An Lab Publications

The Laboratory of Wenfeng An

Recent Publications

Kong L, Saha S, Hu Y, Tschetter JN, Habben CE, Whitmore LS, Yao C, Ge X, Ye P, Newkirk SJ, An W. Subfamily-specific differential contribution of individual monomers and the tether sequence to mouse L1 promoter activity. Mobile DNA, 13 (2022). PMID: 35443687. PMCID: PMC9022269. DOI: 10.1186/s13100-022-00269-z. Posted December 04, 2021 on bioRxiv (initial version)

Gu Z, Liu Y, Zhang Y, Cao H, Lyu J, Wang X, Wylie A, Newkirk SJ, Jones AE, Lee M Jr., Botten GA, Deng M, Dickerson KE, Zhang CC, An W, Abrams JM, & Xu J. Silencing of LINE-1 retrotransposons is a selective dependency of myeloid leukemia. Nature Genetics, 53:672–682 (2021). PMID: 33833453. PMCID: PMC8270111. DOI: 10.1038/s41588-021-00829-8

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. PMCID: PMC7714369. 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 (2020). 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 . 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.