Literature DB >> 14500843

A microarray-based high throughput molecular marker genotyping method: the tagged microarray marker (TAM) approach.

Andrew J Flavell1, Viacheslav N Bolshakov, Allan Booth, Runchun Jing, Joanne Russell, T H Noel Ellis, Peter Isaac.   

Abstract

A microarray-based method has been developed for scoring thousands of DNAs for a co-dominant molecular marker on a glass slide. The approach was developed to detect insertional polymorphism of transposons and works well with single nucleotide polymorphism (SNP) markers. Biotin- terminated allele-specific PCR products are spotted unpurified onto streptavidin-coated glass slides and visualised by hybridisation of fluorescent detector oligonucleotides to tags attached to the allele- specific PCR primers. Two tagged primer oligonucleotides are used per locus and each tag is detected by hybridisation to a concatameric DNA probe labelled with multiple fluorochromes.

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Year:  2003        PMID: 14500843      PMCID: PMC206481          DOI: 10.1093/nar/gng113

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  18 in total

1.  Detection of PCR products using self-probing amplicons and fluorescence.

Authors:  D Whitcombe; J Theaker; S P Guy; T Brown; S Little
Journal:  Nat Biotechnol       Date:  1999-08       Impact factor: 54.908

2.  SBE-TAGS: an array-based method for efficient single-nucleotide polymorphism genotyping.

Authors:  J N Hirschhorn; P Sklar; K Lindblad-Toh; Y M Lim; M Ruiz-Gutierrez; S Bolk; B Langhorst; S Schaffner; E Winchester; E S Lander
Journal:  Proc Natl Acad Sci U S A       Date:  2000-10-24       Impact factor: 11.205

Review 3.  Progress in high throughput SNP genotyping methods.

Authors:  Z Tsuchihashi; N C Dracopoli
Journal:  Pharmacogenomics J       Date:  2002       Impact factor: 3.550

4.  Retrotransposon-based insertion polymorphisms (RBIP) for high throughput marker analysis.

Authors:  A J Flavell; M R Knox; S R Pearce; T H Ellis
Journal:  Plant J       Date:  1998-12       Impact factor: 6.417

5.  AFLP: a new technique for DNA fingerprinting.

Authors:  P Vos; R Hogers; M Bleeker; M Reijans; T van de Lee; M Hornes; A Frijters; J Pot; J Peleman; M Kuiper
Journal:  Nucleic Acids Res       Date:  1995-11-11       Impact factor: 16.971

6.  Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS).

Authors:  C R Newton; A Graham; L E Heptinstall; S J Powell; C Summers; N Kalsheker; J C Smith; A F Markham
Journal:  Nucleic Acids Res       Date:  1989-04-11       Impact factor: 16.971

7.  Hypervariable 'minisatellite' regions in human DNA.

Authors:  A J Jeffreys; V Wilson; S L Thein
Journal:  Nature       Date:  1985 Mar 7-13       Impact factor: 49.962

8.  Quantitative monitoring of gene expression patterns with a complementary DNA microarray.

Authors:  M Schena; D Shalon; R W Davis; P O Brown
Journal:  Science       Date:  1995-10-20       Impact factor: 47.728

9.  Loss-of-heterozygosity analysis of small-cell lung carcinomas using single-nucleotide polymorphism arrays.

Authors:  K Lindblad-Toh; D M Tanenbaum; M J Daly; E Winchester; W O Lui; A Villapakkam; S E Stanton; C Larsson; T J Hudson; B E Johnson; E S Lander; M Meyerson
Journal:  Nat Biotechnol       Date:  2000-09       Impact factor: 54.908

10.  Oligonucleotide dendrimers: synthesis and use as polylabelled DNA probes.

Authors:  M S Shchepinov; I A Udalova; A J Bridgman; E M Southern
Journal:  Nucleic Acids Res       Date:  1997-11-15       Impact factor: 16.971

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  12 in total

Review 1.  Analysis of plant diversity with retrotransposon-based molecular markers.

Authors:  R Kalendar; A J Flavell; T H N Ellis; T Sjakste; C Moisy; A H Schulman
Journal:  Heredity (Edinb)       Date:  2010-08-04       Impact factor: 3.821

2.  iPBS: a universal method for DNA fingerprinting and retrotransposon isolation.

Authors:  Ruslan Kalendar; Kristiina Antonius; Petr Smýkal; Alan H Schulman
Journal:  Theor Appl Genet       Date:  2010-07-10       Impact factor: 5.699

3.  Comparative analyses of genetic diversities within tomato and pepper collections detected by retrotransposon-based SSAP, AFLP and SSR.

Authors:  Sheh May Tam; Corinne Mhiri; Aat Vogelaar; Marcel Kerkveld; Stephen R Pearce; Marie-Angèle Grandbastien
Journal:  Theor Appl Genet       Date:  2005-02-08       Impact factor: 5.699

4.  Validation of the high-throughput marker technology DArT using the model plant Arabidopsis thaliana.

Authors:  Alexander H J Wittenberg; Theo van der Lee; Cyril Cayla; Andrzej Kilian; Richard G F Visser; Henk J Schouten
Journal:  Mol Genet Genomics       Date:  2005-07-16       Impact factor: 3.291

5.  Development of an efficient retrotransposon-based fingerprinting method for rapid pea variety identification.

Authors:  Petr Smýkal
Journal:  J Appl Genet       Date:  2006       Impact factor: 3.240

6.  Gene-based sequence diversity analysis of field pea (Pisum).

Authors:  Runchun Jing; Richard Johnson; Andrea Seres; Gyorgy Kiss; Mike J Ambrose; Maggie R Knox; T H Noel Ellis; Andrew J Flavell
Journal:  Genetics       Date:  2007-12       Impact factor: 4.562

7.  Genetic diversity and population structure of pea (Pisum sativum L.) varieties derived from combined retrotransposon, microsatellite and morphological marker analysis.

Authors:  Petr Smýkal; Miroslav Hýbl; Jukka Corander; Jirí Jarkovský; Andrew J Flavell; Miroslav Griga
Journal:  Theor Appl Genet       Date:  2008-05-27       Impact factor: 5.699

8.  Novel hairpin-shaped primer assay to study the association of the -44 single-nucleotide polymorphism of the DEFB1 gene with early-onset periodontal disease.

Authors:  Michele Boniotto; Manzour Hernando Hazbón; William James Jordan; Greig Patrick Lennon; Joyce Eskdale; David Alland; Grant Gallagher
Journal:  Clin Diagn Lab Immunol       Date:  2004-07

9.  The genetic diversity and evolution of field pea (Pisum) studied by high throughput retrotransposon based insertion polymorphism (RBIP) marker analysis.

Authors:  Runchun Jing; Alexander Vershinin; Jacek Grzebyta; Paul Shaw; Petr Smýkal; David Marshall; Michael J Ambrose; T H Noel Ellis; Andrew J Flavell
Journal:  BMC Evol Biol       Date:  2010-02-15       Impact factor: 3.260

10.  Genetic diversity in European Pisum germplasm collections.

Authors:  R Jing; M A Ambrose; M R Knox; P Smykal; M Hybl; Á Ramos; C Caminero; J Burstin; G Duc; L J M van Soest; W K Święcicki; M G Pereira; M Vishnyakova; G F Davenport; A J Flavell; T H N Ellis
Journal:  Theor Appl Genet       Date:  2012-04-01       Impact factor: 5.699

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