Aravin, Alexei

Combined from CaltechAUTHORS

• Chen, Peiwei and Pan, Katherine C., el al. (2024) Escalation of genome defense capacity enables control of an expanding meiotic driver; PMCID PMC11195268; 10.1101/2024.06.12.598716
• Godneeva, Baira and Ninova, Maria, el al. (2023) SUMOylation of Bonus, the Drosophila homolog of Transcription Intermediary Factor 1, safeguards germline identity by recruiting repressive chromatin complexes to silence tissue-specific genes; eLife; Vol. 12; RP89493; PMCID PMC10672805; 10.7554/elife.89493
• Luo, Yicheng and He, Peng, el al. (2023) Maternally inherited siRNAs initiate piRNA cluster formation; Molecular Cell; Vol. 83; No. 21; 3835-3851.e7; PMCID PMC10846595; 10.1016/j.molcel.2023.09.033
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• Venkei, Zsolt G. and Gainetdinov, Ildar, el al. (2023) A maternally programmed intergenerational mechanism enables male offspring to make piRNAs from Y-linked precursor RNAs in Drosophila; Nature Cell Biology; Vol. 25; No. 10; 1495-1505; PMCID PMC10567549; 10.1038/s41556-023-01227-4
• Ninova, Maria and Holmes, Hannah, el al. (2023) Pervasive SUMOylation of heterochromatin and piRNA pathway proteins; Cell Genomics; Vol. 3; No. 7; 100329; PMCID PMC10363806; 10.1016/j.xgen.2023.100329
• Chen, Peiwei and Aravin, Alexei A. (2023) Genetic control of a sex-specific piRNA program; Current Biology; Vol. 33; No. 9; 1825-1835.e3; PMCID PMC10431932; 10.1016/j.cub.2023.03.057
• Esyunina, Daria and Okhtienko, Anastasiia, el al. (2023) Specific targeting of plasmids with Argonaute enables genome editing; Nucleic Acids Research; Vol. 51; No. 8; 4086-4099; PMCID PMC10164558; 10.1093/nar/gkad191
• Olina, Anna and Agapov, Aleksei, el al. (2023) Bacterial Argonaute Proteins Aid Cell Division in the Presence of Topoisomerase Inhibitors in Escherichia coli; Microbiology Spectrum; Vol. 11; No. 3; Art. No. 04146-22; PMCID PMC10269773; 10.1128/spectrum.04146-22
• Olina, Anna and Agapov, Aleksei, el al. (2023) Bacterial Argonaute proteins aid cell division in the presence of topoisomerase inhibitors in Escherichia coli; 10.1101/2022.09.13.507849
• Venkei, Zsolt G. and Gainetdinov, Ildar, el al. (2023) Drosophila Males Use 5′-to-3′ Phased Biogenesis to Make Stellate-silencing piRNAs that Lack Homology to Maternally Deposited piRNA Guides; 10.1101/2022.09.12.507655
• Lisitskaya, Lidiya and Kropocheva, Ekaterina, el al. (2023) Bacterial Argonaute nucleases reveal different modes of DNA targeting in vitro and in vivo; 10.1101/2022.09.09.507302
• Chen, Peiwei and Aravin, Alexei A. (2023) Genetic control of a sex-specific piRNA program; 10.1101/2022.10.25.513766
• Ninova, Maria and Lomenick, Brett, el al. (2022) Pervasive SUMOylation of heterochromatin and piRNA pathway proteins; 10.1101/2022.08.15.504007
• Lisitskaya, Lidiya and Shin, Yeonoh, el al. (2022) Programmable RNA targeting by bacterial Argonaute nucleases with unconventional guide binding and cleavage specificity; Nature Communications; Vol. 13; Art. No. 4624; PMCID PMC9360449; 10.1038/s41467-022-32079-5
• Esyunina, Daria and Okhtienko, Anastasiia, el al. (2022) Specific targeting of plasmids with Argonaute enables genome editing; 10.1101/2022.04.14.488398
• Luo, Yicheng and He, Peng, el al. (2022) Maternally inherited siRNAs initiate piRNA cluster formation; 10.1101/2022.02.08.479612
• Chen, Peiwei and Aravin, Alexei A. (2021) Transposon-taming piRNAs in the germline: Where do they come from?; Molecular Cell; Vol. 81; No. 19; 3884-3885; 10.1016/j.molcel.2021.09.017
• Chen, Peiwei and Luo, Yicheng, el al. (2021) RDC complex executes a dynamic piRNA program during Drosophila spermatogenesis to safeguard male fertility; PLoS Genetics; Vol. 17; No. 9; Art. No. e1009591; PMCID PMC8412364; 10.1371/journal.pgen.1009591
• Huang, Xiawei and Hu, Hongmiao, el al. (2021) Binding of guide piRNA triggers methylation of the unstructured N-terminal region of Aub leading to assembly of the piRNA amplification complex; Nature Communications; Vol. 12; Art. No. 4061; 10.1038/s41467-021-24351-x
• Lisitskaya, L. and Esyunina, D., el al. (2021) Analysis of a putative nuclease associated with the Argonaute protein from Rhodobacter sphaeroides; FEBS Open Bio; Vol. 11; No. S1; 238; 10.1002/2211-5463.13205
• Chen, Peiwei and Kotov, Alexei A., el al. (2021) piRNA-mediated gene regulation and adaptation to sex-specific transposon expression in D. melanogaster male germline; Genes and Development; Vol. 35; No. 11-12; 914-935; PMCID PMC8168559; 10.1101/gad.345041.120
• Kropocheva, Ekaterina and Kuzmenko, Anton, el al. (2021) A programmable pAgo nuclease with universal guide and target specificity from the mesophilic bacterium Kurthia massiliensis; Nucleic Acids Research; Vol. 49; No. 7; 4054-4065; PMCID PMC8053121; 10.1093/nar/gkab182
• Adashev, Vladimir E. and Kotov, Alexei A., el al. (2021) Stellate Genes and the piRNA Pathway in Speciation and Reproductive Isolation of Drosophila melanogaster; Frontiers in Genetics; Vol. 11; Art. No. 610665; PMCID PMC7874207; 10.3389/fgene.2020.610665
• Lisitskaya, Lidia and Petushkov, Ivan, el al. (2020) Recognition of double-stranded DNA by the Rhodobacter sphaeroides Argonaute protein; Biochemical and Biophysical Research Communications; Vol. 533; No. 4; 1484-1489; 10.1016/j.bbrc.2020.10.051
• Kuzmenko, Anton and Oguienko, Anastasiya, el al. (2020) DNA targeting and interference by a bacterial Argonaute nuclease; Nature; Vol. 587; No. 7835; 632-637; 10.1038/s41586-020-2605-1
• Luo, Yicheng and Fefelova, Elena, el al. (2020) Repression of interrupted and intact rDNA by the SUMO pathway in Drosophila melanogaster; eLife; Vol. 2020; No. 9; Art. No. e52416; PMCID PMC7676866; 10.7554/eLife.52416
• Aravin, Alexei A. (2020) Pachytene piRNAs as beneficial regulators or a defense system gone rogue; Nature Genetics; Vol. 52; No. 7; 644-645; 10.1038/s41588-020-0656-8
• Olina, Anna and Kuzmenko, Anton, el al. (2020) Genome-wide DNA sampling by Ago nuclease from the cyanobacterium Synechococcus elongatus; RNA Biology; Vol. 17; No. 5; 677-688; PMCID PMC7237159; 10.1080/15476286.2020.1724716
• Ninova, Maria and Chen, Yung-Chia Ariel, el al. (2020) Su(var)2-10 and the SUMO Pathway Link piRNA-Guided Target Recognition to Chromatin Silencing; Molecular Cell; Vol. 77; No. 3; 556-570; PMCID PMC7007863; 10.1016/j.molcel.2019.11.012
• Ninova, Maria and Godneeva, Baira, el al. (2020) The SUMO Ligase Su(var)2-10 Controls Hetero- and Euchromatic Gene Expression via Establishing H3K9 Trimethylation and Negative Feedback Regulation; Molecular Cell; Vol. 77; No. 3; 571-585; PMCID PMC7007874; 10.1016/j.molcel.2019.09.033
• Ninova, Maria and Fejes Tóth, Katalin, el al. (2019) The control of gene expression and cell identity by H3K9 trimethylation; Development; Vol. 146; No. 19; Art. No. dev181180; PMCID PMC6803365; 10.1242/dev.181180
• Olina, A. and Kudinova, A., el al. (2019) Catalytically active Argonaute nuclease from Synechococcus elongatus; FEBS Open Bio; Vol. 9; No. S1; 160; 10.1002/2211-5463.12675
• Kuzmenko, A. and Yudin, D., el al. (2019) Ago nucleases from Clostridium butyricum and Limnothrix rosea can process DNA substrates at moderate temperatures; FEBS Open Bio; Vol. 9; No. S1; 400; 10.1002/2211-5463.12675
• Yudin, D. and Ryazansky, S., el al. (2019) Insights into genomic DNA sampling by prokaryotic Argonaute proteins; FEBS Open Bio; Vol. 9; No. S1; 62; 10.1002/2211-5463.12675
• Kropocheva, E. and Esyunina, D., el al. (2019) Various modes of nucleic acid processing by mesophilic bacterial Argonaute proteins; FEBS Open Bio; Vol. 9; No. S1; 159; 10.1002/2211-5463.12675
• Kuzmenko, Anton and Yudin, Denis, el al. (2019) Programmable DNA cleavage by Ago nucleases from mesophilic bacteria Clostridium butyricum and Limnothrix rosea; Nucleic Acids Research; Vol. 47; No. 11; 5822-5836; PMCID PMC6582412; 10.1093/nar/gkz379
• Kotov, Alexei A. and Adashev, Vladimir E., el al. (2019) piRNA silencing contributes to interspecies hybrid sterility and reproductive isolation in Drosophila melanogaster; Nucleic Acids Research; Vol. 47; No. 8; 4255-4271; PMCID PMC6486647; 10.1093/nar/gkz130
• Lisitskaya, Lidiya and Aravin, Alexei A., el al. (2018) DNA interference and beyond: structure and functions of prokaryotic Argonaute proteins; Nature Communications; Vol. 9; Art. No. 5165; PMCID PMC6279821; 10.1038/s41467-018-07449-7
• Ryazansky, Sergei and Kulbachinskiy, Andrey, el al. (2018) The expanded universe of prokaryotic Argonaute proteins; mBio; Vol. 9; No. 6; Art. No. e01935-18; PMCID PMC6299218; 10.1128/mBio.01935-18
• Liu, Yiwei and Esyunina, Daria, el al. (2018) Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA; Cell Reports; Vol. 24; No. 2; 453-462; PMCID PMC6269105; 10.1016/j.celrep.2018.06.021
• Yudin, D. and Ryazansky, S., el al. (2018) Catalytically active Argonaute proteins from mesophilic bacteria; FEBS Open Bio; Vol. 8; No. S1; Art. No. P.01-071; 10.1002/2211-5463.12453
• Lisitskaya, L. and Petushkov, I., el al. (2018) Interactions of a bacterial Argonaute protein with DNA targets in vitro; FEBS Open Bio; Vol. 8; No. S1; Art. No. P.18-108; 10.1002/2211-5463.12453
• Kropocheva, E. and Oguienko, A., el al. (2018) Functional activities of DNA-guided and RNA-guided bacterial Argonaute proteins; FEBS Open Bio; Vol. 8; No. S1; Art. No. P.01-074; 10.1002/2211-5463.12453
• Esyunina, D. and Ninova, M., el al. (2018) Highly specific target recognition by an Argonaute protein from Rhodobacter sphaeroides; FEBS Open Bio; Vol. 8; No. S1; Art. No. P.01-076; 10.1002/2211-5463.12453
• Olina, A. V. and Kulbachinskiy, A. V., el al. (2018) Argonaute Proteins and Mechanisms of RNA Interference in Eukaryotes and Prokaryotes; Biochemistry (Moscow); Vol. 83; No. 5; 483-497; 10.1134/S0006297918050024
• Huang, Xiawei and Fejes Tóth, Katalin, el al. (2017) piRNA Biogenesis in Drosophila melanogaster; Trends in Genetics; Vol. 33; No. 11; 882-894; PMCID PMC5773129; 10.1016/j.tig.2017.09.002
• Bamezai, S. and Mulaw, M., el al. (2017) PIWIL4 Acts as a piRNA Binding, Epigenetically Active and Growth Regulatory Protein in Human Acute Myeloid Leukemia; Haematologica; Vol. 102; No. S2; Art. No. S429
• Ciabrelli, Filippo and Comoglio, Federico, el al. (2017) Stable Polycomb-dependent transgenerational inheritance of chromatin states in Drosophila; Nature Genetics; Vol. 49; No. 6; 876-886; PMCID PMC5484582; 10.1038/ng.3848
• Chen, Yung-Chia Ariel and Stuwe, Evelyn, el al. (2016) Cutoff Suppresses RNA Polymerase II Termination to Ensure Expression of piRNA Precursors; Molecular Cell; Vol. 63; No. 1; 97-109; PMCID PMC4980073; 10.1016/j.molcel.2016.05.010
• Hur, Junho K. and Luo, Yicheng, el al. (2016) Splicing-independent loading of TREX on nascent RNA is required for efficient expression of dual-strand piRNA clusters in Drosophila; Genes and Development; Vol. 30; No. 7; 840-855; PMCID PMC4826399; 10.1101/gad.276030.115
• Cheloufi, Sihem and Ninova, Maria, el al. (2015) The histone chaperone CAF-1 safeguards somatic cell identity; Nature; Vol. 528; No. 7581; 218-224; PMCID PMC4866648; 10.1038/nature15749
• Manakov, Sergei A. and Pezic, Dubravka, el al. (2015) MIWI2 and MILI Have Differential Effects on piRNA Biogenesis and DNA Methylation; Cell Reports; Vol. 12; No. 8; 1234-1243; PMCID PMC4554733; 10.1016/j.celrep.2015.07.036
• Webster, Alexandre and Li, Sisi, el al. (2015) Aub and Ago3 Are Recruited to Nuage through Two Mechanisms to Form a Ping-Pong Complex Assembled by Krimper; Molecular Cell; Vol. 59; No. 4; 564-575; PMCID PMC4545750; 10.1016/j.molcel.2015.07.017
• Marinov, Georgi K. and Wang, Jie, el al. (2015) Pitfalls of Mapping High-Throughput Sequencing Data to Repetitive Sequences: Piwi's Genomic Targets Still Not Identified; Developmental Cell; Vol. 32; No. 6; 765-771; PMCID PMC4494788; 10.1016/j.devcel.2015.01.013
• Chen, Yung-Chia Ariel and Aravin, Alexei A. (2015) Non-coding RNAs in Transcriptional Regulation; Current Molecular Biology Reports; Vol. 1; No. 1; 10-18; PMCID PMC4479201; 10.1007/s40610-015-0002-6
• Pastor, William A. and Stroud, Hume, el al. (2014) MORC1 represses transposable elements in the mouse male germline; Nature Communications; Vol. 5; No. 12; Art. No. 5795; PMCID PMC4268658; 10.1038/ncomms6795
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• Pezic, Dubravka and Manakov, Sergei A., el al. (2014) piRNA pathway targets active LINE1 elements to establish the repressive H3K9me3 mark in germ cells; Genes and Development; Vol. 28; No. 13; 1410-1418; PMCID PMC4083086; 10.1101/gad.240895.114
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• Le Thomas, Adrien and Rogers, Alicia K., el al. (2013) Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state; Genes and Development; Vol. 27; No. 4; 390-399; PMCID PMC3589556; 10.1101/gad.209841.112
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