Publications

Here's what we've been up to! Check out our latest papers!

 

For a link to JM Claycomb in PubMed, click here.

For a link to Julie Claycomb's Google Scholar Profile,click here.

 

Small RNAs and C. elegans:

Post-transcriptional regulation of gene expression.

Lipshitz HD, Claycomb JM, Smibert CA.

Methods. 2017 Aug 15;126:1-2. doi: 10.1016/j.ymeth.2017.08.007. No abstract available.

PMID: 28867174

 

The Conserved Intron Binding Protein EMB-4 Plays Differential Roles in Germline Small RNA Pathways of C. elegans.

Tyc KM, Nabih A, Wu MZ, Wedeles CJ, Sobotka JA, Claycomb JM.

Dev Cell. 2017 Aug 7;42(3):256-270.e6. doi: 10.1016/j.devcel.2017.07.003.

PMID: 28787592

 

The Helicase Aquarius/EMB-4 Is Required to Overcome Intronic Barriers to Allow Nuclear RNAi Pathways to Heritably Silence Transcription.

Akay A, Di Domenico T, Suen KM, Nabih A, Parada GE, Larance M, Medhi R, Berkyurek AC, Zhang X, Wedeles CJ, Rudolph KLM, Engelhardt J, Hemberg M, Ma P, Lamond AI, Claycomb JM, Miska EA.

Dev Cell. 2017 Aug 7;42(3):241-255.e6. doi: 10.1016/j.devcel.2017.07.002.

PMID: 28787591 

 

Examining the intersection between splicing, nuclear export and small RNA pathways.

Nabih A, Sobotka JA, Wu MZ, Wedeles CJ, Claycomb JM.

Biochim Biophys Acta. 2017 Nov;1861(11 Pt B):2948-2955. doi: 10.1016/j.bbagen.2017.05.027. Epub 2017 May 31. Review.

PMID: 28578161

 

The Smaug RNA-Binding Protein Is Essential for microRNA Synthesis During the Drosophila Maternal-to-zygotic Transition.

Luo H, Li X, Claycomb JM, Lipshitz HD.

G3 (Bethesda). 2016 Sep 2. pii: g3.116.034199. doi: 10.1534/g3.116.034199. [Epub ahead of print]

PMID: 27591754 

 

Comparative genomic analysis of upstream miRNA regulatory motifs in Caenorhabditis.

Jovelin R, Krizus A, Taghizada B, Gray JC, Phillips PC, Claycomb JM, Cutter AD.

RNA. 2016 Jul;22(7):968-78. doi: 10.1261/rna.055392.115. Epub 2016 May 2.

PMID: 27140965 

 

Comparative functional characterization of the CSR-1 22G-RNA pathway in Caenorhabditis nematodes.

Tu S, Wu MZ, Wang J, Cutter AD, Weng Z, Claycomb JM.

Nucleic Acids Res. 2015 Jan;43(1):208-24. doi: 10.1093/nar/gku1308. Epub 2014 Dec 15.

PMID: 25510497 

 

From early lessons to new frontiers: the worm as a treasure trove of small RNA biology.

Youngman EM, Claycomb JM.

Front Genet. 2014 Nov 27;5:416. doi: 10.3389/fgene.2014.00416. eCollection 2014. Review.

PMID: 25505902 

 

Silent no more: Endogenous small RNA pathways promote gene expression.

Wedeles CJ, Wu MZ, Claycomb JM.

Worm. 2014 Apr 2;3:e28641. doi: 10.4161/worm.28641. eCollection 2014.

PMID: 25254148 

 

Ancient endo-siRNA pathways reveal new tricks.

Claycomb JM.

Curr Biol. 2014 Aug 4;24(15):R703-15. doi: 10.1016/j.cub.2014.06.009. Review.

PMID: 25093565 

 

Epstein-Barr virus EBNA1 protein regulates viral latency through effects on let-7 microRNA and dicer.

Mansouri S, Pan Q, Blencowe BJ, Claycomb JM, Frappier L.

J Virol. 2014 Oct;88(19):11166-77. doi: 10.1128/JVI.01785-14. Epub 2014 Jul 16.

PMID: 25031339 

 

Emerging from the clouds: Vasa helicase sheds light on piRNA amplification.

Claycomb JM.

Dev Cell. 2014 Jun 23;29(6):632-4. doi: 10.1016/j.devcel.2014.06.009.

PMID: 24960691 

 

Protection of germline gene expression by the C. elegans Argonaute CSR-1.

Wedeles CJ, Wu MZ, Claycomb JM.

Dev Cell. 2013 Dec 23;27(6):664-71.

PMID: 24360783 

 

A multitasking Argonaute: exploring the many facets of C. elegans CSR-1.

Wedeles CJ, Wu MZ, Claycomb JM.

Chromosome Res. 2013 Dec;21(6-7):573-86. doi: 10.1007/s10577-013-9383-7. Review.

PMID: 24178449

 

Caenorhabditis elegans small RNA pathways make their mark on chromatin.

Claycomb JM.

DNA Cell Biol. 2012 Oct;31 Suppl 1:S17-33. doi: 10.1089/dna.2012.1611. Review.

PMID: 23046453

 

Cloning Argonaute-associated small RNAs from Caenorhabditis elegans.

Gu W, Claycomb JM, Batista PJ, Mello CC, Conte D.

Methods Mol Biol. 2011;725:251-80. doi: 10.1007/978-1-61779-046-1_17.

PMID: 21528459

 

Argonautes ALG-3 and ALG-4 are required for spermatogenesis-specific 26G-RNAs and thermotolerant sperm in Caenorhabditis elegans.

Conine CC, Batista PJ, Gu W, Claycomb JM, Chaves DA, Shirayama M, Mello CC.

Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3588-93. doi: 10.1073/pnas.0911685107. Epub 2010 Feb 4.

PMID: 20133686 

 

Sequential rounds of RNA-dependent RNA transcription drive endogenous small-RNA biogenesis in the ERGO-1/Argonaute pathway.

Vasale JJ, Gu W, Thivierge C, Batista PJ, Claycomb JM, Youngman EM, Duchaine TF, Mello CC, Conte D Jr.

Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3582-7. doi: 10.1073/pnas.0911908107. Epub 2010 Feb 2.

PMID: 20133583 

 

CDE-1 affects chromosome segregation through uridylation of CSR-1-bound siRNAs.

van Wolfswinkel JC, Claycomb JM, Batista PJ, Mello CC, Berezikov E, Ketting RF.

Cell. 2009 Oct 2;139(1):135-48. doi: 10.1016/j.cell.2009.09.012.

PMID: 19804759 

 

The Argonaute CSR-1 and its 22G-RNA cofactors are required for holocentric chromosome segregation.

Claycomb JM, Batista PJ, Pang KM, Gu W, Vasale JJ, van Wolfswinkel JC, Chaves DA, Shirayama M, Mitani S, Ketting RF, Conte D Jr, Mello CC.

Cell. 2009 Oct 2;139(1):123-34. doi: 10.1016/j.cell.2009.09.014.

PMID: 19804758 

 

Distinct argonaute-mediated 22G-RNA pathways direct genome surveillance in the C. elegans germline.

Gu W, Shirayama M, Conte D Jr, Vasale J, Batista PJ, Claycomb JM, Moresco JJ, Youngman EM, Keys J, Stoltz MJ, Chen CC, Chaves DA, Duan S, Kasschau KD, Fahlgren N, Yates JR 3rd, Mitani S, Carrington JC, Mello CC.

Mol Cell. 2009 Oct 23;36(2):231-44. doi: 10.1016/j.molcel.2009.09.020. Epub 2009 Oct 1.

PMID: 19800275 

 

PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans.

Batista PJ, Ruby JG, Claycomb JM, Chiang R, Fahlgren N, Kasschau KD, Chaves DA, Gu W, Vasale JJ, Duan S, Conte D Jr, Luo S, Schroth GP, Carrington JC, Bartel DP, Mello CC.

Mol Cell. 2008 Jul 11;31(1):67-78. doi: 10.1016/j.molcel.2008.06.002. Epub 2008 Jun 19.

PMID: 18571452 

 

B.C. (Before C. elegans):

Developmental gene amplification: insights into DNA replication and gene expression.

Claycomb JM, Orr-Weaver TL.

Trends Genet. 2005 Mar;21(3):149-62. Review.

PMID: 15734574

 

Gene amplification as a developmental strategy: isolation of two developmental amplicons in Drosophila.

Claycomb JM, Benasutti M, Bosco G, Fenger DD, Orr-Weaver TL.

Dev Cell. 2004 Jan;6(1):145-55.

PMID: 14723854 

 

Visualization of replication initiation and elongation in Drosophila.

Claycomb JM, MacAlpine DM, Evans JG, Bell SP, Orr-Weaver TL.

J Cell Biol. 2002 Oct 28;159(2):225-36. Epub 2002 Oct 28.

PMID: 12403810


Funding

We are grateful to the funding agencies that currently support our research.