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tRNA introns: Presence, processing, and purpose.

Schmidt CA, Matera AG.

Wiley Interdiscip Rev RNA. 2019 Dec 28:e1583. doi: 10.1002/wrna.1583. [Epub ahead of print] Review.


Comprehensive Modeling of Spinal Muscular Atrophy in Drosophila melanogaster.

Spring AM, Raimer AC, Hamilton CD, Schillinger MJ, Matera AG.

Front Mol Neurosci. 2019 May 16;12:113. doi: 10.3389/fnmol.2019.00113. eCollection 2019.


Molecular determinants of metazoan tricRNA biogenesis.

Schmidt CA, Giusto JD, Bao A, Hopper AK, Matera AG.

Nucleic Acids Res. 2019 Jul 9;47(12):6452-6465. doi: 10.1093/nar/gkz311.


H3K9 Promotes Under-Replication of Pericentromeric Heterochromatin in Drosophila Salivary Gland Polytene Chromosomes.

Armstrong RL, Penke TJR, Chao SK, Gentile GM, Strahl BD, Matera AG, McKay DJ, Duronio RJ.

Genes (Basel). 2019 Jan 29;10(2). pii: E93. doi: 10.3390/genes10020093.


Lysine 27 of replication-independent histone H3.3 is required for Polycomb target gene silencing but not for gene activation.

Leatham-Jensen M, Uyehara CM, Strahl BD, Matera AG, Duronio RJ, McKay DJ.

PLoS Genet. 2019 Jan 30;15(1):e1007932. doi: 10.1371/journal.pgen.1007932. eCollection 2019 Jan.


Composition of the Survival Motor Neuron (SMN) Complex in Drosophila melanogaster.

Matera AG, Raimer AC, Schmidt CA, Kelly JA, Droby GN, Baillat D, Ten Have S, Lamond AI, Wagner EJ, Gray KM.

G3 (Bethesda). 2019 Feb 7;9(2):491-503. doi: 10.1534/g3.118.200874.


Chromatin conformation and transcriptional activity are permissive regulators of DNA replication initiation in Drosophila.

Armstrong RL, Penke TJR, Strahl BD, Matera AG, McKay DJ, MacAlpine DM, Duronio RJ.

Genome Res. 2018 Nov;28(11):1688-1700. doi: 10.1101/gr.239913.118. Epub 2018 Oct 2.


An Animal Model for Genetic Analysis of Multi-Gene Families: Cloning and Transgenesis of Large Tandemly Repeated Histone Gene Clusters.

Meers MP, Leatham-Jensen M, Penke TJR, McKay DJ, Duronio RJ, Matera AG.

Methods Mol Biol. 2018;1832:309-325. doi: 10.1007/978-1-4939-8663-7_17.


Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster.

Meers MP, Adelman K, Duronio RJ, Strahl BD, McKay DJ, Matera AG.

BMC Genomics. 2018 Feb 21;19(1):157. doi: 10.1186/s12864-018-4510-7.


Gemin4 is an essential gene in mice, and its overexpression in human cells causes relocalization of the SMN complex to the nucleoplasm.

Meier ID, Walker MP, Matera AG.

Biol Open. 2018 Feb 1;7(2). pii: bio032409. doi: 10.1242/bio.032409.


Self-oligomerization regulates stability of survival motor neuron protein isoforms by sequestering an SCFSlmb degron.

Gray KM, Kaifer KA, Baillat D, Wen Y, Bonacci TR, Ebert AD, Raimer AC, Spring AM, Have ST, Glascock JJ, Gupta K, Van Duyne GD, Emanuele MJ, Lamond AI, Wagner EJ, Lorson CL, Matera AG.

Mol Biol Cell. 2018 Jan 15;29(2):96-110. doi: 10.1091/mbc.E17-11-0627. Epub 2017 Nov 22.


Functional Redundancy of Variant and Canonical Histone H3 Lysine 9 Modification in Drosophila.

Penke TJR, McKay DJ, Strahl BD, Matera AG, Duronio RJ.

Genetics. 2018 Jan;208(1):229-244. doi: 10.1534/genetics.117.300480. Epub 2017 Nov 13.


Engineering and expressing circular RNAs via tRNA splicing.

Noto JJ, Schmidt CA, Matera AG.

RNA Biol. 2017 Aug 3;14(8):978-984. doi: 10.1080/15476286.2017.1317911. Epub 2017 Apr 12.


Histone gene replacement reveals a post-transcriptional role for H3K36 in maintaining metazoan transcriptome fidelity.

Meers MP, Henriques T, Lavender CA, McKay DJ, Strahl BD, Duronio RJ, Adelman K, Matera AG.

Elife. 2017 Mar 27;6. pii: e23249. doi: 10.7554/eLife.23249.


SMN - A chaperone for nuclear RNP social occasions?

Raimer AC, Gray KM, Matera AG.

RNA Biol. 2017 Jun 3;14(6):701-711. doi: 10.1080/15476286.2016.1236168. Epub 2016 Sep 20. Review.


A critical examination of the recently reported crystal structures of the human SMN protein.

Weiss MS, Diederichs K, Read RJ, Panjikar S, Van Duyne GD, Matera AG, Fischer U, Grimm C.

Hum Mol Genet. 2016 Aug 29;25(21):4717–4725. doi: 10.1093/hmg/ddw298.


Direct interrogation of the role of H3K9 in metazoan heterochromatin function.

Penke TJ, McKay DJ, Strahl BD, Matera AG, Duronio RJ.

Genes Dev. 2016 Aug 15;30(16):1866-80. doi: 10.1101/gad.286278.116. Epub 2016 Aug 26.


A Method for Expressing and Imaging Abundant, Stable, Circular RNAs In Vivo Using tRNA Splicing.

Schmidt CA, Noto JJ, Filonov GS, Matera AG.

Methods Enzymol. 2016;572:215-36. doi: 10.1016/bs.mie.2016.02.018. Epub 2016 Mar 25.


Metazoan tRNA introns generate stable circular RNAs in vivo.

Lu Z, Filonov GS, Noto JJ, Schmidt CA, Hatkevich TL, Wen Y, Jaffrey SR, Matera AG.

RNA. 2015 Sep;21(9):1554-65. doi: 10.1261/rna.052944.115. Epub 2015 Jul 20.


Twenty years of RNA: reflections from the RNP world.

Matera AG.

RNA. 2015 Apr;21(4):690-1. doi: 10.1261/rna.050153.115. No abstract available.


Interrogating the function of metazoan histones using engineered gene clusters.

McKay DJ, Klusza S, Penke TJ, Meers MP, Curry KP, McDaniel SL, Malek PY, Cooper SW, Tatomer DC, Lieb JD, Strahl BD, Duronio RJ, Matera AG.

Dev Cell. 2015 Feb 9;32(3):373-86. doi: 10.1016/j.devcel.2014.12.025.


Developmental analysis of spliceosomal snRNA isoform expression.

Lu Z, Matera AG.

G3 (Bethesda). 2014 Nov 21;5(1):103-10. doi: 10.1534/g3.114.015735.


SMA-causing missense mutations in survival motor neuron (Smn) display a wide range of phenotypes when modeled in Drosophila.

Praveen K, Wen Y, Gray KM, Noto JJ, Patlolla AR, Van Duyne GD, Matera AG.

PLoS Genet. 2014 Aug 21;10(8):e1004489. doi: 10.1371/journal.pgen.1004489. eCollection 2014 Aug.


Vicinal: a method for the determination of ncRNA ends using chimeric reads from RNA-seq experiments.

Lu Z, Matera AG.

Nucleic Acids Res. 2014 May;42(9):e79. doi: 10.1093/nar/gku207. Epub 2014 Mar 12.


A day in the life of the spliceosome.

Matera AG, Wang Z.

Nat Rev Mol Cell Biol. 2014 Feb;15(2):108-21. doi: 10.1038/nrm3742. Review. Erratum in: Nat Rev Mol Cell Biol. 2014 Apr;15(4):294.


RIP-seq analysis of eukaryotic Sm proteins identifies three major categories of Sm-containing ribonucleoproteins.

Lu Z, Guan X, Schmidt CA, Matera AG.

Genome Biol. 2014 Jan 7;15(1):R7. doi: 10.1186/gb-2014-15-1-r7.


Developmental arrest of Drosophila survival motor neuron (Smn) mutants accounts for differences in expression of minor intron-containing genes.

Garcia EL, Lu Z, Meers MP, Praveen K, Matera AG.

RNA. 2013 Nov;19(11):1510-6. doi: 10.1261/rna.038919.113. Epub 2013 Sep 4.


Identification and characterization of Drosophila Snurportin reveals a role for the import receptor Moleskin/importin-7 in snRNP biogenesis.

Natalizio AH, Matera AG.

Mol Biol Cell. 2013 Sep;24(18):2932-42. doi: 10.1091/mbc.E13-03-0118. Epub 2013 Jul 24.


A Drosophila model of spinal muscular atrophy uncouples snRNP biogenesis functions of survival motor neuron from locomotion and viability defects.

Praveen K, Wen Y, Matera AG.

Cell Rep. 2012 Jun 28;1(6):624-31. doi: 10.1016/j.celrep.2012.05.014. Epub 2012 Jun 21.


The Drosophila 7SK snRNP and the essential role of dHEXIM in development.

Nguyen D, Krueger BJ, Sedore SC, Brogie JE, Rogers JT, Rajendra TK, Saunders A, Matera AG, Lis JT, Uguen P, Price DH.

Nucleic Acids Res. 2012 Jul;40(12):5283-97. doi: 10.1093/nar/gks191. Epub 2012 Feb 29.


Genetic analysis of nuclear bodies: from nondeterministic chaos to deterministic order.

Rajendra TK, Praveen K, Matera AG.

Cold Spring Harb Symp Quant Biol. 2010;75:365-74. doi: 10.1101/sqb.2010.75.043. Epub 2011 Apr 5.


Molecular determinants of survival motor neuron (SMN) protein cleavage by the calcium-activated protease, calpain.

Fuentes JL, Strayer MS, Matera AG.

PLoS One. 2010 Dec 30;5(12):e15769. doi: 10.1371/journal.pone.0015769.


Functional characterization of the Drosophila MRP (mitochondrial RNA processing) RNA gene.

Schneider MD, Bains AK, Rajendra TK, Dominski Z, Matera AG, Simmonds AJ.

RNA. 2010 Nov;16(11):2120-30. doi: 10.1261/rna.2227710. Epub 2010 Sep 20.


Sm proteins specify germ cell fate by facilitating oskar mRNA localization.

Gonsalvez GB, Rajendra TK, Wen Y, Praveen K, Matera AG.

Development. 2010 Jul;137(14):2341-51. doi: 10.1242/dev.042721.


Nuclear bodies: random aggregates of sticky proteins or crucibles of macromolecular assembly?

Matera AG, Izaguire-Sierra M, Praveen K, Rajendra TK.

Dev Cell. 2009 Nov;17(5):639-47. doi: 10.1016/j.devcel.2009.10.017. Review.


Reduced viability, fertility and fecundity in mice lacking the cajal body marker protein, coilin.

Walker MP, Tian L, Matera AG.

PLoS One. 2009 Jul 9;4(7):e6171. doi: 10.1371/journal.pone.0006171.


Coilin is essential for Cajal body organization in Drosophila melanogaster.

Liu JL, Wu Z, Nizami Z, Deryusheva S, Rajendra TK, Beumer KJ, Gao H, Matera AG, Carroll D, Gall JG.

Mol Biol Cell. 2009 Mar;20(6):1661-70. doi: 10.1091/mbc.E08-05-0525. Epub 2009 Jan 21.


Gemin3 is an essential gene required for larval motor function and pupation in Drosophila.

Shpargel KB, Praveen K, Rajendra TK, Matera AG.

Mol Biol Cell. 2009 Jan;20(1):90-101. doi: 10.1091/mbc.E08-01-0024. Epub 2008 Oct 15.


SMN complex localizes to the sarcomeric Z-disc and is a proteolytic target of calpain.

Walker MP, Rajendra TK, Saieva L, Fuentes JL, Pellizzoni L, Matera AG.

Hum Mol Genet. 2008 Nov 1;17(21):3399-410. doi: 10.1093/hmg/ddn234. Epub 2008 Aug 8.


Where in the cell is the minor spliceosome?

Steitz JA, Dreyfuss G, Krainer AR, Lamond AI, Matera AG, Padgett RA.

Proc Natl Acad Sci U S A. 2008 Jun 24;105(25):8485-6. doi: 10.1073/pnas.0804024105. Epub 2008 Jun 17. No abstract available.


Sm protein methylation is dispensable for snRNP assembly in Drosophila melanogaster.

Gonsalvez GB, Praveen K, Hicks AJ, Tian L, Matera AG.

RNA. 2008 May;14(5):878-87. doi: 10.1261/rna.940708. Epub 2008 Mar 27.


Actin-dependent intranuclear repositioning of an active gene locus in vivo.

Dundr M, Ospina JK, Sung MH, John S, Upender M, Ried T, Hager GL, Matera AG.

J Cell Biol. 2007 Dec 17;179(6):1095-103. Epub 2007 Dec 10.


Two distinct arginine methyltransferases are required for biogenesis of Sm-class ribonucleoproteins.

Gonsalvez GB, Tian L, Ospina JK, Boisvert FM, Lamond AI, Matera AG.

J Cell Biol. 2007 Aug 27;178(5):733-40. Epub 2007 Aug 20.


A Drosophila melanogaster model of spinal muscular atrophy reveals a function for SMN in striated muscle.

Rajendra TK, Gonsalvez GB, Walker MP, Shpargel KB, Salz HK, Matera AG.

J Cell Biol. 2007 Mar 12;176(6):831-41.


Non-coding RNAs: lessons from the small nuclear and small nucleolar RNAs.

Matera AG, Terns RM, Terns MP.

Nat Rev Mol Cell Biol. 2007 Mar;8(3):209-20. doi: 10.1038/nrm2124. Review.


UV-induced fragmentation of Cajal bodies.

Cioce M, Boulon S, Matera AG, Lamond AI.

J Cell Biol. 2006 Nov 6;175(3):401-13.


FLASH is required for histone transcription and S-phase progression.

Barcaroli D, Bongiorno-Borbone L, Terrinoni A, Hofmann TG, Rossi M, Knight RA, Matera AG, Melino G, De Laurenzi V.

Proc Natl Acad Sci U S A. 2006 Oct 3;103(40):14808-12. Epub 2006 Sep 26.


The Sm-protein methyltransferase, dart5, is essential for germ-cell specification and maintenance.

Gonsalvez GB, Rajendra TK, Tian L, Matera AG.

Curr Biol. 2006 Jun 6;16(11):1077-89.


Conserved zinc fingers mediate multiple functions of ZFP100, a U7snRNP associated protein.

Wagner EJ, Ospina JK, Hu Y, Dundr M, Matera AG, Marzluff WF.

RNA. 2006 Jul;12(7):1206-18. Epub 2006 May 18.

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