Search: onr:"swepub:oai:gup.ub.gu.se/286059" >
Genomic evidence of...
Genomic evidence of neo-sex chromosomes in the eastern yellow robin
-
Gan, H. M. (author)
-
Falk, S. (author)
-
- Morales, Hernán E., 1985 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för marina vetenskaper,Department of marine sciences
-
show more...
-
Austin, C. M. (author)
-
Sunnucks, P. (author)
-
Pavlova, A. (author)
-
show less...
-
(creator_code:org_t)
- 2019-09-03
- 2019
- English.
-
In: Gigascience. - : Oxford University Press (OUP). - 2047-217X. ; 8:9
- Related links:
-
https://doi.org/10.1...
-
show more...
-
https://gup.ub.gu.se...
-
https://doi.org/10.1...
-
show less...
Abstract
Subject headings
Close
- Background: Understanding sex-biased natural selection can be enhanced by access to well-annotated chromosomes including ones inherited in sex-specific fashion. The eastern yellow robin (EYR) is an endemic Australian songbird inferred to have experienced climate-driven sex-biased selection and is a prominent model for studying mitochondrial-nuclear interactions in the wild. However, the lack of an EYR reference genome containing both sex chromosomes (in birds, a female bearing Z and W chromosomes) limits efforts to understand the mechanisms of these processes. Here, we assemble the genome for a female EYR and use low-depth (10x) genome resequencing data from 19 individuals of known sex to identify chromosome fragments with sex-specific inheritance. Findings: MaSuRCA hybrid assembly using Nanopore and Illumina reads generated a 1.22-Gb EYR genome in 20,702 scaffolds (94.2% BUSCO completeness). Scaffolds were tested for W-linked (female-only) inheritance using a k-mer approach, and for Z-linked inheritance using median read-depth test in male and female reads (read-depths must indicate haploid female and diploid male representation). This resulted in 2,372 W-linked scaffolds (total length: 97,872,282 bp, N50: 81,931 bp) and 586 Z-linked scaffolds (total length: 121,817,358 bp, N50: 551,641 bp). Anchoring of the sex-linked EYR scaffolds to the reference genome of a female zebra finch revealed 2 categories of sex-linked genomic regions. First, 653 W-linked scaffolds (25.7 Mb) were anchored to the W sex chromosome and 215 Z-linked scaffolds (74.4 Mb) to the Z. Second, 1,138 W-linked scaffolds (70.9 Mb) and 179 Z-linked scaffolds (51.0 Mb) were anchored to a large section (coordinates similar to 5 to similar to 60 Mb) of zebra finch chromosome 1A. The first similar to 5 Mb and last similar to 14 Mb of the reference chromosome 1A had only autosomally behaving EYR scaffolds mapping to them. Conclusions: We report a female (W chromosome-containing) EYR genome and provide genomic evidence for a neo-sex (neo-W and neo-Z) chromosome system in the EYR, involving most of a large chromosome (1A) previously only reported to be autosomal in passerines.
Subject headings
- NATURVETENSKAP -- Biologi -- Evolutionsbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Evolutionary Biology (hsv//eng)
Keyword
- eastern yellow robin
- Eopsaltria australis
- passerine
- songbird
- genome
- sex chromosome
- W
- read alignment
- selection
- suite
- Life Sciences & Biomedicine
Publication and Content Type
- ref (subject category)
- art (subject category)
Find in a library
To the university's database