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Microsatellites

Methods and Protocols

  • Book
  • © 2013

Overview

Editors:
  1. Stella K. Kantartzi

    1. , Department of Plant, Soil,, Southern Illinois University, Carbondale, Carbondale, USA

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  • Includes cutting-edge methods and protocols for microsatellite markers in the MiMB standard format
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 1006)

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Table of contents (21 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. Microsatellites: Evolution and Contribution

    • Panagiotis Madesis, Ioannis Ganopoulos, Athanasios Tsaftaris
    Pages 1-13

  3. Discovery and Development of Microsatellites

    1. Front Matter

      Pages 15-15
      Download chapter PDF

    2. Screening of Genomic Libraries

      • Valdenice M. Novelli, Mariângela Cristofani-Yaly, Marinês Bastianel, Dario A. Palmieri, Marcos A. Machado
      Pages 17-24

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

      • Heng-Sheng Lin, Song-Bin Chang
      Pages 25-55

    4. Fast Isolation by AFLP of Sequences Containing Repeats

      • Kaisa Rikalainen
      Pages 57-66

    5. Microsatellite DNA Capture from Enriched Libraries

      • Elena G. Gonzalez, Rafael Zardoya
      Pages 67-87

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

      • Jonathan B. Puritz, Robert J. Toonen
      Pages 89-99

    7. Optimizing Selection of Microsatellite Loci from 454 Pyrosequencing via Post-sequencing Bioinformatic Analyses

      • Iria Fernandez-Silva, Robert J. Toonen
      Pages 101-120

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

      • Arancha Gómez-Garay, Ángeles Bueno, Beatriz Pintos
      Pages 121-129

  4. Amplification and Visualization

    1. Front Matter

      Pages 131-131
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    2. Simple Sequence Repeats Amplification

      • Kundapura V. Ravishankar, Padmakar Bommisetty
      Pages 133-138

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

      • Sana Ghaffari, Nejib Hasnaoui
      Pages 139-146

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

      • Rajarshi Pal, Murali Krishna Mamidi, Anjan Kumar Das, Mahendra Rao, Ramesh Bhonde
      Pages 147-166

    5. Agarose Gel Electrophoresis and Polyacrylamide Gel Electrophoresis for Visualization of Simple Sequence Repeats

      • James Anderson, Drew Wright, Khalid Meksem
      Pages 167-177

  5. Automated Capillary Sequencers

    1. Front Matter

      Pages 179-179
      Download chapter PDF

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

      • Mark A. Renshaw, Melissa Giresi, J. Orville Adams
      Pages 181-196

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

      • Maria del Rosario Herrera, Marc Ghislain
      Pages 197-205

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

      • Pamela A. Burger
      Pages 207-222

    5. Analyzing Microsatellites Using the QIAxcel System

      • Deborah A. Dean, Phillip A. Wadl, Denita Hadziabdic, Xinwang Wang, Robert N. Trigiano
      Pages 223-243
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Keywords

About this book

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.

Editors and Affiliations

  • , Department of Plant, Soil,, Southern Illinois University, Carbondale, Carbondale, USA

    Stella K. Kantartzi

Bibliographic Information

  • Book Title: Microsatellites

  • Book Subtitle: Methods and Protocols

  • Editors: Stella K. Kantartzi

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-62703-389-3

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2013

  • Hardcover ISBN: 978-1-62703-388-6Published: 02 April 2013

  • Softcover ISBN: 978-1-4939-6309-6Published: 23 August 2016

  • eBook ISBN: 978-1-62703-389-3Published: 02 April 2013

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 339

  • Topics: Human Genetics

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