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Analyses of Early- and Late-scnRNAs of Tetrahymena

ABSTRACT: In this study, we demonstrated that there is a novel, unanticipated mechanism regulating programmed DNA elimination: a genome-wide trans-recognition network for IES identification. In this mechanism, Early-scnRNAs produced from Type-A IESs in the MIC identify not only the IESs from which they are derived but also other IESs in trans to trigger the cis-spreading of Late-scnRNA production in the IESs. This cis-spreading of Late-scnRNA production requires heterochromatin formation . Furthermore, these Late-scnRNAs can recognize other IESs in trans. This “chain reaction” of Late-scnRNA production by the trans-recognition network most likely provides strong robustness in DNA elimination by buffering cell-to-cell variability in the initial Early-scnRNA populations.

ORGANISM(S): Tetrahymena thermophila

PROVIDER: GSE68455 | GEO | 2015/06/15

SECONDARY ACCESSION(S): PRJNA282767

REPOSITORIES: GEO

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Analyses of Early- and Late-scnRNAs of Tetrahymena

Project description:In this study, we demonstrated that there is a novel, unanticipated mechanism regulating programmed DNA elimination: a genome-wide trans-recognition network for IES identification. In this mechanism, Early-scnRNAs produced from Type-A IESs in the MIC identify not only the IESs from which they are derived but also other IESs in trans to trigger the cis-spreading of Late-scnRNA production in the IESs. This cis-spreading of Late-scnRNA production requires heterochromatin formation . Furthermore, these Late-scnRNAs can recognize other IESs in trans. This “chain reaction” of Late-scnRNA production by the trans-recognition network most likely provides strong robustness in DNA elimination by buffering cell-to-cell variability in the initial Early-scnRNA populations. 26 to 32-nt small RNAs from various mutants or from immuno precipitated with Argonaute proteins were analyzed by high-throughput sequencing

2015-06-15 | E-GEOD-68455 | biostudies-arrayexpress

DNA elimination analysis of scnRNA production-defective Tetrahymena

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DNA elimination analysis of scnRNA production-defective Tetrahymena

Project description:Analysis of genome-wide IES elimination of Late-scnRNA accumulation-defective cells inducates that Early-scnRNAs are sufficient to induce DNA elimination for a majority of IESs, whereas Late-scnRNAs are important for DNA elimination of some, mainly Type-B, IESs. new MACs of exconjugants were isolated from different mutants at 36 hpm, and the genomic DNA was analyzed by high-throughput sequencing

2015-06-15 | E-GEOD-68457 | biostudies-arrayexpress

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2013-06-05 | GSE47650 | GEO

Sequence analysis of scnRNAs

2013-06-05 | E-GEOD-47650 | biostudies-arrayexpress

Biased transcription and selective degradation of small RNAs shape the pattern of DNA elimination in Tetrahymena

Project description:The ciliated protozoan Tetrahymena undergoes extensive programmed DNA elimination when the germline micronucleus produces the new macronucleus during sexual reproduction. DNA elimination is epigenetically controlled by DNA sequences of the parental macronuclear genome, and this epigenetic regulation is mediated by small RNAs (scnRNAs) of approximately 28-30 nucleotides that are produced and function by an RNAi-related mechanism. Here, we examine scnRNA production and turnover by deep sequencing. scnRNAs are produced exclusively from the micronucleus and non-homogeneously from a variety of chromosomal locations. scnRNAs are preferentially derived from the eliminated sequences, and this preference is mainly determined at the level of transcription. Despite this bias, a significant fraction of scnRNAs is also derived from the macronuclear-destined sequences, and these scnRNAs are degraded during the course of sexual reproduction. These results indicate that the pattern of DNA elimination in the new macronucleus is shaped by the biased transcription in the micronucleus and by the selective degradation of scnRNAs in the parental macronucleus. GRO-Seq and Examination of siRNAs in wild-type,nullisomic 4, EMA1 KO, and TWI1 KO Tetrahymena cells

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Biased transcription and selective degradation of small RNAs shape the pattern of DNA elimination in Tetrahymena

2012-06-21 | GSE38768 | GEO

Analysis of Early-scnRNAs of Tetrahymena

Project description:scnRNAs co-IPed with Twi1p from wild-type cells @3 hpm

2016-04-02 | GSE79849 | GEO

Tetrahymena thermophila

Project description:DNA elimination analysis of scnRNA production-defective Tetrahymena

| PRJNA282768 | ENA

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Project description:scnRNAs co-IPed with Twi1p from wild-type cells @3 hpm Small RNAs co-precipitated with the Argonaute protein Twi1p were analyzed by high-throughput sequencing

2016-04-02 | E-GEOD-79849 | biostudies-arrayexpress

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