JC, Ming R.

Plant J. 2017 Oct;92(1):19-30. doi: 10.1111/tpj.13630. Epub 2017 Aug 21.


FASTmiR: an RNA-based sensor for in vitro quantification and live-cell localization of small RNAs.

Huang K, Doyle F, Wurz ZE, Tenenbaum SA, Hammond RK, Caplan JL, Meyers BC.

Nucleic Acids Res. 2017 Aug 21;45(14):e130. doi: 10.1093/nar/gkx504.


Small RNA Functions Are Required for Growth and Development of Magnaporthe oryzae.

Raman V, Simon SA, Demirci F, Nakano M, Meyers BC, Donofrio NM.

Mol Plant Microbe Interact. 2017 Jul;30(7):517-530. doi: 10.1094/MPMI-11-16-0236-R. Epub 2017 May 15.


The Emergence, Evolution, and Diversification of the miR390-TAS3-ARF Pathway in Land Plants.

Xia R, Xu J, Meyers BC.

Plant Cell. 2017 Jun;29(6):1232-1247. doi: 10.1105/tpc.17.00185. Epub 2017 Apr 24.


Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce.

Reyes-Chin-Wo S, Wang Z, Yang X, Kozik A, Arikit S, Song C, Xia L, Froenicke L, Lavelle DO, Truco MJ, Xia R, Zhu S, Xu C, Xu H, Xu X, Cox K, Korf I, Meyers BC, Michelmore RW.

Nat Commun. 2017 Apr 12;8:14953. doi: 10.1038/ncomms14953.


ARGONAUTE10 promotes the degradation of miR165/6 through the SDN1 and SDN2 exonucleases in Arabidopsis.

Yu Y, Ji L, Le BH, Zhai J, Chen J, Luscher E, Gao L, Liu C, Cao X, Mo B, Ma J, Meyers BC, Chen X.

PLoS Biol. 2017 Feb 23;15(2):e2001272. doi: 10.1371/journal.pbio.2001272. eCollection 2017 Feb.


PMS1T, producing phased small-interfering RNAs, regulates photoperiod-sensitive male sterility in rice.

Fan Y, Yang J, Mathioni SM, Yu J, Shen J, Yang X, Wang L, Zhang Q, Cai Z, Xu C, Li X, Xiao J, Meyers BC, Zhang Q.

Proc Natl Acad Sci U S A. 2016 Dec 27;113(52):15144-15149. doi: 10.1073/pnas.1619159114. Epub 2016 Dec 13.


MS23, a master basic helix-loop-helix factor, regulates the specification and development of the tapetum in maize.

Nan GL, Zhai J, Arikit S, Morrow D, Fernandes J, Mai L, Nguyen N, Meyers BC, Walbot V.

Development. 2017 Jan 1;144(1):163-172. doi: 10.1242/dev.140673. Epub 2016 Dec 2.


Dynamic changes of small RNAs in rice spikelet development reveal specialized reproductive phasiRNA pathways.

Fei Q, Yang L, Liang W, Zhang D, Meyers BC.

J Exp Bot. 2016 Nov;67(21):6037-6049. Epub 2016 Oct 4.


The Influence of Genotype and Environment on Small RNA Profiles in Grapevine Berry.

Paim Pinto DL, Brancadoro L, Dal Santo S, De Lorenzis G, Pezzotti M, Meyers BC, Pè ME, Mica E.

Front Plant Sci. 2016 Oct 5;7:1459. eCollection 2016.


The Diversification of Plant NBS-LRR Defense Genes Directs the Evolution of MicroRNAs That Target Them.

Zhang Y, Xia R, Kuang H, Meyers BC.

Mol Biol Evol. 2016 Oct;33(10):2692-705. doi: 10.1093/molbev/msw154. Epub 2016 Aug 10.


An Agrobacterium-delivered CRISPR/Cas9 system for high-frequency targeted mutagenesis in maize.

Char SN, Neelakandan AK, Nahampun H, Frame B, Main M, Spalding MH, Becraft PW, Meyers BC, Walbot V, Wang K, Yang B.

Plant Biotechnol J. 2017 Feb;15(2):257-268. doi: 10.1111/pbi.12611. Epub 2016 Sep 5.


Regulatory Role of a Receptor-Like Kinase in Specifying Anther Cell Identity.

Yang L, Qian X, Chen M, Fei Q, Meyers BC, Liang W, Zhang D.

Plant Physiol. 2016 Jul;171(3):2085-100. doi: 10.1104/pp.16.00016. Epub 2016 May 20.


Evolution of plant genome architecture.

Wendel JF, Jackson SA, Meyers BC, Wing RA.

Genome Biol. 2016 Mar 1;17:37. doi: 10.1186/s13059-016-0908-1. Review.


Small RNAs Add Zing to the Zig-Zag-Zig Model of Plant Defenses.

Fei Q, Zhang Y, Xia R, Meyers BC.

Mol Plant Microbe Interact. 2016 Mar;29(3):165-9. doi: 10.1094/MPMI-09-15-0212-FI. Epub 2016 Feb 11. Review.


High-resolution identification and abundance profiling of cassava (Manihot esculenta Crantz) microRNAs.

Khatabi B, Arikit S, Xia R, Winter S, Oumar D, Mongomake K, Meyers BC, Fondong VN.

BMC Genomics. 2016 Jan 28;17:85. doi: 10.1186/s12864-016-2391-1.


MicroRNA Maturation and MicroRNA Target Gene Expression Regulation Are Severely Disrupted in Soybean dicer-like1 Double Mutants.

Curtin SJ, Michno JM, Campbell BW, Gil-Humanes J, Mathioni SM, Hammond R, Gutierrez-Gonzalez JJ, Donohue RC, Kantar MB, Eamens AL, Meyers BC, Voytas DF, Stupar RM.

G3 (Bethesda). 2015 Dec 17;6(2):423-33. doi: 10.1534/g3.115.022137.


miTRATA: a web-based tool for microRNA Truncation and Tailing Analysis.

Patel P, Ramachandruni SD, Kakrana A, Nakano M, Meyers BC.

Bioinformatics. 2016 Feb 1;32(3):450-2. doi: 10.1093/bioinformatics/btv583. Epub 2015 Oct 10.


A One Precursor One siRNA Model for Pol IV-Dependent siRNA Biogenesis.

Zhai J, Bischof S, Wang H, Feng S, Lee TF, Teng C, Chen X, Park SY, Liu L, Gallego-Bartolome J, Liu W, Henderson IR, Meyers BC, Ausin I, Jacobsen SE.

Cell. 2015 Oct 8;163(2):445-55. doi: 10.1016/j.cell.2015.09.032.


Editorial overview: Cell signalling and gene regulation-communication and control as the twin pillars of systems biology.

Cao X, Meyers BC.

Curr Opin Plant Biol. 2015 Oct;27:v-viii. doi: 10.1016/j.pbi.2015.09.001. Epub 2015 Sep 30. No abstract available.


Extensive Families of miRNAs and PHAS Loci in Norway Spruce Demonstrate the Origins of Complex phasiRNA Networks in Seed Plants.

Xia R, Xu J, Arikit S, Meyers BC.

Mol Biol Evol. 2015 Nov;32(11):2905-18. doi: 10.1093/molbev/msv164. Epub 2015 Aug 28.


Evolution, functions, and mysteries of plant ARGONAUTE proteins.

Zhang H, Xia R, Meyers BC, Walbot V.

Curr Opin Plant Biol. 2015 Oct;27:84-90. doi: 10.1016/j.pbi.2015.06.011. Epub 2015 Jul 17. Review.


Novel and Recently Evolved MicroRNA Clusters Regulate Expansive F-BOX Gene Networks through Phased Small Interfering RNAs in Wild Diploid Strawberry.

Xia R, Ye S, Liu Z, Meyers BC, Liu Z.

Plant Physiol. 2015 Sep;169(1):594-610. doi: 10.1104/pp.15.00253. Epub 2015 Jul 4.


Secondary siRNAs from Medicago NB-LRRs modulated via miRNA-target interactions and their abundances.

Fei Q, Li P, Teng C, Meyers BC.

Plant J. 2015 Aug;83(3):451-65. doi: 10.1111/tpj.12900. Epub 2015 Jun 30.


miRVine: a microRNA expression atlas of grapevine based on small RNA sequencing.

Belli Kullan J, Lopes Paim Pinto D, Bertolini E, Fasoli M, Zenoni S, Tornielli GB, Pezzotti M, Meyers BC, Farina L, Pè ME, Mica E.

BMC Genomics. 2015 May 16;16:393. doi: 10.1186/s12864-015-1610-5.


Identification and functional characterization of soybean root hair microRNAs expressed in response to Bradyrhizobium japonicum infection.

Yan Z, Hossain MS, Valdés-López O, Hoang NT, Zhai J, Wang J, Libault M, Brechenmacher L, Findley S, Joshi T, Qiu L, Sherrier DJ, Ji T, Meyers BC, Xu D, Stacey G.

Plant Biotechnol J. 2016 Jan;14(1):332-41. doi: 10.1111/pbi.12387. Epub 2015 May 14.


Distinct and cooperative activities of HESO1 and URT1 nucleotidyl transferases in microRNA turnover in Arabidopsis.

Tu B, Liu L, Xu C, Zhai J, Li S, Lopez MA, Zhao Y, Yu Y, Ramachandran V, Ren G, Yu B, Li S, Meyers BC, Mo B, Chen X.

PLoS Genet. 2015 Apr 30;11(4):e1005119. doi: 10.1371/journal.pgen.1005119. eCollection 2015 Apr.


A new approach for annotation of transposable elements using small RNA mapping.

El Baidouri M, Kim KD, Abernathy B, Arikit S, Maumus F, Panaud O, Meyers BC, Jackson SA.

Nucleic Acids Res. 2015 Jul 27;43(13):e84. doi: 10.1093/nar/gkv257. Epub 2015 Mar 26.


Identification of microRNAs and their mRNA targets during soybean nodule development: functional analysis of the role of miR393j-3p in soybean nodulation.

Yan Z, Hossain MS, Arikit S, Valdés-López O, Zhai J, Wang J, Libault M, Ji T, Qiu L, Meyers BC, Stacey G.

New Phytol. 2015 Aug;207(3):748-59. doi: 10.1111/nph.13365. Epub 2015 Mar 17.


Evolutionary patterns and coevolutionary consequences of MIRNA genes and microRNA targets triggered by multiple mechanisms of genomic duplications in soybean.

Zhao M, Meyers BC, Cai C, Xu W, Ma J.

Plant Cell. 2015 Mar;27(3):546-62. doi: 10.1105/tpc.15.00048. Epub 2015 Mar 6.


Spatiotemporally dynamic, cell-type-dependent premeiotic and meiotic phasiRNAs in maize anthers.

Zhai J, Zhang H, Arikit S, Huang K, Nan GL, Walbot V, Meyers BC.

Proc Natl Acad Sci U S A. 2015 Mar 10;112(10):3146-51. doi: 10.1073/pnas.1418918112. Epub 2015 Feb 23.


An atlas of soybean small RNAs identifies phased siRNAs from hundreds of coding genes.

Arikit S, Xia R, Kakrana A, Huang K, Zhai J, Yan Z, Valdés-López O, Prince S, Musket TA, Nguyen HT, Stacey G, Meyers BC.

Plant Cell. 2014 Dec;26(12):4584-601. doi: 10.1105/tpc.114.131847. Epub 2014 Dec 2.


The dicer-like1 homolog fuzzy tassel is required for the regulation of meristem determinacy in the inflorescence and vegetative growth in maize.

Thompson BE, Basham C, Hammond R, Ding Q, Kakrana A, Lee TF, Simon SA, Meeley R, Meyers BC, Hake S.

Plant Cell. 2014 Dec;26(12):4702-17. doi: 10.1105/tpc.114.132670. Epub 2014 Dec 2.


sPARTA: a parallelized pipeline for integrated analysis of plant miRNA and cleaved mRNA data sets, including new miRNA target-identification software.

Kakrana A, Hammond R, Patel P, Nakano M, Meyers BC.

Nucleic Acids Res. 2014 Oct;42(18):e139. doi: 10.1093/nar/gku693. Epub 2014 Aug 12.


Efficient transformation and artificial miRNA gene silencing in Lemna minor.

Cantó-Pastor A, Mollá-Morales A, Ernst E, Dahl W, Zhai J, Yan Y, Meyers BC, Shanklin J, Martienssen R.

Plant Biol (Stuttg). 2015 Jan;17 Suppl 1:59-65. doi: 10.1111/plb.12215. Epub 2014 Jul 2.


Roles of small RNAs in soybean defense against Phytophthora sojae infection.

Wong J, Gao L, Yang Y, Zhai J, Arikit S, Yu Y, Duan S, Chan V, Xiong Q, Yan J, Li S, Liu R, Wang Y, Tang G, Meyers BC, Chen X, Ma W.

Plant J. 2014 Sep;79(6):928-40. doi: 10.1111/tpj.12590. Epub 2014 Jul 28.


Distinct and concurrent pathways of Pol II- and Pol IV-dependent siRNA biogenesis at a repetitive trans-silencer locus in Arabidopsis thaliana.

Sasaki T, Lee TF, Liao WW, Naumann U, Liao JL, Eun C, Huang YY, Fu JL, Chen PY, Meyers BC, Matzke AJ, Matzke M.

Plant J. 2014 Jul;79(1):127-38. doi: 10.1111/tpj.12545. Epub 2014 Jun 13.


Genomic approaches for studying transcriptional and post-transcriptional processes.

Gregory BD, Meyers BC.

Methods. 2014 May 1;67(1):1-2. doi: 10.1016/j.ymeth.2014.03.025. No abstract available.


Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs.

Chávez Montes RA, de Fátima Rosas-Cárdenas F, De Paoli E, Accerbi M, Rymarquis LA, Mahalingam G, Marsch-Martínez N, Meyers BC, Green PJ, de Folter S.

Nat Commun. 2014 Apr 23;5:3722. doi: 10.1038/ncomms4722.


Identification of candidate genes associated with positive and negative heterosis in rice.

Venu RC, Ma J, Jia Y, Liu G, Jia MH, Nobuta K, Sreerekha MV, Moldenhauer K, McClung AM, Meyers BC, Wang GL.

PLoS One. 2014 Apr 17;9(4):e95178. doi: 10.1371/journal.pone.0095178. eCollection 2014.


Reprint of: construction of Specific Parallel Amplification of RNA Ends (SPARE) libraries for the systematic identification of plant microRNA processing intermediates.

Schapire AL, Bologna NG, Moro B, Zhai J, Meyers BC, Palatnik JF.

Methods. 2014 May 1;67(1):36-44. doi: 10.1016/j.ymeth.2014.04.001. Epub 2014 Apr 13.


miRNAs trigger widespread epigenetically activated siRNAs from transposons in Arabidopsis.

Creasey KM, Zhai J, Borges F, Van Ex F, Regulski M, Meyers BC, Martienssen RA.

Nature. 2014 Apr 17;508(7496):411-5. doi: 10.1038/nature13069. Epub 2014 Mar 16.

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