Evolution of sex chromosomes in Sylvioidea songbirds
(2021)- Abstract
- Sex chromosomes were discovered more than 100 years ago. They have been studied intensely from a theoretical perspective since then, giving rise to a large body of testable predictions about their evolution from autosomes. A common feature of sex chromosomes is recombination suppression between the sex chromosome copies (X and Y in male heterogametic systems, or Z and W in female heterogametic systems). Without recombination, the sex-limited chromosome (Y or W) is expected to degenerate through the accumulation of deleterious mutations and repeat elements. Over long evolutionary time scales, this degeneration may leave the Y/W chromosomes short and almost completely devoid of functional genes.
Using genome sequencing technology,... (More) - Sex chromosomes were discovered more than 100 years ago. They have been studied intensely from a theoretical perspective since then, giving rise to a large body of testable predictions about their evolution from autosomes. A common feature of sex chromosomes is recombination suppression between the sex chromosome copies (X and Y in male heterogametic systems, or Z and W in female heterogametic systems). Without recombination, the sex-limited chromosome (Y or W) is expected to degenerate through the accumulation of deleterious mutations and repeat elements. Over long evolutionary time scales, this degeneration may leave the Y/W chromosomes short and almost completely devoid of functional genes.
Using genome sequencing technology, we can now study the full DNA sequence of sex chromosomes. The analysis of sequence data from a wide range of taxonomic groups has revealed that sex chromosomes are more dynamic and variable than previously believed. Several aspects of sex chromosome evolution, however, remain poorly understood, especially relating to the early stages of evolution from autosomes. This is partly because some hypotheses are challenging to test, but also because most well-studied sex chromosome systems are evolutionarily old and biased towards XY systems.
In this thesis, I study the evolution of sex chromosomes across Sylvioidea songbirds using genomic data and bioinformatic methodology. All members of this superfamily have a shared “neo-sex chromosome”: a fusion between an autosome (chromosome 4A) and the existing sex chromosomes. The sex chromosomes of birds (ZW) formed in a common ancestor more than 100 million years ago. Since then, the W chromosome has undergone severe degradation and shortening, obscuring almost all traces of their early evolution. Additions of new genetic material through autosome-sex chromosome fusions, however, allow us to study the early stages of sex chromosome evolution.
I developed a computational pipeline aimed at discovering and visualizing sex chromosomes. I applied this pipeline to genomic data from species belonging to 13 different Sylvioidea families, and found that four additional autosome-sex chromosome fusions have occurred in different lineages within the group (involving chromosomes 3, 4, 5 and 8). These different fused regions have intermediate to extremely low W degeneration levels, with dosage sensitive and evolutionarily constrained genes being retained to a higher degree than other genes. I also studied the structure of these neo-sex chromosomes, how female gene expression changes in response to W degeneration and how recombination suppression extends along newly added sex chromosome regions. The work in this thesis shows that Sylvioidea songbirds are an ideal system for testing theory relating to sex chromosome evolution, and that bird sex chromosomes are more variable than previously believed. (Less)
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/bd276405-16c9-4e46-9e50-fdd8cfccb0ba
- author
- Sigeman, Hanna LU
- supervisor
- opponent
-
- Professor Sunnucks, Paul, Monash University, Australia
- organization
- publishing date
- 2021-03-15
- type
- Thesis
- publication status
- published
- subject
- keywords
- Sex chromosome, neo-sex chromosome, Birds, vertebrates, Genomics, Bioinformatics
- pages
- 228 pages
- publisher
- Lund University (Media-Tryck)
- defense location
- Blå hallen, Ekologihuset, Biologiska institutionen, Lund. Join via zoom:https://lu-se.zoom.us/j/63900299557
- defense date
- 2021-04-09 09:00:00
- ISBN
- 978-91-7895-782-8
- 978-91-7895-781-1
- language
- English
- LU publication?
- yes
- id
- bd276405-16c9-4e46-9e50-fdd8cfccb0ba
- date added to LUP
- 2021-03-12 09:28:03
- date last changed
- 2021-03-19 11:46:33
@phdthesis{bd276405-16c9-4e46-9e50-fdd8cfccb0ba,
abstract = {{Sex chromosomes were discovered more than 100 years ago. They have been studied intensely from a theoretical perspective since then, giving rise to a large body of testable predictions about their evolution from autosomes. A common feature of sex chromosomes is recombination suppression between the sex chromosome copies (X and Y in male heterogametic systems, or Z and W in female heterogametic systems). Without recombination, the sex-limited chromosome (Y or W) is expected to degenerate through the accumulation of deleterious mutations and repeat elements. Over long evolutionary time scales, this degeneration may leave the Y/W chromosomes short and almost completely devoid of functional genes.<br/><br/>Using genome sequencing technology, we can now study the full DNA sequence of sex chromosomes. The analysis of sequence data from a wide range of taxonomic groups has revealed that sex chromosomes are more dynamic and variable than previously believed. Several aspects of sex chromosome evolution, however, remain poorly understood, especially relating to the early stages of evolution from autosomes. This is partly because some hypotheses are challenging to test, but also because most well-studied sex chromosome systems are evolutionarily old and biased towards XY systems.<br/><br/>In this thesis, I study the evolution of sex chromosomes across Sylvioidea songbirds using genomic data and bioinformatic methodology. All members of this superfamily have a shared “neo-sex chromosome”: a fusion between an autosome (chromosome 4A) and the existing sex chromosomes. The sex chromosomes of birds (ZW) formed in a common ancestor more than 100 million years ago. Since then, the W chromosome has undergone severe degradation and shortening, obscuring almost all traces of their early evolution. Additions of new genetic material through autosome-sex chromosome fusions, however, allow us to study the early stages of sex chromosome evolution.<br/><br/>I developed a computational pipeline aimed at discovering and visualizing sex chromosomes. I applied this pipeline to genomic data from species belonging to 13 different Sylvioidea families, and found that four additional autosome-sex chromosome fusions have occurred in different lineages within the group (involving chromosomes 3, 4, 5 and 8). These different fused regions have intermediate to extremely low W degeneration levels, with dosage sensitive and evolutionarily constrained genes being retained to a higher degree than other genes. I also studied the structure of these neo-sex chromosomes, how female gene expression changes in response to W degeneration and how recombination suppression extends along newly added sex chromosome regions. The work in this thesis shows that Sylvioidea songbirds are an ideal system for testing theory relating to sex chromosome evolution, and that bird sex chromosomes are more variable than previously believed.}},
author = {{Sigeman, Hanna}},
isbn = {{978-91-7895-782-8}},
keywords = {{Sex chromosome; neo-sex chromosome; Birds; vertebrates; Genomics; Bioinformatics}},
language = {{eng}},
month = {{03}},
publisher = {{Lund University (Media-Tryck)}},
school = {{Lund University}},
title = {{Evolution of sex chromosomes in Sylvioidea songbirds}},
url = {{https://lup.lub.lu.se/search/files/95215500/Hanna_Sigeman_avh_E_spik.pdf}},
year = {{2021}},
}