scholarly journals Analysis of Copy Number Variation in the Abp Gene Regions of Two House Mouse Subspecies Suggests Divergence during the Gene Family Expansions

2017 ◽  
Vol 9 (6) ◽  
Author(s):  
Željka Pezer ◽  
Amanda G. Chung ◽  
Robert C. Karn ◽  
Christina M. Laukaitis
Keyword(s):  
Copy Number Variation ◽  
Gene Family ◽  
House Mouse ◽  
Copy Number ◽  
Number Variation

scholarly journals The role of copy-number variation in the reinforcement of sexual isolation between the two European subspecies of the house mouse

2020 ◽  
Vol 375 (1806) ◽  
pp. 20190540 ◽  
Author(s):  
Henry L. North ◽  
Pierre Caminade ◽  
Dany Severac ◽  
Khalid Belkhir ◽  
Carole M. Smadja
Keyword(s):  
Mate Choice ◽  
Copy Number Variation ◽  
Reproductive Isolation ◽  
House Mouse ◽  
Copy Number ◽  
Structural Changes ◽  
Sexual Isolation ◽  
Number Variation ◽  
Tandem Duplications

Reinforcement has the potential to generate strong reproductive isolation through the evolution of barrier traits as a response to selection against maladaptive hybridization, but the genetic changes associated with this process remain largely unexplored. Building upon the increasing evidence for a role of structural variants in adaptation and speciation, we addressed the role of copy-number variation in the reinforcement of sexual isolation evidenced between the two European subspecies of the house mouse. We characterized copy-number divergence between populations of Mus musculus musculus that display assortative mate choice, and those that do not, using whole-genome resequencing data. Updating methods to detect deletions and tandem duplications (collectively: copy-number variants, CNVs) in Pool-Seq data, we developed an analytical pipeline dedicated to identifying genomic regions showing the expected pattern of copy-number displacement under a reinforcement scenario. This strategy allowed us to detect 1824 deletions and seven tandem duplications that showed extreme differences in frequency between behavioural classes across replicate comparisons. A subset of 480 deletions and four tandem duplications were specifically associated with the derived trait of assortative mate choice. These ‘Choosiness-associated’ CNVs occur in hundreds of genes. Consistent with our hypothesis, such genes included olfactory receptors potentially involved in the olfactory-based assortative mate choice in this system as well as one gene, Sp110 , that is known to show patterns of differential expression between behavioural classes in an organ used in mate choice—the vomeronasal organ. These results demonstrate that fine-scale structural changes are common and highly variable within species, despite being under-studied, and may be important targets of reinforcing selection in this system and others. This article is part of the theme issue ‘Towards the completion of speciation: the evolution of reproductive isolation beyond the first barriers’.

scholarly journals Copy number variation of the putative speciation genes in the European house mouse hybrid zone

2021 ◽  
Author(s):  
Alexey Yanchukov ◽  
Zusana Hiadlovska ◽  
Zeljka Pezer ◽  
Milos Macholan ◽  
Jaroslav Pialek ◽  
...  
Keyword(s):  
Copy Number Variation ◽  
House Mouse ◽  
Hybrid Zone ◽  
Copy Number ◽  
Digital Pcr ◽  
Gene Copy ◽  
Ancestral Population ◽  
Hybrid Zones ◽  
Interaction Sites ◽  
Number Variation

Hybrid zones have long been described as "windows on the evolutionary process", and studying them has become even more important since the advance in the genome analysis tools. The hybrid zone between two subspecies of the house mouse (Mus musculus musculus and Mus m. domesticus) is a unique model speciation system to study fine scale interactions of recently diverged genomes. Here, we explore the role of gene Copy Number Variation in shaping the barrier to introgression in the hybrid zone within a previously established transect in Central Europe. The CNV of seven pre-selected candidate genes was determined via droplet-digital PCR and analyzed in the context of ~500k SNPs, with the ancestral population (i.e. musculus or domesticus) of every SNP allele previously inferred in the admixed individuals (Baird et al., in prep.). The copy numbers of five genes were clearly associated with the prevalence of either musculus or domesticus genomes across the hybrid zone. In three cases, the highest and/or outlying levels of association were observed at or very close to the annotated positions of the respective gene amplicons, demonstrating the power of our approach in confirming the reference locations of copy number variants. Notably, several other reference locations were recognized as positive outliers in the association with particular CNV genes, possibly representing the extra gene copies and/or their epistatic interaction sites.

Analysis of copy number variation (CNV) of the SPANXA-E gene family in infertile and fertile men

2008 ◽  
Vol 90 ◽  
pp. S322-S323
Author(s):  
S. Hansen ◽  
E.E. Eichler ◽  
S.M. Fullerton ◽  
B.R. Emery ◽  
D.T. Carrell
Keyword(s):  
Copy Number Variation ◽  
Gene Family ◽  
Copy Number ◽  
E Gene ◽  
Number Variation

scholarly journals Extensive Copy-Number Variation of the Human Olfactory Receptor Gene Family

2008 ◽  
Vol 83 (2) ◽  
pp. 228-242 ◽  
Author(s):  
Janet M. Young ◽  
RaeLynn M. Endicott ◽  
Sean S. Parghi ◽  
Megan Walker ◽  
Jeffrey M. Kidd ◽  
...  
Keyword(s):  
Copy Number Variation ◽  
Gene Family ◽  
Olfactory Receptor ◽  
Copy Number ◽  
Receptor Gene ◽  
Olfactory Receptor Gene ◽  
Number Variation ◽  
Receptor Gene Family

Identification of Novel Germline and Tumor-Specific Nucleotide Variants and Copy Number Variation in Clival Chordomas by Exome Sequencing

2015 ◽  
Vol 76 (S 01) ◽  
Author(s):  
Georgios Zenonos ◽  
Peter Howard ◽  
Maureen Lyons-Weiler ◽  
Wang Eric ◽  
William LaFambroise ◽  
...  
Keyword(s):  
Copy Number Variation ◽  
Exome Sequencing ◽  
Copy Number ◽  
Number Variation ◽  
Specific Nucleotide

The impact of paralog genes: detection of copy number variation in spinal muscle atrophy patients

BIOCELL ◽  
2018 ◽  
Vol 42 (3) ◽  
pp. 87-91 ◽  
Author(s):  
Sergio LAURITO ◽  
Juan A. CUETO ◽  
Jimena PEREZ ◽  
Mar韆 ROQU�
Keyword(s):  
Copy Number Variation ◽  
Muscle Atrophy ◽  
Copy Number ◽  
Number Variation ◽  
The Impact
Sign in / Sign up

Export Citation Format

Share Document