Runs of homozygosity and signatures of selection: a comparison among eight local Swiss sheep breeds

Animal Genetics
Heidi Signer-HaslerChristine Flury

Abstract

A dataset consisting of 787 animals with high-density SNP chip genotypes (346 774 SNPs) and 939 animals with medium-density SNP chip genotypes (33 828 SNPs) from eight indigenous Swiss sheep breeds was analyzed to characterize population structure, quantify genomic inbreeding based on runs of homozygosity and identify selection signatures. In concordance with the recent known history of these breeds, the highest genetic diversity was observed in Engadine Red sheep and the lowest in Valais Blacknose sheep. Correlation between FPED and FROH was around 0.50 and thereby lower than that found in similar studies in cattle. Mean FROH estimates from medium-density data and HD data were highly correlated (0.95). Signatures of selection and candidate gene analysis revealed that the most prominent signatures of selection were found in the proximity of genes associated with body size (NCAPG, LCORL, LAP3, SPP1, PLAG1, ALOX12, TP53), litter size (SPP1), milk production (ABCG2, SPP1), coat color (KIT, ASIP, TBX3) and horn status (RXFP2). For the Valais Blacknose sheep, the private signatures in proximity of genes/QTL influencing body size, coat color and fatty acid composition were confirmed based on runs of homozygosity analysis. These priva...Continue Reading

References

Sep 30, 2005·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·M SargolzaeiJ-J Colleau
Mar 11, 2006·Evolution; International Journal of Organic Evolution·Dorte BekkevoldDaniel E Ruzzante
Jan 17, 2009·PLoS Genetics·Meiying FangLeif Andersson
Mar 10, 2009·PloS One·James W KijasUNKNOWN International Sheep Genomics Consortium
Aug 4, 2009·Genome Research·David H AlexanderKenneth Lange
Jan 19, 2010·Proceedings of the National Academy of Sciences of the United States of America·Joshua M AkeyMark W Neff
Jan 8, 2011·Genetics·Jennie E PryceMichael E Goddard
Feb 22, 2012·PLoS Biology·James W KijasUNKNOWN International Sheep Genomics Consortium Members
Aug 15, 2012·BMC Genetics·Deirdre C PurfieldDaniel G Bradley
Dec 12, 2012·Animal Genetics·James W KijasUNKNOWN International Goat Genome Consortium
Feb 13, 2014·BMC Genomics·Ezequiel Luis NicolazziAlessandra Stella
Jul 22, 2014·Animal Genetics·James W KijasUNKNOWN International Sheep Genomics Consortium
Aug 16, 2014·PloS One·Maria-Ines FarielloSimon Boitard
Feb 28, 2015·GigaScience·Christopher C ChangJames J Lee
Jun 24, 2015·Animal Genetics·Natalie Wiedemar, Cord Drögemüller
Nov 26, 2015·Genetics, Selection, Evolution : GSE·Hawlader Abdullah Al-MamunCedric Gondro
Dec 3, 2016·Animal Genetics·E PeripolliF Baldi
Nov 9, 2017·Genetics, Selection, Evolution : GSE·Heidi Signer-HaslerChristine Flury
Nov 16, 2017·Genetics, Selection, Evolution : GSE·Salvatore MastrangeloBaldassare Portolano
Jan 16, 2018·Animal Genetics·S MastrangeloUNKNOWN Bi.Ov. Ita Consortium
Mar 8, 2018·Nature Communications·Florian J AlbertoFrançois Pompanon
Mar 24, 2018·Genetics, Selection, Evolution : GSE·Otsanda Ruiz-LarrañagaAndone Estonba

❮ Previous
Next ❯

Citations

Sep 6, 2019·Animal Genetics·V JagannathanUNKNOWN Dog Biomedical Variant Database Consortium (DBVDC)
Jul 11, 2020·PloS One·Przemysław PrządkaDariusz Patkowski
Aug 18, 2020·Animal Genetics·J M ParisC Drögemüller
Aug 23, 2020·Animals : an Open Access Journal From MDPI·Hongwei XuYong Cai
Nov 25, 2020·Tropical Animal Health and Production·Kai QuanDaojiang Zhang
Oct 21, 2020·G3 : Genes - Genomes - Genetics·Reza TalebiSaber Qanbari
Apr 4, 2021·Genes·Seyed Mohammad GhoreishifarAnna M Johansson
Apr 8, 2021·Animal Biotechnology·Yun PanFugui Jiang

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.