Literature DB >> 18780148

Gene mapping in the wild with SNPs: guidelines and future directions.

Jon Slate1, Jake Gratten, Dario Beraldi, Jessica Stapley, Matt Hale, Josephine M Pemberton.   

Abstract

One of the biggest challenges facing evolutionary biologists is to identify and understand loci that explain fitness variation in natural populations. This review describes how genetic (linkage) mapping with single nucleotide polymorphism (SNP) markers can lead to great progress in this area. Strategies for SNP discovery and SNP genotyping are described and an overview of how to model SNP genotype information in mapping studies is presented. Finally, the opportunity afforded by new generation sequencing and typing technologies to map fitness genes by genome-wide association studies is discussed.

Entities:  

Mesh：

Year:  2008        PMID： 18780148     DOI： 10.1007/s10709-008-9317-z

Source DB:  PubMed          Journal:  Genetica        ISSN： 0016-6707            Impact factor:   1.082


  81 in total

1.  Haplotype variation and linkage disequilibrium in 313 human genes.

Authors:  J C Stephens; J A Schneider; D A Tanguay; J Choi; T Acharya; S E Stanley; R Jiang; C J Messer; A Chew; J H Han; J Duan; J L Carr; M S Lee; B Koshy; A M Kumar; G Zhang; W R Newell; A Windemuth; C Xu; T S Kalbfleisch; S L Shaner; K Arnold; V Schulz; C M Drysdale; K Nandabalan; R S Judson; G Ruano; G F Vovis
Journal:  Science       Date:  2001-07-12       Impact factor: 47.728

Review 2.  Accessing genetic variation: genotyping single nucleotide polymorphisms.

Authors:  A C Syvänen
Journal:  Nat Rev Genet       Date:  2001-12       Impact factor: 53.242

3.  Linkage disequilibrium and the mapping of complex human traits.

Authors:  Kenneth M Weiss; Andrew G Clark
Journal:  Trends Genet       Date:  2002-01       Impact factor: 11.639

4.  Structure of linkage disequilibrium and phenotypic associations in the maize genome.

Authors:  D L Remington; J M Thornsberry; Y Matsuoka; L M Wilson; S R Whitt; J Doebley; S Kresovich; M M Goodman; E S Buckler
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-18       Impact factor: 11.205

5.  SNPstream UHT: ultra-high throughput SNP genotyping for pharmacogenomics and drug discovery.

Authors:  Peter A Bell; Surendra Chaturvedi; Craig A Gelfand; Ching Yu Huang; Michael Kochersperger; Rafael Kopla; Frank Modica; Mark Pohl; Shobha Varde; Renbin Zhao; Xiaojian Zhao; Michael T Boyce-Jacino; Azzam Yassen
Journal:  Biotechniques       Date:  2002-06       Impact factor: 1.993

6.  SimPed: a simulation program to generate haplotype and genotype data for pedigree structures.

Authors:  Suzanne M Leal; Kai Yan; Bertram Müller-Myhsok
Journal:  Hum Hered       Date:  2005-10-13       Impact factor: 0.444

7.  Microsatellites, from molecules to populations and back.

Authors:  P Jarne; P J Lagoda
Journal:  Trends Ecol Evol       Date:  1996-10       Impact factor: 17.712

8.  A primary assembly of a bovine haplotype block map based on a 15,036-single-nucleotide polymorphism panel genotyped in holstein-friesian cattle.

Authors:  Mehar S Khatkar; Kyall R Zenger; Matthew Hobbs; Rachel J Hawken; Julie A L Cavanagh; Wes Barris; Alexander E McClintock; Sara McClintock; Peter C Thomson; Bruce Tier; Frank W Nicholas; Herman W Raadsma
Journal:  Genetics       Date:  2007-04-15       Impact factor: 4.562

9.  Single nucleotide polymorphism (SNP) discovery in mammals: a targeted-gene approach.

Authors:  Nicola Aitken; Steven Smith; Carsten Schwarz; Phillip A Morin
Journal:  Mol Ecol       Date:  2004-06       Impact factor: 6.185

10.  High-throughput development and characterization of a genomewide collection of gene-based single nucleotide polymorphism markers by chip-based matrix-assisted laser desorption/ionization time-of-flight mass spectrometry.

Authors:  K H Buetow; M Edmonson; R MacDonald; R Clifford; P Yip; J Kelley; D P Little; R Strausberg; H Koester; C R Cantor; A Braun
Journal:  Proc Natl Acad Sci U S A       Date:  2001-01-02       Impact factor: 11.205
View more
  39 in total

Review 1.  Genomics and the future of conservation genetics.

Authors:  Fred W Allendorf; Paul A Hohenlohe; Gordon Luikart
Journal:  Nat Rev Genet       Date:  2010-10       Impact factor: 53.242

2.  Convergence in pigmentation at multiple levels: mutations, genes and function.

Authors:  Marie Manceau; Vera S Domingues; Catherine R Linnen; Erica Bree Rosenblum; Hopi E Hoekstra
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-08-27       Impact factor: 6.237

3.  Evolution of quantitative traits in the wild: mind the ecology.

Authors:  Josephine M Pemberton
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-08-27       Impact factor: 6.237

Review 4.  Applications of next generation sequencing in molecular ecology of non-model organisms.

Authors:  R Ekblom; J Galindo
Journal:  Heredity (Edinb)       Date:  2010-12-08       Impact factor: 3.821

Review 5.  Extent and scale of local adaptation in salmonid fishes: review and meta-analysis.

Authors:  D J Fraser; L K Weir; L Bernatchez; M M Hansen; E B Taylor
Journal:  Heredity (Edinb)       Date:  2011-01-12       Impact factor: 3.821

Review 6.  The immunology and genetics of resistance of sheep to Teladorsagia circumcincta.

Authors:  Virginia M Venturina; Anton G Gossner; John Hopkins
Journal:  Vet Res Commun       Date:  2013-02-22       Impact factor: 2.459

7.  Reduced microsatellite heterozygosity does not affect natal dispersal in three contrasting roe deer populations.

Authors:  Cécile Vanpé; Lucie Debeffe; A J Mark Hewison; Erwan Quéméré; Jean-François Lemaître; Maxime Galan; Britany Amblard; François Klein; Bruno Cargnelutti; Gilles Capron; Joël Merlet; Claude Warnant; Jean-Michel Gaillard
Journal:  Oecologia       Date:  2014-11-12       Impact factor: 3.225

8.  A comparison of SNPs and microsatellites as linkage mapping markers: lessons from the zebra finch (Taeniopygia guttata).

Authors:  Alexander D Ball; Jessica Stapley; Deborah A Dawson; Tim R Birkhead; Terry Burke; Jon Slate
Journal:  BMC Genomics       Date:  2010-04-01       Impact factor: 3.969

9.  In vitro vs in silico detected SNPs for the development of a genotyping array: what can we learn from a non-model species?

Authors:  Camille Lepoittevin; Jean-Marc Frigerio; Pauline Garnier-Géré; Franck Salin; María-Teresa Cervera; Barbara Vornam; Luc Harvengt; Christophe Plomion
Journal:  PLoS One       Date:  2010-06-09       Impact factor: 3.240

10.  Characterization of the Zoarces viviparus liver transcriptome using massively parallel pyrosequencing.

Authors:  Erik Kristiansson; Noomi Asker; Lars Förlin; D G Joakim Larsson
Journal:  BMC Genomics       Date:  2009-07-31       Impact factor: 3.969
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.