#PAGE_PARAMS# #ADS_HEAD_SCRIPTS# #MICRODATA#

Genome-Wide Effects of Long-Term Divergent Selection


To understand the genetic mechanisms leading to phenotypic differentiation, it is important to identify genomic regions under selection. We scanned the genome of two chicken lines from a single trait selection experiment, where 50 generations of selection have resulted in a 9-fold difference in body weight. Analyses of nearly 60,000 SNP markers showed that the effects of selection on the genome are dramatic. The lines were fixed for alternative alleles in more than 50 regions as a result of selection. Another 10 regions displayed strong evidence for ongoing differentiation during the last 10 generations. Many more regions across the genome showed large differences in allele frequency between the lines, indicating that the phenotypic evolution in the lines in 50 generations is the result of an exploitation of standing genetic variation at 100s of loci across the genome.


Vyšlo v časopise: Genome-Wide Effects of Long-Term Divergent Selection. PLoS Genet 6(11): e32767. doi:10.1371/journal.pgen.1001188
Kategorie: Research Article
prolekare.web.journal.doi_sk: https://doi.org/10.1371/journal.pgen.1001188

Souhrn

To understand the genetic mechanisms leading to phenotypic differentiation, it is important to identify genomic regions under selection. We scanned the genome of two chicken lines from a single trait selection experiment, where 50 generations of selection have resulted in a 9-fold difference in body weight. Analyses of nearly 60,000 SNP markers showed that the effects of selection on the genome are dramatic. The lines were fixed for alternative alleles in more than 50 regions as a result of selection. Another 10 regions displayed strong evidence for ongoing differentiation during the last 10 generations. Many more regions across the genome showed large differences in allele frequency between the lines, indicating that the phenotypic evolution in the lines in 50 generations is the result of an exploitation of standing genetic variation at 100s of loci across the genome.


Zdroje

1. Maynard SmithJ

HaighJ

1974 The hitch-hiking effect of a favourable gene. Genet Res 23 23 35

2. BerryAJ

AjiokaJW

KreitmanM

1991 Lack of polymorphism on the Drosophila fourth chromosome resulting from selection. Genetics 129 1111 1117

3. OrrHA

BetancourtAJ

2001 Haldane's sieve and adaptation from the standing genetic variation. Genetics 157 875 884

4. PrzeworskiM

CoopG

WallJD

2005 The signature of positive selection on standing genetic variation. Evolution 59 2312 2323

5. HermissonJ

PenningsPS

2005 Soft sweeps: molecular population genetics of adaptation from standing genetic variation. Genetics 169 2335 2352

6. PenningsPS

HermissonJ

2006a Soft sweeps II – molecular population genetics of adaptation from recurrent mutation or migration. Mol Biol Evol 23 1076 1084

7. JacobssonL

ParkHB

WahlbergP

FredrikssonR

Perez-EncisoM

2005 Many QTLs with minor additive effects are associated with a large difference in growth between two selection lines in chickens. Genet Res 86 115 125

8. HillWG

2005 A century of corn selection. Science 307 683 684

9. HillWG

BungerL

2004 Inferences on the genetics of quantative traits from long-term selection in laboratory and domestic animals. Plant Breeding Rev 24 169 210

10. DunningtonEA

SiegelPB

1996 Long-term divergent selection for eight-week body weight in White Plymouth Rock chickens. Poult Sci 75 1168 1179

11. SabetiPC

VarillyP

FryB

LohmuellerJ

HostetterE

2007 Genome-wide detection and characterization of positive selection in human populations. Nature 449 913 918

12. PenningsPS

HermissonJ

2006b Soft sweeps III: the signature of positive selection from recurrent mutation. PLoS Genetics 2 e186 doi:10.1371/journal.pgen.0020186

13. TeotónioH

CheloIM

BradićM

RoseMR

LongAD

2009 Experimental evolution reveals natural selection on standing genetic variation. Nat Genet 41 251 257

14. RaquinA-L

BrabantP

RhonéB

BalfourierF

LeroyP

2008 Soft selective sweep near a gene that increases plant height in wheat. Mol Ecol 17 741 756

15. PurcellS

NealeB

Todd-BrownK

ThomasL

FerreiraMAR

2007 PLINK: a toolset for whole-genome association and population-based linkage analysis. Am J Hum Genet 81 559 575

16. CarlborgÖ

JacobssonL

ÅhgrenP

SiegelP

AnderssonL

2006 Epistasis and the release of genetic variation during long-term selection. Nat Genet 38 418 420

17. WahlbergP

CarlborgÖ

FoglioM

TordirX

SyvänenA-C

2009 Genetic analysis of an F2 intercross between two chicken lines divergently selected for body-weight. BMC Genomics 10 248

18. FalconerDS

MackayTFC

1996 Introduction to Quantitative Genetics. 4th ed. Essex, UK Longmans Green, Harlow

19. KimuraM

CrowJF

1978 Effect of overall phenotypic selection on genetic change at individual loci. Proc Natl Acad Sci USA 75 6168 6171

20. MarquezGL

LewisRM

WieglandEN

SiegelPB

2009 Inbreeding and population structure in lines of chickens divergently selected for high and low 8-week body weight. Poultry Science 88 E-suppl. 1 161 2009 Poultry Science Association Annual Meeting Abstracts

21. GillespieJH

1998 Population Genetics: A Concise Guide. Baltimore John Hopkins University Press 174

22. CastleWE

1921 An improved method of estimating the number of genetic factors concerned in cases of blending inheritance. Proc Natl Acad Sci USA 81 6904 6907

23. WrightS

1968 Evolution and the Genetics of Populations: Volume 1, Genetic and biometric foundations. Chicago University of Chicago Press 469

24. ZengZB

1992 Correcting the bias of Wright estimates of the number of genes affecting a quantitative character—a further improved method. Genetics 131 987 1001

25. OttoSP

JonesCD

2000 Detecting the undetected: Estimating the total number of loci underlying a quantitative trait. Genetics 156 2093 2107

26. BucklerES

HollandJB

BradburyPJ

AcharyaCB

BrownPJ

2009 The genetic architecture of maize flowering time. Science 325 714 718

27. LaurieCC

ChasalowSD

LeDeauxJR

McCarrollR

BushD

2004 The genetic architecture of response to long-term artificial selection for oil concentration in the maize kernel. Genetics 168 2141 2155

28. WeedonMN

LangoH

LindgrenCM

WallaceC

EvansDM

2008 Genome-wide association analysis identifies 20 loci that influence adult height. Nat Genet 40 575 583

29. ParkH-B

JacobssonL

WahlbergP

SiegelPB

AnderssonL

2006 QTL analysis of body composition and metabolic traits in an intercross between chicken lines divergently selected for growth. Physiol Genomics 25 216 223

30. RubinCJ

ZodyMC

ErikssonJ

MeadowsJR

SherwoodE

2010 Whole-genome resequencing reveals loci under selection during chicken domestication. Nature 464 587 591

31. R Development Core Team 2007 R: A language and environment for statistical computing. Vienna R Foundation for Statistical Computing

Štítky
Genetika Reprodukčná medicína

Článok vyšiel v časopise

PLOS Genetics


2010 Číslo 11
Najčítanejšie tento týždeň
Najčítanejšie v tomto čísle
Kurzy

Zvýšte si kvalifikáciu online z pohodlia domova

Aktuální možnosti diagnostiky a léčby litiáz
nový kurz
Autori: MUDr. Tomáš Ürge, PhD.

Všetky kurzy
Prihlásenie
Zabudnuté heslo

Zadajte e-mailovú adresu, s ktorou ste vytvárali účet. Budú Vám na ňu zasielané informácie k nastaveniu nového hesla.

Prihlásenie

Nemáte účet?  Registrujte sa

#ADS_BOTTOM_SCRIPTS#