Sequence of a 39 411 bp DNA fragment covering the left end of chromosome VII of Saccharomyces cerevisiae

Coissac, Éric; Maillier, Evelyne; Robineau, Sylviane; Netter, Pierre

doi:10.1002/(sici)1097-0061(199612)12:15<1555::aid-yea43>3.0.co;2-q

Cited by 6 publications

(2 citation statements)

References 23 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Subcloning and partial DNA sequencing of the MER3 plasmid revealed that the suppression activity resides in a 4.8 kb Eco RI‐ Sal I fragment (pTN84, Figure 1B), including a hypothetical open reading frame (ORF), YGL251c (Coissac et al ., 1996). However, YGL251c with an additional upstream region of 508 bp (pTN66) was not sufficient for the suppression.…”

Section: Resultsmentioning

confidence: 54%

The Saccharomyces cerevisiae MER3 gene, encoding a novel helicase-like protein, is required for crossover control in meiosis

1999

View full text Add to dashboard Cite

The MER3 gene is identified as a novel meiosis-specific gene, whose transcript is spliced in an MRE2/MER1-dependent manner. The predicted Mer3 protein contains the seven motifs characteristic of the DExHbox type of helicases as well as a putative zinc finger. Double strand breaks (DSBs), the initial changes of DNA in meiotic recombination, do not disappear completely and are hyperresected late in mer3 meiosis, indicating that MER3 is required for the transition of DSBs to later intermediates. A mer3 mutation reduces crossover frequencies, and the remaining crossovers show random distribution along a chromosome, resulting in a high incidence of non-disjunction of homologous chromosomes at the first meiotic division. MER3 appears to be very important for both the DSB transition and crossover control.

show abstract

Section: Resultsmentioning

confidence: 54%

The Saccharomyces cerevisiae MER3 gene, encoding a novel helicase-like protein, is required for crossover control in meiosis

1999

View full text Add to dashboard Cite

show abstract

“…In this study, we identified 32 probe sets that detected increased levels of the RNA products of repeated genes located in the sub-telomeric repeats near chromosome ends. The probe sets, which corresponded to genes at one or both ends of 15 out of the 16 haploid chromosomes, include representatives of the PAU [48], DUP380 [49], DAN [50], MAL [51], AAD [52,53], and YRF [54] multi-gene families. Most of these transcripts were predicted to be indirect targets of NMD (the exceptions could be false discoveries).…”

Section: Functional Relationships Among Nmd Targetsmentioning

confidence: 99%

Impact of Nonsense-mediated mRNA Decay on the Global Expression Profile of Budding Yeast

Guan¹,

Wang²,

Tang³

et al. 2005

PLoS Genet

View full text Add to dashboard Cite

Nonsense-mediated mRNA decay (NMD) is a eukaryotic mechanism of RNA surveillance that selectively eliminates aberrant transcripts coding for potentially deleterious proteins. NMD also functions in the normal repertoire of gene expression. In Saccharomyces cerevisiae, hundreds of endogenous RNA Polymerase II transcripts achieve steady-state levels that depend on NMD. For some, the decay rate is directly influenced by NMD (direct targets). For others, abundance is NMD-sensitive but without any effect on the decay rate (indirect targets). To distinguish between direct and indirect targets, total RNA from wild-type (Nmd þ ) and mutant (Nmd À ) strains was probed with high-density arrays across a 1-h time window following transcription inhibition. Statistical models were developed to describe the kinetics of RNA decay. 45% 6 5% of RNAs targeted by NMD were predicted to be direct targets with altered decay rates in Nmd À strains. Parallel experiments using conventional methods were conducted to empirically test predictions from the global experiment. The results show that the global assay reliably distinguished direct versus indirect targets. Different types of targets were investigated, including transcripts containing adjacent, disabled open reading frames, upstream open reading frames, and those prone to out-of-frame initiation of translation. Known targeting mechanisms fail to account for all of the direct targets of NMD, suggesting that additional targeting mechanisms remain to be elucidated. 30% of the protein-coding targets of NMD fell into two broadly defined functional themes: those affecting chromosome structure and behavior and those affecting cell surface dynamics. Overall, the results provide a preview for how expression profiles in multi-cellular eukaryotes might be impacted by NMD. Furthermore, the methods for analyzing decay rates on a global scale offer a blueprint for new ways to study mRNA decay pathways in any organism where cultured cell lines are available.

show abstract

Systematic identification, classification, and characterization of the open reading frames which encode novel helicase-related proteins inSaccharomyces cerevisiae by gene disruption and Northern analysis

Shiratori

Shibata

Arisawa

et al. 1999

Yeast

View full text Add to dashboard Cite

Helicase‐related proteins play important roles in various cellular processes incuding DNA replication, DNA repair, RNA processing and so on. It has been well known that the amino acid sequences of these proteins contain several conserved motifs, and that the open reading frames (ORFs) which encode helicase‐related proteins make up several gene families. In this study, we have identified 134 ORFs that encode helicase‐like proteins in the Saccharomyces genome, based on similarity with the ORFs of authentic helicase and helicase‐related proteins. Multiple alignment of the ORF sequences resulted in the 134 ORFs being classified to 11 clusters. Seven out of 21 previously uncharacterized ORFs (YDL031w, YDL070w, YDL084w, YGL150c, YKL078w, YLR276c, and YMR128w) were identified by systematic gene disruption, to be essential for vegetative growth. Three (YDR332w, YGL064c, and YOL095c) out of the remaining 14 dispensable ORFs exhibited the slow‐growth phenotype at 30°C and 37°C. Furthermore, the expression profiles of transcripts from 43 ORFs were examined under seven different growth conditions by Northern analysis and reverse transcription‐polymerase chain reaction, indicating that all of the 43 tested ORFs were transcribed. Interestingly, we found that the level of transcript from 34 helicase‐like genes was markedly increased by heat shock. This suggests that helicase‐like genes may be involved in the biosynthesis of nucleic acids and proteins, and that the genes can be transcriptionally activated by heat shock to compensate for the repressed synthesis of mRNA and protein. Copyright © 1999 John Wiley & Sons, Ltd.

show abstract

Sequence of a 39 411 bp DNA fragment covering the left end of chromosome VII of Saccharomyces cerevisiae

Cited by 6 publications

References 23 publications

The Saccharomyces cerevisiae MER3 gene, encoding a novel helicase-like protein, is required for crossover control in meiosis

The Saccharomyces cerevisiae MER3 gene, encoding a novel helicase-like protein, is required for crossover control in meiosis

Impact of Nonsense-mediated mRNA Decay on the Global Expression Profile of Budding Yeast

Systematic identification, classification, and characterization of the open reading frames which encode novel helicase-related proteins inSaccharomyces cerevisiae by gene disruption and Northern analysis

Contact Info

Product

Resources

About