Online citations, reference lists, and bibliographies.

Detection Of Signatures Of Selection Using Fst.

L. Porto-Neto, S. Lee, H. Lee, C. Gondro
Published 2013 · Medicine, Biology

Cite This
Download PDF
Analyze on Scholarcy
Share
Natural selection has molded the evolution of species across all taxa. Much more recently, on an evolutionary scale, human-oriented selection started to play an important role in shaping organisms, markedly so after the domestication of animals and plants. These selection processes have left traceable marks in the genome. Following from the recent advances in molecular genetics technologies, a number of methods have been developed to detect such signals, termed genomic signatures of selection. In this chapter we discuss a straightforward protocol based on the F ST statistic to identify genomic regions that exhibit high variation in allelic frequency between groups, which is a characteristic of genomic regions that have gone through differential selection. How to define the borders of these regions and further explore its genetic content is then discussed.
This paper references
10.1371/journal.pone.0006595
The Genome Response to Artificial Selection: A Case Study in Dairy Cattle
L. Flori (2009)
10.1111/1467-9868.00357
Assessing population differentiation and isolation from single‐nucleotide polymorphism data
G. Nicholson (2002)
The Bayesian choice : from decision-theoretic foundations to computational implementation
C. Robert (2007)
10.1111/j.1469-1809.1949.tb02451.x
Genetical structure of populations.
S. Wright (1950)
10.1080/01621459.1991.10475090
A Flexible and Fast Method for Automatic Smoothing
T. Gasser (1991)
10.1371/journal.pgen.1001116
Identifying Signatures of Natural Selection in Tibetan and Andean Populations Using Dense Genome Scan Data
A. Bigham (2010)
10.3168/jds.2007-0980
Efficient methods to compute genomic predictions.
P. VanRaden (2008)
10.1038/nrg2611
Genetics in geographically structured populations: defining, estimating and interpreting FST
K. Holsinger (2009)
10.1038/nature06250
Genome-wide detection and characterization of positive selection in human populations
Pardis C Sabeti (2007)
10.1371/journal.pbio.0050171
A New Approach for Using Genome Scans to Detect Recent Positive Selection in the Human Genome
K. Tang (2007)
10.1086/519795
PLINK: a tool set for whole-genome association and population-based linkage analyses.
S. Purcell (2007)
10.1073/pnas.0909918107
Tracking footprints of artificial selection in the dog genome
J. Akey (2010)
10.1126/science.1124309
Positive Natural Selection in the Human Lineage
P. C. Sabeti (2006)
10.1371/journal.pbio.1001258
Genome-Wide Analysis of the World's Sheep Breeds Reveals High Levels of Historic Mixture and Strong Recent Selection
J. Kijas (2012)
10.1126/science.1183863
A Composite of Multiple Signals Distinguishes Causal Variants in Regions of Positive Selection
Sharon R Grossman (2010)
10.1038/nature01140
Detecting recent positive selection in the human genome from haplotype structure
Pardis C Sabeti (2002)
10.1111/j.1365-294X.2011.05163.x
Footprints of selection in the ancestral admixture of a New World Creole cattle breed.
M. Gautier (2011)
10.1111/j.1558-5646.1984.tb05657.x
ESTIMATING F‐STATISTICS FOR THE ANALYSIS OF POPULATION STRUCTURE
B. Weir (1984)
10.1371/JOURNAL.PBIO.0040072
A Map of Recent Positive Selection in the Human Genome
B. Voight (2006)
10.1073/pnas.1013011108
Genetic signals of origin, spread, and introgression in a large sample of maize landraces
J. van Heerwaarden (2010)



This paper is referenced by
10.1007/978-3-319-14475-7_4
Populations and Genetic Architecture
Cedric Gondro (2015)
10.1007/s00335-017-9678-7
The Valdostana goat: a genome-wide investigation of the distinctiveness of its selective sweep regions
Andrea Talenti (2017)
10.1186/s12864-016-2535-3
Genomic structure and marker-derived gene networks for growth and meat quality traits of Brazilian Nelore beef cattle
Mauricio de Alvarenga Mudadu (2016)
Genomic Analysis of Sow Reproductive Traits: Identification of Selective Sweeps, Major Genes, and Genotype by Diet Interactions
Melanie Trenhaile (2015)
10.1186/s12864-017-3610-0
Genetic diversity and signatures of selection in various goat breeds revealed by genome-wide SNP markers
L. F. Brito (2017)
Genetic and genomic studies in small ruminants
Luiz Fernando Brito (2016)
10.1186/s12864-016-2856-2
Erratum to: ‘Genomic structure and marker-derived gene networks for growth and meat quality traits of Brazilian Nelore beef cattle’
Mauricio de Alvarenga Mudadu (2016)
10.1186/2055-0391-56-23
A whole genomic scan to detect selection signatures between Berkshire and Korean native pig breeds
Z. Edea (2014)
10.1007/13836_2018_22
Population Genomics of Colonization and Invasion
Shana R Welles (2018)
10.1111/eva.12689
Comparing genomic signatures of domestication in two Atlantic salmon (Salmo salar L.) populations with different geographical origins
M. E. López (2019)
10.3389/fgene.2020.00371
Genetic Connectedness Between Norwegian White Sheep and New Zealand Composite Sheep Populations With Similar Development History
Hinayah Rojas Oliveira (2020)
10.22103/JLST.2017.10267.1190
A genome-wide scan to detect signatures of recent selection in Australian Merino sheep
M. Montazeri (2017)
10.3389/fpls.2019.00599
Computational Analysis of AmpSeq Data for Targeted, High-Throughput Genotyping of Amplicons
J. Fresnedo-Ramírez (2019)
10.1111/age.12119
Genome-wide detection of signatures of selection in Korean Hanwoo cattle.
L. R. Porto-Neto (2014)
10.1371/journal.pone.0189277
Genetic relatedness of previously Plant-Variety-Protected commercial maize inbreds
Travis J Beckett (2017)
10.1007/s00335-019-09820-5
Genome-wide scans identify known and novel regions associated with prolificacy and reproduction traits in a sub-Saharan African indigenous sheep (Ovis aries)
Asrat Tera Dolebo (2019)
Selection signature detection in a diverse set of chicken breeds
M. Gholami (2015)
10.1007/s00122-014-2343-6
Genome-wide investigation of genetic changes during modern breeding of Brassica napus
N. Wang (2014)
10.3389/fgene.2018.00318
Genome-Wide Characterization of Selection Signatures and Runs of Homozygosity in Ugandan Goat Breeds
R. Onzima (2018)
10.1111/pbi.12791
Genetic changes in a novel breeding population of Brassica napus synthesized from hundreds of crosses between B. rapa and B. carinata
J. Zou (2018)
Semantic Scholar Logo Some data provided by SemanticScholar