2021
Genome-wide mapping of Piwi association with specific loci in Drosophila ovaries
Liu N, Neuenkirchen N, Zhong M, Lin H. Genome-wide mapping of Piwi association with specific loci in Drosophila ovaries. G3: Genes, Genomes, Genetics 2021, 11: jkaa059. PMID: 33609367, PMCID: PMC8022938, DOI: 10.1093/g3journal/jkaa059.Peer-Reviewed Original ResearchConceptsPIWI-interacting RNAsProtein-coding genesDrosophila ovaryGermline stem cell maintenanceRole of piRNAsTermination sitesGenome-wide mappingGenomic binding profileTranscriptional termination sitesSpecific genomic sitesStem cell maintenanceRNA pathwaysTransposon repressionTranscriptional startEuchromatic regionsGene regulationEpigenetic regulationGenomic sitesCell maintenancePiwiSpecific lociMethylation signalsDiverse mechanismsTarget siteBinding sites
2020
PIWIL1 promotes gastric cancer via a piRNA-independent mechanism
Shi S, Yang ZZ, Liu S, Yang F, Lin H. PIWIL1 promotes gastric cancer via a piRNA-independent mechanism. Proceedings Of The National Academy Of Sciences Of The United States Of America 2020, 117: 22390-22401. PMID: 32848063, PMCID: PMC7486755, DOI: 10.1073/pnas.2008724117.Peer-Reviewed Original ResearchConceptsPIWI-interacting RNAsPIWI proteinsGastric cancer cellsNonsense-mediated mRNA decay mechanismPiRNA-independent mechanismDomain protein familyMRNA decay mechanismMammalian somatic tissuesRNA deep sequencingGastric cancer cell line SNU-1Cancer cellsGastric cancer cell proliferationRNA pathwaysPPD proteinsProtein familyPiwil1 geneSomatic tissuesSomatic cancersCancer cell proliferationDeep sequencingRegulatory mechanismsOncogenic functionPIWIL1Gastric cancer tissuesDetectable functionPIWI–piRNA pathway-mediated transposable element repression in Hydra somatic stem cells
Teefy BB, Siebert S, Cazet JF, Lin H, Juliano CE. PIWI–piRNA pathway-mediated transposable element repression in Hydra somatic stem cells. RNA 2020, 26: 550-563. PMID: 32075940, PMCID: PMC7161359, DOI: 10.1261/rna.072835.119.Peer-Reviewed Original ResearchConceptsPIWI-piRNA pathwayTE expressionSomatic stem cellsTransposable elementsTE transcriptsStem cellsFreshwater cnidarianSmall RNA pathwaysTransposable element repressionSomatic cell lineagesGermline of animalsInterstitial stem cellsStem cell populationInterstitial lineageSomatic piRNAsDegradome sequencingEpithelial cellsAncestral functionRNA pathwaysGermline piRNAsPIWI proteinsTE repressionGermline competenceSequence signaturesRNA immunoprecipitation
2013
Chromatin Immunoprecipitation Assay of Piwi in Drosophila
Yin H, Lin H. Chromatin Immunoprecipitation Assay of Piwi in Drosophila. Methods In Molecular Biology 2013, 1093: 1-11. PMID: 24178552, DOI: 10.1007/978-1-62703-694-8_1.Peer-Reviewed Original ResearchConceptsSmall RNA pathwaysRNA pathwaysArgonaute protein familyChromatin-associated factorsChromatin immunoprecipitation methodChromatin immunoprecipitation assaysWhole-genome mappingArgonaute proteinsDrosophila PiwiEpigenetic regulationDevelopmental biologyProtein familyImmunoprecipitation assaysCell biologyImmunoprecipitation methodHigh-resolution mapsPiwiEffector componentsBiologyPathwayGeneral utilityDrosophilaEpigenomeBiogenesisEpigenetics
2011
Small Noncoding RNAs in the Germline
Saxe JP, Lin H. Small Noncoding RNAs in the Germline. Cold Spring Harbor Perspectives In Biology 2011, 3: a002717. PMID: 21669983, PMCID: PMC3181032, DOI: 10.1101/cshperspect.a002717.Peer-Reviewed Original ResearchConceptsRNA pathwaysSmall noncoding RNAsTarget mRNAsNoncoding RNAsSmall RNA pathwaysPiRNA pathwayGermline specificationMicroRNA pathwayMiRNA pathwayGene regulationMRNA translationSomatic tissuesEpigenetic programmingDiverse functionsGene expressionRegulatory functionsGermlinePotent regulatorPathwayRNAMRNARegulationPiwiBiogenesisTransposonRole for piRNAs and Noncoding RNA in de Novo DNA Methylation of the Imprinted Mouse Rasgrf1 Locus
Watanabe T, Tomizawa S, Mitsuya K, Totoki Y, Yamamoto Y, Kuramochi-Miyagawa S, Iida N, Hoki Y, Murphy PJ, Toyoda A, Gotoh K, Hiura H, Arima T, Fujiyama A, Sado T, Shibata T, Nakano T, Lin H, Ichiyanagi K, Soloway PD, Sasaki H. Role for piRNAs and Noncoding RNA in de Novo DNA Methylation of the Imprinted Mouse Rasgrf1 Locus. Science 2011, 332: 848-852. PMID: 21566194, PMCID: PMC3368507, DOI: 10.1126/science.1203919.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsArgonaute ProteinsDNA MethylationGenomic ImprintingMaleMiceMice, Inbred C57BLMitochondrial ProteinsModels, GeneticMutationPhospholipase DProteinsRas-GRF1Repetitive Sequences, Nucleic AcidRetroelementsRNA, Small InterferingRNA, UntranslatedSpermatogoniaTestisTranscription, GeneticConceptsRasgrf1 locusDNA methylationPIWI-interacting RNA (piRNA) pathwayDe novo DNA methylationMonoallelic gene expressionNovo DNA methylationParental germ lineDe novo methylationSequence-specific methylationDifferential DNA methylationRNA pathwaysGenomic imprintingNovo methylationRetrotransposon sequencesGerm lineNoncoding RNAsGene expressionDirect repeatsPiRNAsTarget RNADifferent lociMethylationLociRNASpecific sequences
2010
The Yb Body, a Major Site for Piwi-associated RNA Biogenesis and a Gateway for Piwi Expression and Transport to the Nucleus in Somatic Cells*
Qi H, Watanabe T, Ku HY, Liu N, Zhong M, Lin H. The Yb Body, a Major Site for Piwi-associated RNA Biogenesis and a Gateway for Piwi Expression and Transport to the Nucleus in Somatic Cells*. Journal Of Biological Chemistry 2010, 286: 3789-3797. PMID: 21106531, PMCID: PMC3030380, DOI: 10.1074/jbc.m110.193888.Peer-Reviewed Original ResearchConceptsYb bodiesSomatic cellsPiRNA pathwayGerm lineEndo-siRNA pathwaySomatic niche cellsTudor-like domainGonadal somatic cellsPutative RNA helicaseCo-immunoprecipitation experimentsSomatic stem cellsFlamenco locusSomatic piRNAsPiRNA biogenesisEndo-siRNAsRNA biogenesisRNA pathwaysPiwi expressionRNA helicaseNovel proteinPiwiNiche cellsMolecular basisStem cellsBiogenesis
2007
piRNAs in the Germ Line
Lin H. piRNAs in the Germ Line. Science 2007, 316: 397-397. PMID: 17446387, DOI: 10.1126/science.1137543.Peer-Reviewed Original Research