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The combination of ...
The combination of HiFi and HiC sequencing technologies enables the investigation of structural variants in speciation of Ficedula flycatchers
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- Chase, Madeline (författare)
- Uppsala universitet,Evolutionsbiologi
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- Scofield, Douglas, 1966- (författare)
- Uppsala universitet,Evolutionsbiologi,Institutionen för informationsteknologi
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- Kraft, Fanny-Linn (författare)
- Stockholm University, Department of Zoology
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- Segami, Carolina (författare)
- Uppsala universitet,Zooekologi
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- Ålund, Murielle (författare)
- Uppsala universitet,Zooekologi
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- Qvarnström, Anna (författare)
- Uppsala universitet,Zooekologi
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- Wheatcroft, David (författare)
- Stockholm University, Department of Zoology
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- Mugal, Carina (författare)
- Uppsala universitet,Evolutionsbiologi,University of Lyon 1, Laboratory of Biometry and Evolutionary Biology, CNRS UMR 5558
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(creator_code:org_t)
- Engelska.
- Relaterad länk:
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https://urn.kb.se/re...
Abstract
Ämnesord
Stäng
- Structural variants, typically defined as mutations affecting more than 50bp, have been shown to encompass a significant portion of the genome and can have large phenotypic effects. Additionally, increasing empirical evidence demonstrates that structural variants may play a substantial role in speciation, which could previously have been overlooked because of difficulties in identifying them with short-read data. However, with the increased availability of long-read sequencing technology we are now equipped better than ever to address this limitation and study the contribution of different types of structural variants to genetic variation within and genetic differentiation between closely related species. Here, we follow this approach and combine PacBio HiFi and HiC sequencing for two closely related passerine birds, the collared flycatcher and the pied flycatcher. This enables us to generate a chromosome-level genome assembly for both species, and identify structural variants between the two species. Based on population-level HiFi sequencing for both species, we then investigate patterns of single nucleotide diversity and differentiation within and between species and their association with different types of structural variation. We find widespread structural variation between the two species, where both the sex chromosomes show a disproportionate number of structural variants, which may help explain the suspected role of the Z-chromosome in contributing to genetic incompatibilities. We also find that genomic differentiation peaks are enriched in both translocations and inversions, which supports a mechanistic role of structural variation in population differentiation and speciation.
Ämnesord
- NATURVETENSKAP -- Biologi -- Genetik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Genetics (hsv//eng)
- NATURVETENSKAP -- Biologi -- Evolutionsbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Evolutionary Biology (hsv//eng)
Nyckelord
- speciation genomics
- long-read genome assembly
- avian microchromosomes
- chromosomal re-arrangements
- inversions
Publikations- och innehållstyp
- vet (ämneskategori)
- ovr (ämneskategori)