Master thesis opportunity in Marquardt lab at Copenhagen Plant Science Centre (CPSC) Please contact Sebastian or Xueyuan for further information [email protected] [email protected] Big Question: Your Role: You will analyze genetic interactions between plants harboring mutations in RNA Pol II accelerating or slowing down transcription with candidate factors implicated in elongation of transcription. You will be trained in cutting-edge molecular plant science research. For example, you will analyze the impact of mutants you generate on co-transcriptional RNA isoform production (e.g. alternative splicing). A likely outcome of your project will be genome-wide analysis of RNA isoforms in your mutants by high-throughput Next-Generation RNA Sequencing (RNA-seq). Your project will explain biological phenomenon through RNA isoform changes under control of gene expression speed. Exon Exon Exon Tradional model of Transcripon ‘ON’ ‘OFF’ Pol II Kinec model of Transcripon Slow Fast Normal Alternave Splicing Alternave Polyadenylaon Pol II Pol II Pol II Pol II Pol II SS1 SS1 pA1 pA1 100% Fast Pol II 66.7% Fast Pol II 50% Fast Pol II Transcripon proof reading Pol II pausing and release Transcripon terminaon RNA quality control Transcripon -DNA replicaon cross talk Alternave polyadenylaon Biological eﬀect of accelerang RNA Pol II Transcripon run, rna pol ii, run! Transcription is the first step of gene expression. Traditionally, transcription is described with an “ON/OFF” model. However, steps of transcription after transcription factor binding are carefully con- trolled to efficiently align co-transcriptional transcript maturation events such as splicing. Transcrip- tional elongation of RNA polymerase II (Pol II) in eukaryotes is highly dynamic and involves changes of transcription speed. However, the biological effects of transcription speed remain poorly under- stood, particularly in higher organisms. Mutants with defined effects on the speed of transcription in plants enable us to dissect the molecular consequences and biological roles of organisms with altered transcriptional speed.

run, rna pol ii, run! - cpsc.ku.dk · tional elongation of RNA polymerase II (Pol II) in eukaryotes is highly dynamic and involves changes of transcription speed. However, the biological

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Page 1: run, rna pol ii, run! - cpsc.ku.dk · tional elongation of RNA polymerase II (Pol II) in eukaryotes is highly dynamic and involves changes of transcription speed. However, the biological

Master thesis opportunity in Marquardt lab at Copenhagen Plant Science Centre (CPSC)

Please contact Sebastian or Xueyuan for further information [email protected]

[email protected]

Big Question:

Your Role:

You will analyze genetic interactions between plants harboring mutations in RNA Pol II accelerating or slowing down transcription with candidate factors implicated in elongation of transcription. You will be trained in cutting-edge molecular plant science research. For example, you will analyze the impact of mutants you generate on co-transcriptional RNA isoform production (e.g. alternative splicing). A likely outcome of your project will be genome-wide analysis of RNA isoforms in your mutants by high-throughput Next-Generation RNA Sequencing (RNA-seq). Your project will explain biological phenomenon through RNA isoform changes under control of gene expression speed.

ExonExon Exon

Traditional model of Transcription‘ON’ ‘OFF’

Pol II

Kinetic model of Transcription

Slow

Fast

Normal

Alternative Splicing

Alternative Polyadenylation

Pol II

Pol II Pol II

SS1

SS1pA1

pA1

100% Fast Pol II 66.7% Fast Pol II 50% Fast Pol II

Transcription proof readingPol II pausing and release Transcription terminationRNA quality control

Transcription-DNA replication cross talkAlternative polyadenylation

Biological effect of acceleratingRNA Pol II Transcription

run, rna pol ii, run!

Transcription is the first step of gene expression. Traditionally, transcription is described with an “ON/OFF” model. However, steps of transcription after transcription factor binding are carefully con-trolled to efficiently align co-transcriptional transcript maturation events such as splicing. Transcrip-tional elongation of RNA polymerase II (Pol II) in eukaryotes is highly dynamic and involves changes of transcription speed. However, the biological effects of transcription speed remain poorly under-stood, particularly in higher organisms. Mutants with defined effects on the speed of transcription in plants enable us to dissect the molecular consequences and biological roles of organisms with altered transcriptional speed.