RADSeq: next-generation population genetics

被引：513

作者：

Davey, John L. ^{[1
]}

Blaxter, Mark W. ^{[2
,3
]}

机构：

[1] Inst Evolutionary Biol, Ashworth Labs, Edinburgh EH9 3JT, Midlothian, Scotland

[2] Univ Edinburgh, Edinburgh, Midlothian, Scotland

[3] GenePool Genom Facil, Edinburgh, Midlothian, Scotland

来源：

BRIEFINGS IN FUNCTIONAL GENOMICS | 2010年 / 9卷 / 5-6期

基金：

英国生物技术与生命科学研究理事会; 英国医学研究理事会;

关键词：

RADSeq; population genetics; next-generation sequencing; genetic marker discovery; SNP discovery; HUMAN GENOME; ALIGNMENT; EVOLUTION;

D O I：

10.1093/bfgp/elq031

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Next-generation sequencing technologies are making a substantial impact on many areas of biology, including the analysis of genetic diversity in populations. However, genome-scale population genetic studies have been accessible only to well-funded model systems. Restriction-site associated DNA sequencing, a method that samples at reduced complexity across target genomes, promises to deliver high resolution population genomic data-thousands of sequenced markers across many individuals-for any organism at reasonable costs. It has found application in wild populations and non-traditional study species, and promises to become an important technology for ecological population genomics.

引用

页码：416 / 423

页数：8

共 15 条

[1] Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers [J].

Baird, Nathan A. ;

Etter, Paul D. ;

Atwood, Tressa S. ;

Currey, Mark C. ;

Shiver, Anthony L. ;

Lewis, Zachary A. ;

Selker, Eric U. ;

Cresko, William A. ;

Johnson, Eric A. .

PLOS ONE, 2008, 3 (10)

[2] Accurate whole human genome sequencing using reversible terminator chemistry [J].

Bentley, David R. ;

Balasubramanian, Shankar ;

Swerdlow, Harold P. ;

Smith, Geoffrey P. ;

Milton, John ;

Brown, Clive G. ;

Hall, Kevin P. ;

Evers, Dirk J. ;

Barnes, Colin L. ;

Bignell, Helen R. ;

Boutell, Jonathan M. ;

Bryant, Jason ;

Carter, Richard J. ;

Cheetham, R. Keira ;

Cox, Anthony J. ;

Ellis, Darren J. ;

Flatbush, Michael R. ;

Gormley, Niall A. ;

Humphray, Sean J. ;

Irving, Leslie J. ;

Karbelashvili, Mirian S. ;

Kirk, Scott M. ;

Li, Heng ;

Liu, Xiaohai ;

Maisinger, Klaus S. ;

Murray, Lisa J. ;

Obradovic, Bojan ;

Ost, Tobias ;

Parkinson, Michael L. ;

Pratt, Mark R. ;

Rasolonjatovo, Isabelle M. J. ;

Reed, Mark T. ;

Rigatti, Roberto ;

Rodighiero, Chiara ;

Ross, Mark T. ;

Sabot, Andrea ;

Sankar, Subramanian V. ;

Scally, Aylwyn ;

Schroth, Gary P. ;

Smith, Mark E. ;

Smith, Vincent P. ;

Spiridou, Anastassia ;

Torrance, Peta E. ;

Tzonev, Svilen S. ;

Vermaas, Eric H. ;

Walter, Klaudia ;

Wu, Xiaolin ;

Zhang, Lu ;

Alam, Mohammed D. ;

Anastasi, Carole .

NATURE, 2008, 456 (7218) :53-59

[3] Balancing selection and its effects on sequences in nearby genome regions [J].

Charlesworth, Deborah .

PLOS GENETICS, 2006, 2 (04) :379-384

[4] Widespread parallel evolution in sticklebacks by repeated fixation of ectodysplasin alleles [J].

Colosimo, PF ;

Hosemann, KE ;

Balabhadra, S ;

Villarreal, G ;

Dickson, M ;

Grimwood, J ;

Schmutz, J ;

Myers, RM ;

Schluter, D ;

Kingsley, DM .

SCIENCE, 2005, 307 (5717) :1928-1933

[5]

DAVEY J, UK RAD SEQUENCING WI

[6] Resolving postglacial phylogeography using high-throughput sequencing [J].

Emerson, Kevin J. ;

Merz, Clayton R. ;

Catchen, Julian M. ;

Hohenlohe, Paul A. ;

Cresko, William A. ;

Bradshaw, William E. ;

Holzapfel, Christina M. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2010, 107 (37) :16196-16200

[7] Balancing selection is the main force shaping the evolution of innate immunity genes [J].

Ferrer-Admetlla, Anna ;

Bosch, Elena ;

Sikora, Martin ;

Marques-Bonet, Tomas ;

Ramirez-Soriano, Anna ;

Muntasell, Aura ;

Navarro, Arcadi ;

Lazarus, Ross ;

Calafell, Francesc ;

Bertranpetit, Jaume ;

Casals, Ferran .

JOURNAL OF IMMUNOLOGY, 2008, 181 (02) :1315-1322

[8] Evaluation of next generation sequencing platforms for population targeted sequencing studies [J].

Harismendy, Olivier ;

Ng, Pauline C. ;

Strausberg, Robert L. ;

Wang, Xiaoyun ;

Stockwell, Timothy B. ;

Beeson, Karen Y. ;

Schork, Nicholas J. ;

Murray, Sarah S. ;

Topol, Eric J. ;

Levy, Samuel ;

Frazer, Kelly A. .

GENOME BIOLOGY, 2009, 10 (03)

[9] Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags [J].

Hohenlohe, Paul A. ;

Bassham, Susan ;

Etter, Paul D. ;

Stiffler, Nicholas ;

Johnson, Eric A. ;

Cresko, William A. .

PLOS GENETICS, 2010, 6 (02)

[10]

*ILL INC, HISEQ 2000

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