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An Lab Publications

The Laboratory of Wenfeng An

Recent Publications

Newkirk SJ, Kong L, Jones MM, Habben CE, Dilts VL, Ye P, & An W. Subfamily-specific quantification of endogenous L1 retrotransposons by droplet digital PCR. Analytical Biochemistry, 601:113779 (2020). PMID: 32442414. NIHMSID: NIHMS1596773. DOI: 10.1016/j.ab.2020.113779

Liu R, Sreenivasan C, Yu H, Sheng Z, Newkirk SJ, An W, Smith DF, Chen X, Wang D, & Li F. Influenza D virus diverges from its related influenza C virus in the recognition of 9-O-acetylated N-acetyl- or N-glycolyl-neuraminic acid-containing glycan receptors. Virology, 545:16-23 (2020). PMID: 32174455. PMCID: PMC7174096. DOI: 10.1016/j.virol.2020.02.007

Newkirk SJ, & An W. UHRF1: a jack of all trades, and a master epigenetic regulator during spermatogenesis. Biology of Reproduction, 102:1147-1152. PMID: 32101289. PMCID: PMC7253785. DOI: 10.1093/biolre/ioaa026

Ray DA, Paulat N, An W, Boissinot S, Cordaux R, Kaul T, Freeman B, & Belancio V. The 2019 FASEB Science Research Conference on The Mobile DNA Conference: 25 Years of Discussion and Research, June 23–28, Palm Springs, California, USA. FASEB Journal, 33(11):11625-11628 (2019). PMID: 31671501. DOI: 10.1096/fj.201902390

Vazquez BN, Thackray JK, Simonet N, Chahar S, Kane-Goldsmith N, Newkirk SJ, Lee S, Xing J, Verzi MP, An W, Vaquero A, Tischfield JA, & Serrano L. SIRT7 mediates L1 elements transcriptional repression and their association with the nuclear lamina. Nucleic Acids Research, 47:7870–7885 (2019). PMID: 31226208. PMCID: PMC6735864. DOI: 10.1093/nar/gkz519

Wang Z, McSwiggin H, Newkirk SJ, Wang Y, Oliver D, Tang C, Lee S, Wang S, Yuan S, Zheng H, Ye P, An W, & Yan W. Insertion of a chimeric retrotransposon sequence in mouse Axin1 locus causes metastable kinky tail phenotype. Mobile DNA, 10:17 (2019). PMID: 31073336. PMCID: PMC6500023. DOI: 10.1186/s13100-019-0162-7

Saha P, & An W. Recently Mobilized Transposons in the Human Genome. In: Encyclopedia of Life Sciences. John Wiley & Sons Ltd, Chichester. (2019). DOI: 10.1002/9780470015902.a0020837 (Download PDF)

Reznik B, Cincotta SA, Jaszczak RG, Mateo LJ, Shen J, Cao M, Baskin L, Ye P, An W, & Laird DJ. Heterogeneity of transposon expression and activation of the repressive network in human fetal germ cells. Development 146(12):dev171157 (2019). PMID: 30658985. PMCID: PMC6602354 [Available on 2020-06-15]. DOI: 10.1242/dev.171157

Kawano K, Doucet AJ, Ueno M, Kariya R, An W, Marzetta F, Kuroki M, Turelli P, Sukegawa S, Okada S, Strebel K, Trono D, & Ariumi Y. HIV-1 Vpr and p21 restrict LINE-1 mobility. Nucleic Acids Research 46:8454–8470 (2018). PMID: 30085096. PMCID: PMC6144823. DOI: 10.1093/nar/gky688

Sheng Z, Liu R, Yu J, Ran Z, Newkirk SJ, An W, Li F, & Wang D. Identification and characterization of viral defective RNA genomes in influenza B virus. Journal of General Virology 99(4):475-488 (2018). PMID: 29458654. PMCID: PMC5982128. DOI: 10.1099/jgv.0.001018

Newkirk SJ, Lee S, Grandi FC, Gaysinskaya V, Rosser JM, Vanden Berg N, Hogarth CA, Marchetto MCN, Muotri AR, Griswold MD, Ye P, Bortvin A, Gage FH, Boeke JD, & An W. Intact piRNA pathway prevents L1 mobilization in male meiosis. Proc Natl Acad Sci U S A 114:E5635–E5644 (2017). PMID: 28630288. PMCID: PMC5514719. DOI: 10.1073/pnas.1701069114. Commented by: Wang PJ. Tracking LINE1 retrotransposition in the germline. Proc Natl Acad Sci U S A 114:7194–7196 (2017). Highlighted by: Chen C. A novel reporter mouse to monitor in vivo retrotransposition in the germline. Biology of Reproduction 97:335-336 (2017)

Kannan M, Li J, Fritz SE, Husarek KE, Sanford JC, Sullivan TL, Tiwary PK, An W, Boeke JD, & Symer EE. Dynamic silencing of somatic L1 retrotransposon insertions reflects the developmental and cellular contexts of their genomic integration. Mobile DNA 8:8 (2017). PMID: 28491150. PMCID: PMC5424313. DOI: 10.1186/s13100-017-0091-2.

Newkirk SJ, & An W. L1 Regulation in Mouse and Human Germ Cells. in Human Retrotransposons in Health and Disease, ed Cristofari G (Springer International Publishing), pp 29-61 (2017). DOI: 10.1007/978-3-319-48344-3_2. (PDF available)

Kharytonchyk S, King SR, Ndongmo CB, Stilger KL, An W, & Telesnitsky A. Resolution of Specific Nucleotide Mismatches by Wild-Type and AZT-Resistant Reverse Transcriptases during HIV-1 Replication. Journal of Molecular Biology. 428:2275–2288 (2016). PMID: 27075671. PMCID: PMC4884515. DOI: 10.1016/j.jmb.2016.04.005.

Grandi FC, Rosser JM, Newkirk SJ, Yin J, Jiang X, Xing Z, Whitmore L, Bashir S, Ivics Z, Izsvák Z, Ye P, Yu YE, & An W. Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites. Genome Research. 25:1135-1146 (2015). PMID: 25995269. PMCID: PMC4509998. DOI: 10.1101/gr.185132.114.

Grandi FC, & An W. Non-LTR retrotransposons and microsatellites: Partners in genomic variation. Mobile Genetic Elements. 3:e25674 (2013). PMID: 24195012. PMCID: PMC3812793. DOI: 10.4161/mge.25674.

O'Donnell KA, An W, Schrum CT, Wheelan SJ, & Boeke JD. Controlled insertional mutagenesis using a LINE-1 (ORFeus) gene-trap mouse model. Proc Natl Acad Sci U S A 110:E2706-13 (2013). PMID: 23818630. PMCID: PMC3718180. DOI: 10.1073/pnas.1302504110.

Xie Y, Mates L, Ivics Z, Izsvák Z, Martin SL, & An W. Cell division promotes efficient retrotransposition in a stable L1 reporter cell line. Mobile DNA. 4:10 (2013). PMID: 23497436. PMCID: PMC3607998. DOI: 10.1186/1759-8753-4-10.

Grandi FC, Rosser JM, & An W. LINE-1 derived poly(A) microsatellites undergo rapid shortening and create somatic and germline mosaicism in mice. Molecular Biology and Evolution. 30:503-12 (2013). PMID: 23125228. PMCID: PMC3563966. DOI: 10.1093/molbev/mss251.

Ray D, Hogarth CA, Evans EB, An W, Griswold MD, & Ye P. Experimental validation of Ankrd17 and Anapc10, two novel meiotic genes predicted by computational models in mice. Biology of Reproduction 86(4):102 (2012). PMID: 22190705. PMCID: PMC4480071. DOI: 10.1095/biolreprod.111.095216.

Rosser JM, & An W. L1 expression and regulation in humans and rodents. Frontiers in Bioscience E4:2203-25 (2012). PMID: 22202032. PMCID: PMC4457320

An W, Dai L, Niewiadomska AM, Yetil A, O'Donnell KA, Han JS, & Boeke JD. Characterization of a synthetic human LINE-1 retrotransposon ORFeus-Hs. Mobile DNA. 2:2 (2011). PMID: 21320307. PMCID: PMC3045867. DOI: 10.1186/1759-8753-2-2.

Xie Y, Rosser JM, Thompson TL, Boeke JD, & An W. Characterization of L1 retrotransposition with high-throughput dual-luciferase assays. Nucleic Acids Research 39, e16 (2011). PMID: 21320307. PMCID: PMC3045867. DOI: 10.1093/nar/gkq1076.

Rosser JM, & An W. Repeat-induced gene silencing of L1 transgenes is correlated with differential promoter methylation. Gene 456, 15-23 (2010). PMID: 20167267. PMCID: PMC3001326. DOI: 10.1016/j.gene.2010.02.005.

An W, Davis ES, Thompson TL, O'Donnell KA, Lee C-Y, & Boeke JD. Plug and play modular strategies for synthetic retrotransposons. Methods 49, 227-35 (2009). PMID: 19481606. PMCID: PMC2763960. DOI: 10.1016/j.ymeth.2009.05.013.

Han Y, Lin YB, An W, Xu J, Yang HC, O'Connell K, Dordai D, Boeke JD, Siliciano JD, & Siliciano RF. Orientation-dependent regulation of integrated HIV-1 expression by host gene transcriptional readthrough. Cell Host Microbe 4, 134-46 (2008). PMID: 18692773. PMCID: PMC2604135. DOI: 10.1016/j.chom.2008.06.008.

An W, Han JS, Schrum CM, Maitra A, Koentgen F, & Boeke JD. Conditional activation of a single-copy L1 transgene in mice by Cre. Genesis 46, 373-83 (2008). PMID: 18615728. PMCID: PMC2614868. DOI: 10.1002/dvg.20407.

Boeke JD, An W, Dai L, Davis ES, Han, JS, O'Donnell KA, Scheifele LZ, & Wheelan, S.J. Retrotransposons-natural and synthetic. in Retrotransposition, Diversity and the Brain (eds. Gage, F.H. & Christen, Y.) 21-32 (Springer, 2008). doi:10.1007/978-3-540-74966-0_3. ISBN: 978-3-540-74965-3 (Print) 978-3-540-74966-0 (Online)

An W, Han JS, Wheelan SJ, Davis ES, Coombes CE, Ye P, Triplett C, & Boeke JD. Active retrotransposition by a synthetic L1 element in mice. Proc Natl Acad Sci U S A 103, 18662-7 (2006). PMID: 17124176. PMCID: PMC1693719. DOI: 10.1073/pnas.0605300103.

An W, & Boeke JD. Transposon technology and vertebrate functional genomics. Genome Biology 6, 361 (2005). PMID: 16356279. PMCID: PMC1414074. DOI: 10.1186/gb-2005-6-12-361.