High-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes

scientific article published on 30 January 2013

High-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1101/GR.149112.112
P8608Fatcat IDrelease_onq5yhvkebcpjcof3cvqptint4
P932PMC publication ID3589538
P698PubMed publication ID23363624
P5875ResearchGate publication ID235384845

P50authorGary RuvkunQ504021
Taiowa MontgomeryQ43143994
P2093author name stringYan Qi
Zhen Shi
P2860cites workThe genome sequence of Caenorhabditis briggsae: a platform for comparative genomicsQ21092840
Ultrafast and memory-efficient alignment of short DNA sequences to the human genomeQ21183894
A phylogeny and molecular barcodes for Caenorhabditis, with numerous new species from rotting fruitsQ21284044
Inparanoid: a comprehensive database of eukaryotic orthologsQ24558576
Intronic microRNA precursors that bypass Drosha processingQ24656618
The microRNAs of Caenorhabditis elegansQ24672515
Clustal W and Clustal X version 2.0Q27860517
An extensive class of small RNAs in Caenorhabditis elegansQ27860626
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegansQ27860895
Distinct argonaute-mediated 22G-RNA pathways direct genome surveillance in the C. elegans germlineQ42219455
The Argonaute CSR-1 and its 22G-RNA cofactors are required for holocentric chromosome segregationQ42590501
CDE-1 affects chromosome segregation through uridylation of CSR-1-bound siRNAsQ43266934
A global profile of germline gene expression in C. elegansQ43535217
Genome-wide germline-enriched and sex-biased expression profiles in Caenorhabditis elegansQ47327774
Parent-dependent loss of gene silencing during interspecies hybridizationQ79849968
Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timingQ27860903
MicroRNAs: genomics, biogenesis, mechanism, and functionQ27861070
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNAQ27861092
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE projectQ28301622
The mirtron pathway generates microRNA-class regulatory RNAs in DrosophilaQ29615827
Large-scale sequencing reveals 21U-RNAs and additional microRNAs and endogenous siRNAs in C. elegansQ29616062
On the role of RNA amplification in dsRNA-triggered gene silencingQ29617698
Many families of C. elegans microRNAs are not essential for development or viabilityQ30493862
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversityQ30514475
Comparison of C. elegans and C. briggsae genome sequences reveals extensive conservation of chromosome organization and syntenyQ33289780
Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans developmentQ33449910
Repertoire and evolution of miRNA genes in four divergent nematode speciesQ33503514
An epigenetic role for maternally inherited piRNAs in transposon silencingQ33585189
MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing dataQ33622191
Distinct phases of siRNA synthesis in an endogenous RNAi pathway in C. elegans soma.Q33729439
Sequential rounds of RNA-dependent RNA transcription drive endogenous small-RNA biogenesis in the ERGO-1/Argonaute pathwayQ33734515
Argonautes ALG-3 and ALG-4 are required for spermatogenesis-specific 26G-RNAs and thermotolerant sperm in Caenorhabditis elegansQ33734647
Computational and experimental identification of C. elegans microRNAsQ33966237
A C. elegans Piwi, PRG-1, regulates 21U-RNAs during spermatogenesisQ34011879
Piwi and piRNAs act upstream of an endogenous siRNA pathway to suppress Tc3 transposon mobility in the Caenorhabditis elegans germlineQ34012402
The ERI-6/7 helicase acts at the first stage of an siRNA amplification pathway that targets recent gene duplicationsQ34079187
Identification of novel and known miRNAs in deep-sequencing data with miRDeep2.Q34097252
PIWI associated siRNAs and piRNAs specifically require the Caenorhabditis elegans HEN1 ortholog henn-1.Q34246915
mut-16 and other mutator class genes modulate 22G and 26G siRNA pathways in Caenorhabditis elegansQ34534224
Computational and experimental identification of mirtrons in Drosophila melanogaster and Caenorhabditis elegansQ34548301
Analysis of the C. elegans Argonaute family reveals that distinct Argonautes act sequentially during RNAiQ34582311
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal cladesQ35633577
MUT-16 promotes formation of perinuclear mutator foci required for RNA silencing in the C. elegans germlineQ36110903
C. elegans piRNAs mediate the genome-wide surveillance of germline transcriptsQ36136040
Promoters recognized by forkhead proteins exist for individual 21U-RNAsQ36240758
piRNAs initiate an epigenetic memory of nonself RNA in the C. elegans germlineQ36684944
PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegansQ36943578
26G endo-siRNAs regulate spermatogenic and zygotic gene expression in Caenorhabditis elegansQ37395581
Evolution of the Caenorhabditis elegans genomeQ37415864
Function, targets, and evolution of Caenorhabditis elegans piRNAsQ37633703
P433issue3
P921main subjectPiwi-interacting RNAQ2367421
high-throughput sequencingQ112147935
P304page(s)497-508
P577publication date2013-01-30
P1433published inGenome ResearchQ5533485
P1476titleHigh-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes
P478volume23

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cites work (P2860)
Q49886624A Sex Chromosome piRNA Promotes Robust Dosage Compensation and Sex Determination in C. elegans.
Q39442714A framework for understanding the roles of miRNAs in animal development
Q42095349A microRNA family exerts maternal control on sex determination in C. elegans
Q38157699A multitasking Argonaute: exploring the many facets of C. elegans CSR-1.
Q35596075A novel member of the let-7 microRNA family is associated with developmental transitions in filarial nematode parasites
Q41626298ALG-5 is a miRNA-associated Argonaute required for proper developmental timing in the Caenorhabditis elegans germline
Q35558916Ancient and novel small RNA pathways compensate for the loss of piRNAs in multiple independent nematode lineages
Q64054739Comparative Epigenomics Reveals that RNA Polymerase II Pausing and Chromatin Domain Organization Control Nematode piRNA Biogenesis
Q34883529Comparative functional characterization of the CSR-1 22G-RNA pathway in Caenorhabditis nematodes
Q91935677Comparative profiling of ovarian and testicular piRNAs in the mud crab Scylla paramamosain
Q46242674Deep experimental profiling of microRNA diversity, deployment, and evolution across the Drosophila genus
Q52337024Discovery of genomic intervals that underlie nematode responses to benzimidazoles.
Q64230301Function and Evolution of Nematode RNAi Pathways
Q38122219Functional diversification of Argonautes in nematodes: an expanding universe
Q46284217Gain and Loss of Small RNA Classes-Characterization of Small RNAs in the Parasitic Nematode Family Strongyloididae
Q36018912Germ cell and tumor associated piRNAs in the medaka and Xiphophorus melanoma models
Q37591542Homeland security in the C. elegans germ line: insights into the biogenesis and function of piRNAs
Q35737405Identification of MicroRNAs in Meloidogyne incognita Using Deep Sequencing
Q90543035Long non-coding RNAs in cutaneous biology and proliferative skin diseases: Advances and perspectives
Q34631747Microevolution of nematode miRNAs reveals diverse modes of selection
Q37424685Multiple small RNA pathways regulate the silencing of repeated and foreign genes in C. elegans
Q26849700Nematode endogenous small RNA pathways
Q34593170Piwi Proteins and piRNAs step onto the systems biology stage
Q48149915Rewired RNAi-mediated genome surveillance in house dust mites.
Q92017807Small RNAs in parasitic nematodes - forms and functions
Q37313637Specific down-regulation of spermatogenesis genes targeted by 22G RNAs in hybrid sterile males associated with an X-Chromosome introgression
Q42984279The C. elegans SNAPc component SNPC-4 coats piRNA domains and is globally required for piRNA abundance
Q33669104The influences of PRG-1 on the expression of small RNAs and mRNAs.
Q54217793The surveillance of pre-mRNA splicing is an early step in C. elegans RNAi of endogenous genes.
Q64265980Tissue- and sex-specific small RNAomes reveal sex differences in response to the environment
Q55480689pirScan: a webserver to predict piRNA targeting sites and to avoid transgene silencing in C. elegans.

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