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The Regulation and Evolution of Tran...

Lu, Zhaolian.

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The Regulation and Evolution of Transcription Initiation in Yeast.

Record Type:	Electronic resources : Monograph/item
Title/Author:	The Regulation and Evolution of Transcription Initiation in Yeast./
Author:	Lu, Zhaolian.
Published:	Ann Arbor : ProQuest Dissertations & Theses, : 2020,
Description:	184 p.
Notes:	Source: Dissertations Abstracts International, Volume: 82-03, Section: B.
Contained By:	Dissertations Abstracts International82-03B.
Subject:	Biology. -
Online resource:	https://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=27999683
ISBN:	9798664762259

The Regulation and Evolution of Transcription Initiation in Yeast.
Lu, Zhaolian.

The Regulation and Evolution of Transcription Initiation in Yeast. - Ann Arbor : ProQuest Dissertations & Theses, 2020 - 184 p.

Source: Dissertations Abstracts International, Volume: 82-03, Section: B.

Thesis (Ph.D.)--Saint Louis University, 2020.

This item must not be sold to any third party vendors.

Transcription initiation by RNA polymerase II (Pol II) is one of the critical steps in regulation of gene expression in eukaryotes. Transcription initiation occurs at core promoter regions, which include the transcription start site (TSS) and its immediately flanking sequences. Various transcriptional factors interact with core promoters to locate the TSSs and control the amount of transcripts produced, which is a complicated process, and its genetic and molecular mechanisms are far from well understood. The main objective of my PhD dissertation is to better understand the fundamental process of gene regulation using genomics approaches. To achieve this goal, I first generated TSS maps at a single-nucleotide resolution for Saccharomyces cerevisiae under various growth conditions using the nAnT-iCAGE technique. The TSS maps showed dynamic and pervasive transcription initiation in yeast. I also found that alternative core promoter usage is prevalent and coupled with altered gene expression, suggesting alternative core promoter usage might be important in transcriptional regulation of gene expression.Second, I sought to improve our understandings of the mechanism of transcription initiation in yeasts. Although how RNA pol II determines TSSs is highly conserved in eukaryotes ("classic model"), S. cerevisiae uses a distinct transcription initiation mechanism ( "scanning model"). To determine when and how the "scanning model" evolved, I obtained TSSs maps for 12 yeast species by nAnT-iCAGE. I found that the "scanning model" has originated after the split of Yarrowia lipolytica with the rest of budding yeasts. An adenine-rich region immediately upstream of TSSs might facilitate TSS selection in "scanning model" species. The evolutionary analysis improves our understanding of transcription initiation mechanisms and emphasizes the functional roles of sequence elements in the transcription initiation process.The high-throughput TSS sequencing technologies have significantly improved our understandings of the complexity of transcription initiation. We developed a new web database, YeasTSS (www.yeastss.org), to provide visualization and integration of yeast TSS maps, as well as various functional genomic datasets that are related to transcription initiation process. I also developed an R package for comprehensively analyzing TSS sequencing data.

ISBN: 9798664762259Subjects--Topical Terms:

522710
Biology.
Subjects--Index Terms:

Yeast

The Regulation and Evolution of Transcription Initiation in Yeast.
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520 $a Transcription initiation by RNA polymerase II (Pol II) is one of the critical steps in regulation of gene expression in eukaryotes. Transcription initiation occurs at core promoter regions, which include the transcription start site (TSS) and its immediately flanking sequences. Various transcriptional factors interact with core promoters to locate the TSSs and control the amount of transcripts produced, which is a complicated process, and its genetic and molecular mechanisms are far from well understood. The main objective of my PhD dissertation is to better understand the fundamental process of gene regulation using genomics approaches. To achieve this goal, I first generated TSS maps at a single-nucleotide resolution for Saccharomyces cerevisiae under various growth conditions using the nAnT-iCAGE technique. The TSS maps showed dynamic and pervasive transcription initiation in yeast. I also found that alternative core promoter usage is prevalent and coupled with altered gene expression, suggesting alternative core promoter usage might be important in transcriptional regulation of gene expression.Second, I sought to improve our understandings of the mechanism of transcription initiation in yeasts. Although how RNA pol II determines TSSs is highly conserved in eukaryotes ("classic model"), S. cerevisiae uses a distinct transcription initiation mechanism ( "scanning model"). To determine when and how the "scanning model" evolved, I obtained TSSs maps for 12 yeast species by nAnT-iCAGE. I found that the "scanning model" has originated after the split of Yarrowia lipolytica with the rest of budding yeasts. An adenine-rich region immediately upstream of TSSs might facilitate TSS selection in "scanning model" species. The evolutionary analysis improves our understanding of transcription initiation mechanisms and emphasizes the functional roles of sequence elements in the transcription initiation process.The high-throughput TSS sequencing technologies have significantly improved our understandings of the complexity of transcription initiation. We developed a new web database, YeasTSS (www.yeastss.org), to provide visualization and integration of yeast TSS maps, as well as various functional genomic datasets that are related to transcription initiation process. I also developed an R package for comprehensively analyzing TSS sequencing data.
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