Transcriptomics

Dataset Information

3

Small RNA and gene expression profile in the adult testes of the common marmoset


ABSTRACT: Small RNAs mediate gene silencing by binding Argonaute/Piwi proteins to regulate target RNAs. Here we describe small RNA profiling of the adult testes of Callithrix jacchus, the common marmoset. The most abundant class of small RNAs in the adult testis was piRNAs, while 353 novel miRNAs but few endo-siRNAs were also identified. MARWI, a marmoset homolog of mouse MIWI and a very abundant PIWI in adult testes, associates with piRNAs that show characteristics of mouse pachytene piRNAs. As in other mammals, most marmoset piRNAs are derived from conserved clustered regions in the genome, which are annotated as intergenic regions. However, some of these piRNA cluster regions contain antisense-orientated pseudogenes, suggesting regulation of parental functional protein-coding genes. More piRNAs map to transposable element (TE) subfamilies when they have copies in piRNA clusters. In addition, the strand-bias observed for piRNAs mapped to each TE subfamily correlates with the polarity of copies inserted in clusters. These findings suggest that pachytene piRNA clusters determine the abundance and strand-bias of TE-derived piRNAs, and also regulate protein-coding genes via pseudogene-derived piRNAs. small RNA levels in the adult marmoset testis, and MARWI-IP small RNA levels and RNA levels from the adult marmoset testis with two replicates.

ORGANISM(S): Callithrix jacchus  

SUBMITTER: Yuka W Iwasaki   Haruhiko Siomi  Takamasa Hirano 

PROVIDER: E-GEOD-52927 | ArrayExpress | 2014-06-01

SECONDARY ACCESSION(S): GSE52927SRP033451PRJNA230495

REPOSITORIES: GEO, ArrayExpress, ENA

Dataset's files

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Action DRS
E-GEOD-52927.idf.txt Idf
E-GEOD-52927.processed.1.zip Processed
E-GEOD-52927.sdrf.txt Txt
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