Genetic and epigenetic identity of centromeres
Abstract/Contents
- Abstract
- During cell division genetic material must both be duplicated and segregated into daughter cells. In addition to duplication of the genome during cell division, epigenetic information must also be inherited. This is critical for maintenance of epigenetic states and gene expression profiles. Centromeres mark the site of microtubule attachment during mitosis and are required for proper chromosome segregation. Centromeres are defined epigenetically by the histone H3 variant, CENP-A. Here we provide resources and techniques for studying epigenetic inheritance. We present a novel technique for mapping chromatin associated RNAs genome-wide, ChAR-seq. In efforts to investigate the role of DNA sequence in contributing to vertebrate centromere formation we identify and characterize centromere associated sequences in Xenopus leavis using an alignment independent k-mer based approach that identifies sequence features of repetitive elements in sequencing datasets. Unsatisfied with the lack of techniques for mapping DNA-protein interactions at repetitive regions of the genome we develop a technique that utilizes targeted exogenous adenine methylation to footprint DNA protein interactions that can be read out with long-read sequencing called Directed Methylation with long-read sequencing (DiMeLo-seq). Together these tools and resources allow for more careful study of epigenetic inheritance especially at repetitive regions of the genome.
Description
| Type of resource | text |
|---|---|
| Form | electronic resource; remote; computer; online resource |
| Extent | 1 online resource. |
| Place | California |
| Place | [Stanford, California] |
| Publisher | [Stanford University] |
| Copyright date | 2022; ©2022 |
| Publication date | 2022; 2022 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Author | Smith, Owen Kabnick |
|---|---|
| Degree supervisor | Straight, Aaron, 1966- |
| Thesis advisor | Straight, Aaron, 1966- |
| Thesis advisor | Cimprich, Karlene |
| Thesis advisor | Jarosz, Daniel |
| Thesis advisor | Wysocka, Joanna, Ph. D. |
| Degree committee member | Cimprich, Karlene |
| Degree committee member | Jarosz, Daniel |
| Degree committee member | Wysocka, Joanna, Ph. D. |
| Associated with | Stanford University, Department of Chemical and Systems Biology |
Subjects
| Genre | Theses |
|---|---|
| Genre | Text |
Bibliographic information
| Statement of responsibility | Owen Kabnick Smith. |
|---|---|
| Note | Submitted to the Department of Chemical and Systems Biology. |
| Thesis | Thesis Ph.D. Stanford University 2022. |
| Location | https://purl.stanford.edu/ty277dn3167 |
Access conditions
- Copyright
- © 2022 by Owen Kabnick Smith
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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