Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Copy number variation in an invasive fish of hybrid origin

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Cottus rhenanus Cottus Cottus perifretum

PROVIDER: GSE93065 | GEO | 2017/07/01

SECONDARY ACCESSION(S): PRJNA359761

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Copy number variation in an invasive fish of hybrid origin

Project description:Copy number variation in an invasive fish of hybrid origin

| PRJNA359761 | ENA

Copy number increases of transposable elements and protein-coding genes in an invasive fish of hybrid origin.

Project description:Evolutionary dynamics of structural genetic variation in lineages of hybrid origin is not well explored, although structural mutations may increase in controlled hybrid crosses. We therefore tested whether structural variants accumulate in a fish of recent hybrid origin, invasive Cottus, relative to both parental species Cottus rhenanus and Cottus perifretum. Copy-number variation in exons of 10,979 genes was assessed using comparative genome hybridization arrays. Twelve genes showed significantly higher copy numbers in invasive Cottus compared to both parents. This coincided with increased expression for three genes related to vision, detoxification and muscle development, suggesting possible gene dosage effects. Copy number increases of putative transposons were assessed by comparative mapping of genomic DNA reads against a de novo assembly of 1,005 repetitive elements. In contrast to exons, copy number increases of repetitive elements were common (20.7%) in invasive Cottus, whereas decrease was very rare (0.01%). Among the increased repetitive elements, 53.8% occurred at higher numbers in C. perifretum compared to C. rhenanus, while only 1.4% were more abundant in C. rhenanus. This implies a biased mutational process that amplifies genetic material from one ancestor. To assess the frequency of de novo mutations through hybridization, we screened 64 laboratory-bred F2 offspring between the parental species for copy-number changes at five candidate loci. We found no evidence for new structural variants, indicating that they are too rare to be detected given our sampling scheme. Instead, they must have accumulated over more generations than we observed in a controlled cross.

| S-EPMC5638112 | biostudies-literature

Copy number variation in Y chromosome multicopy genes is linked to a paternal parent-of-origin effect on CNS autoimmune disease in female offspring

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-01-16 | E-GEOD-65048 | biostudies-arrayexpress

Detection of copy number variation in patients with Pelizaeus-Merzbacher disease (PMD)

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-02-09 | E-GEOD-64122 | biostudies-arrayexpress

Quantitative analysis of chromatin interactions upon copy number variation at mouse 4E2

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-07-03 | E-GEOD-64360 | biostudies-arrayexpress

Copy number variation analysis of human Barrett's esophagus stem cells