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New lab announcement: Ayelet Lamm at the Technion – Israel Institute of Technology

Ayelet T. Lamm
1Faculty of Biology, Technion – Israel Institute of Technology, Haifa, Israel

Correspondence to: Ayelet T. Lamm (ayeletla@tx.technion.ac.il)

The Lamm lab was recently established at the Technion- Israel Institute of Technology, Israel (http://lammlab.net.technion.ac.il).

The lab studies fundamental epigenetics processes affecting gene expression and regulation in the C. elegans transcriptome. We are currently working on the interaction between the pathways of RNAi, RNA editing and genomic imprinting. We employ high-throughput sequencing of RNA and small RNAs and high-resolution genome-wide chromatin profiling combined with basic genetics and molecular biology methods.

Modifying the gene model of rrf-3

Ayelet T. Lamm1, Jonathan I. Gent2 and Andrew Z. Fire1,2
1Department of Pathology, Stanford University School of Medicine, Stanford CA, 2Department of Genetics, Stanford University School of Medicine, Stanford CA

Correspondence to: Ayelet T. Lamm (ayeletla@stanford.edu)

RRF-3 is one of the four putative RNA-directed RNA polymerases (RdRPs) in C. elegans and plays a major role in endogenous synthesis of siRNAs. By deep sequencing of mRNA tags (mRNA-seq) from N2 worms and from worms with mutational backgrounds, at different stages, we found that the annotated seventh exon of rrf-3 contains an intron. The position of the intron is chrII: 8165255-8165300 (WS190 version of the C. elegans genome), and it is 45 bp long (Figure 1). The 5′ end of the intron starts with GTATATTCTA and the 3′ ends with AAATATTCAG. The intron does not change the reading frame and shortens the protein by 15 amino acids.

Figures



Figure 1: (A) PCR and RT-PCR on a region in rrf-3 ’s seventh exon spanning the newly defined intron. (B) View of the rrf-3 gene by UCSC genome browser with the WS190 version of the C. elegans genome. The primers that were used for (A) are shown in red. Sanger sequencing of the RT-PCR is shown in black and validates the intron. The purple arrow points to the newly identified intron.
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