Unknown,Transcriptomics,Genomics,Proteomics

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Transcriptome analysis of budding yeast strains manipulated in RPL22A and RPL22B genes


ABSTRACT: Most Saccharomyces cerevisiae ribosomal protein genes (RPGs) are present as two paralogous copies that emerged during a whole genome duplication. The preservation of two copies of the same gene during the past ~100 million years enabled diversification of the regulation of their expression, and also partially of their functional properties. One example of such paralogous genes are RPL22A and RPL22B that are asymmetrically expressed and their protein sequences represent one of the most divergent pairs among budding yeast RPG paralogs. It was shown that introns in the RPL22A and RPL22B genes are important for regulation of their expression levels. To investigate functional differences between RPL22A and RPL22B we performed RNA-seq analysis of strains with complete deletions of either RPL22A or RPL22B, and also of strains with intron deletions in the RPL22 genes, in comparison with a wild-type strain. Cells were grown to mid-exponential phase in the rich YPAD medium. Total RNA was isolated by combining phenol-chlorophorm extraction with MasterPure Yeast RNA Purification Kit (Epicentre). Ribodepletion, library preparation and sequencing were performed by BGI Genomics.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Martin Převorovský 

PROVIDER: E-MTAB-5275 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Introns provide a platform for intergenic regulatory feedback of RPL22 paralogs in yeast.

Abrhámová Kateřina K   Nemčko Filip F   Libus Jiří J   Převorovský Martin M   Hálová Martina M   Půta František F   Folk Petr P  

PloS one 20180105 1


Ribosomal protein genes (RPGs) in Saccharomyces cerevisiae are a remarkable regulatory group that may serve as a model for understanding genetic redundancy in evolutionary adaptations. Most RPGs exist as pairs of highly conserved functional paralogs with divergent untranslated regions and introns. We examined the roles of introns in strains with various combinations of intron and gene deletions in RPL22, RPL2, RPL16, RPL37, RPL17, RPS0, and RPS18 paralog pairs. We found that introns inhibited th  ...[more]

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