Searching journal content for articles similar to Lau et al. 19 (10): 1776.

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  1. Research: Rapid evolution of piRNA clusters in the Drosophila melanogaster ovary
    • Satyam P. Srivastav,
    • Cédric Feschotte,
    • and Andrew G. Clark
    Genome Res. May 2024 34: 711-724; Published in Advance May 15, 2024, doi:10.1101/gr.278062.123
    ...in Drosophila melanogaster, much less is known about the origin and evolution of piCs in this or any other species. To investigate piC origin and evolution, we use a population genomic approach to compare piC activity and sequence composition across eight geographically distant strains of D. melanogaster...
  2. Resource: Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines
    • Jiayu Wen,
    • Jaaved Mohammed,
    • Diane Bortolamiol-Becet,
    • Harrison Tsai,
    • Nicolas Robine,
    • Jakub O. Westholm,
    • Erik Ladewig,
    • Qi Dai,
    • Katsutomo Okamura,
    • Alex S. Flynt,
    • Dayu Zhang,
    • Justen Andrews,
    • Lucy Cherbas,
    • Thomas C. Kaufman,
    • Peter Cherbas,
    • Adam Siepel,
    • and Eric C. Lai
    Genome Res. July 2014 24: 1236-1250; Published in Advance July 1, 2014, doi:10.1101/gr.161554.113
    ..., namely, ;21-nt siRNAs, 22-nt dominant miRNAs, and ;24- to 29-nt piRNAs. This analysis highlights that an abundance of uniquely mapping, novel siRNA and piRNA reads remains after accounting for all previously annotated Drosophila small RNAs. The color guides for the different cell lines are shown below...
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  3. Letter: Abundant and dynamically expressed miRNAs, piRNAs, and other small RNAs in the vertebrate Xenopus tropicalis
    • Javier Armisen,
    • Michael J. Gilchrist,
    • Anna Wilczynska,
    • Nancy Standart,
    • and Eric A. Miska
    Genome Res. October 2009 19: 1766-1775; Published in Advance July 23, 2009, doi:10.1101/gr.093054.109
    ...(miRNAs), endogenous siRNAs (endo-siRNAs), and Piwi-interacting RNAs (piRNAs) in other species we suspected that these bands could represent miRNAs, endosiRNAs, and piRNAs in X. tropicalis and X. laevis, respectively. To test this hypothesis, we took advantage of the fact that in mouse and Drosophila...
  4. Research: Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence
    • Eugene Berezikov,
    • Nicolas Robine,
    • Anastasia Samsonova,
    • Jakub O. Westholm,
    • Ammar Naqvi,
    • Jui-Hung Hung,
    • Katsutomo Okamura,
    • Qi Dai,
    • Diane Bortolamiol-Becet,
    • Raquel Martin,
    • Yongjun Zhao,
    • Phillip D. Zamore,
    • Gregory J. Hannon,
    • Marco A. Marra,
    • Zhiping Weng,
    • Norbert Perrimon,
    • and Eric C. Lai
    Genome Res. February 2011 21: 203-215; Published in Advance December 22, 2010, doi:10.1101/gr.116657.110
    ...on Drosophila miRNAs. In addition, we Figure 10. RNA editing in Drosophila small RNAs. We collected S2 and head small RNA reads with one or twomismatches to 39 cis-NATs or miRNAs and tabulated the nature of their nucleotide changes. (A) Endo-siRNAs from 39 cis-NATs exhibit a preponderance of A!G changes...
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  5. Research: Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity in Drosophila ovarian cell cultures
    • Yuliya A. Sytnikova,
    • Reazur Rahman,
    • Gung-wei Chirn,
    • Josef P. Clark,
    • and Nelson C. Lau
    Genome Res. December 2014 24: 1977-1990; Published in Advance September 29, 2014, doi:10.1101/gr.178129.114
    ...noncoding RNAs (lncRNAs) driven by their unique TE landscapes and the Piwi pathway. Results TheDrosophilaOSS cell line expresses only primary piRNAs and the single PIWI protein since it is derived from the follicle cells of the Drosophila ovary (Niki et al. 2006; Lau et al. 2009; Haase et al. 2010). As such...
  6. Method: Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans
    • Wei-Jen Chung,
    • Phaedra Agius,
    • Jakub O. Westholm,
    • Michael Chen,
    • Katsutomo Okamura,
    • Nicolas Robine,
    • Christina S. Leslie,
    • and Eric C. Lai
    Genome Res. February 2011 21: 286-300; Published in Advance December 22, 2010, doi:10.1101/gr.113050.110
    ...Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegans Wei-Jen Chung 1 , 3 , 4 , Phaedra Agius 2 , 3 , Jakub O. Westholm 1 , Michael Chen 1 , Katsutomo Okamura 1...
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  7. Resource: Small RNA expression and miRNA modification dynamics in human oocytes and early embryos
    • Pauliina Paloviita,
    • Christel Hydén-Granskog,
    • Dawit A. Yohannes,
    • Priit Paluoja,
    • Juha Kere,
    • Juha S. Tapanainen,
    • Kaarel Krjutškov,
    • Timo Tuuri,
    • Urmo Võsa,
    • and Sanna Vuoristo
    Genome Res. August 2021 31: 1474-1485; doi:10.1101/gr.268193.120
    ...Drosophila, sea urchin, and mouse embryos (Fernandez-Valverde et al. 2010; Lee et al. 2014; Yang et al. 2016). To date sRNAs have not been sequenced in human developmental stages coinciding with embryo activation (EGA), the initiation of embryonic transcription, that peaks at the eight-cell stage...
  8. Resource: A mosquito small RNA genomics resource reveals dynamic evolution and host responses to viruses and transposons
    • Qicheng Ma,
    • Satyam P. Srivastav,
    • Stephanie Gamez,
    • Gargi Dayama,
    • Fabiana Feitosa-Suntheimer,
    • Edward I. Patterson,
    • Rebecca M. Johnson,
    • Erik M. Matson,
    • Alexander S. Gold,
    • Douglas E. Brackney,
    • John H. Connor,
    • Tonya M. Colpitts,
    • Grant L. Hughes,
    • Jason L. Rasgon,
    • Tony Nolan,
    • Omar S. Akbari,
    • and Nelson C. Lau
    Genome Res. March 2021 31: 512-528; Published in Advance January 8, 2021, doi:10.1101/gr.265157.120
    ...persistent viral infections reflected by abundant viral siRNAs against ONNV in the Mos55-JR line, and DENV2 siRNAs and piRNAs in the Aag2-TC line (Fig. 2F). Perhaps similarly to how Dmel ANV may have passed between Drosophila cells to mosquito cells, these infections were most likely inadvertent. Last...
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  9. Research: piRNA-mediated transgenerational inheritance of an acquired trait
    • Thomas Grentzinger,
    • Claudia Armenise,
    • Christine Brun,
    • Bruno Mugat,
    • Vincent Serrano,
    • Alain Pelisson,
    • and Séverine Chambeyron
    Genome Res. October 2012 22: 1877-1888; Published in Advance May 3, 2012, doi:10.1101/gr.136614.111
    ...-element, we report here that in such Drosophila ovaries, the initiation of a ping-pong cycle is exclusively achieved by secondary I-element piRNAs that are produced in the ovary and deposited in the embryonic germline. This unusual secondary piRNA biogenesis, detected in the absence of functional I...
  10. Research: Deep small RNA sequencing from the nematode Ascaris reveals conservation, functional diversification, and novel developmental profiles
    • Jianbin Wang,
    • Benjamin Czech,
    • Amanda Crunk,
    • Adam Wallace,
    • Makedonka Mitreva,
    • Gregory J. Hannon,
    • and Richard E. Davis
    Genome Res. September 2011 21: 1462-1477; Published in Advance June 17, 2011, doi:10.1101/gr.121426.111
    ...pathway have been lost in Ascaris. Furthermore, endo-siRNAs involved in Ascaris spermatogenesis have increased and diverged as compared with C. elegans, perhaps to complement the functional consequences of piRNA loss. Ascaris miRNAs and endo-siRNAs are differentially expressed during gametogenesis...
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