Microsatellites: Methods and Protocols

ISBN-13: 9781493963096 / Angielski / Miękka / 2016 / 339 str.

Stella K. Kantartzi

Opis

This Methods in Molecular Biology(TM) book covers techniques for the discovery and development of microsatellite markers, descriptions of amplification and visualization of SSRs, and protocols for analyzing data obtained using microsatellites.

Spis treści

1. Microsatellites: Evolution and Contribution

            Panagiotis Madesis, Ioannis Ganopoulos, and Athanasios Tsaftaris

 

Part I: Discovery and Development of Microsatellites

 

2. Screening of Genomic Libraries

            Valdenice M. Novelli, Mariângela Cristofani-Yaly, Marinês Bastianel, Dario A. Palmieri, and Marcos A. Machado

 

3. PCR-Based Identification of Microsatellite Arrays (PIMA)

            Heng-Sheng Lin and Song-Bin Chang

 

4. Fast Isolation by AFLP of Sequences Containing Repeats (FIASCO)

            Kaisa Rikalainen

 

5. Microsatellite DNA Capture from Enriched Libraries

            Elena G. Gonzalez and Rafael Zardoya

 

6. Next-Generation Sequencing for High-Throughput Molecular Ecology: A Step-by-Step Protocol for Targeted Multilocus Genotyping by Pyrosequencing

            Jonathan B. Puritz and Robert J. Toonen

 

7. Optimizing Selection of Microsatellite Loci from 454 Pyrosequencing Via Post-Sequencing Bioinformatic Analyses

            Iria Fernandez-Silva and Robert J. Toonen

 

8. Identification of DNA-Microsatellite Markers for the Characterization of Somatic Embryos in Quercus suber

            Arancha Gómez-Garay, Mª Ángeles Bueno, and Beatriz Pintos

 

Part II: Amplification and Visualization

 

9. Simple Sequence Repeats (SSR) Amplification

            Kundapura V. Ravishankar  and  Bommisetty Padmakar

 

10. Microsatellite Amplification in Plants: Optimization Procedure of Major PCR Components

            Sana Ghaffari and Nejib Hasnaoui

 

11. Development of a Multiplex PCR Assay for Characterization of Embryonic Stem Cells

            Rajarshi Pal, Murali Krishna Mamidi, Anjan Kumar Das, Mahendra Rao, and Ramesh Bhonde

 

12. Agarose Gel Electrophoresis and Polyacrylamide Gel Electrophoresis for Visualization of Single Sequence Repeats

            James Anderson, Drew Wright, and Khalid Meksem

 

Part III: Automated Capillary Sequencers

 

13. Microsatellite Fragment Analysis Using the ABI Prism® 377 DNA Sequencer

            Mark A. Renshaw, Melissa Giresi, and J. Adams

 

14. Robust and Inexpensive SSR Markers Analyses Using LI-COR DNA Analyzer

            Maria del Rosario Herrera and Marc Ghislain

 

15. The Use of the MegaBACE for Sequencing and Genotype Analysis

            Pamela A. Burger

 

16. Analyzing Microsatellites Using the QIAxcel System

            Deborah A. Dean, Phillip A. Wadl, Denita Hadziabdic, Xinwang Wang, and Robert N. Trigiano

 

Part IV: Scoring and Data Analysis

 

17. Microsatellite Analysis of Malaria Parasites

            Pamela Orjuela-Sánchez, Michelle C.C. Brandi, and Marcelo U. Ferreira

 

18. Informativeness of Microsatellite Markers

            M. Humberto Reyes-Valdés

 

19. Microsatellite Data Analysis for Population Genetics

            Kyung Seok Kim and Thomas W. Sappington

 

20. Molecular Mapping and Breeding with Microsatellite Markers

            David A. Lightfoot and Muhammad J. Iqbal

Blurb

Microsatellites or simple sequence repeats (SSRs) have become the markers of choice for a variety of molecular studies because of their versatility, operational flexibility, and lower cost than other marker systems.  Microsatellites: Methods and Protocols brings together experts in the field to cover this significant area of research.  Broken in to four convenient parts, this volume delves into classical and modern methods for the discovery and development of microsatellite markers, descriptions of amplification and visualization of SSRs, automated capillary sequencers that are widely used for fragment analysis, as well as a variety of methods for the analysis of data obtained by the use of microsatellites. Written for the highly successful Methods in Molecular Biology™ series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

 

Authoritative and invaluable, Microsatellites: Methods and Protocols aims at researchers that need detailed protocols for incorporating microsatellite markers into their projects and expert scientists looking to expand their knowledge of SSRs discovery, use, and analysis.