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 Page 1


DNA SEQUENCING – 
METHODS AND 
APPLICATIONS 
 
Edited by Anjana Munshi 
 
  
Page 2


DNA SEQUENCING – 
METHODS AND 
APPLICATIONS 
 
Edited by Anjana Munshi 
 
  
 
 
 
 
 
 
 
 
DNA Sequencing – Methods and Applications 
Edited by Anjana Munshi 
 
 
Published by InTech 
Janeza Trdine 9, 51000 Rijeka, Croatia 
 
Copyright © 2012 InTech 
All chapters are Open Access distributed under the Creative Commons Attribution 3.0 
license, which allows users to download, copy and build upon published articles even for 
commercial purposes, as long as the author and publisher are properly credited, which 
ensures maximum dissemination and a wider impact of our publications. After this work 
has been published by InTech, authors have the right to republish it, in whole or part, in 
any publication of which they are the author, and to make other personal use of the 
work. Any republication, referencing or personal use of the work must explicitly identify 
the original source. 
 
As for readers, this license allows users to download, copy and build upon published 
chapters even for commercial purposes, as long as the author and publisher are properly 
credited, which ensures maximum dissemination and a wider impact of our publications. 
 
Notice 
Statements and opinions expressed in the chapters are these of the individual contributors 
and not necessarily those of the editors or publisher. No responsibility is accepted for the 
accuracy of information contained in the published chapters. The publisher assumes no 
responsibility for any damage or injury to persons or property arising out of the use of any 
materials, instructions, methods or ideas contained in the book. 
  
Publishing Process Manager Bojan Rafaj 
Technical Editor Teodora Smiljanic 
Cover Designer InTech Design Team 
 
First published April, 2012 
Printed in Croatia 
 
A free online edition of this book is available at www.intechopen.com 
Additional hard copies can be obtained from orders@intechopen.com 
 
 
DNA Sequencing – Methods and Applications, Edited by Anjana Munshi  
    p. cm.  
ISBN 978-953-51-0564-0  
Page 3


DNA SEQUENCING – 
METHODS AND 
APPLICATIONS 
 
Edited by Anjana Munshi 
 
  
 
 
 
 
 
 
 
 
DNA Sequencing – Methods and Applications 
Edited by Anjana Munshi 
 
 
Published by InTech 
Janeza Trdine 9, 51000 Rijeka, Croatia 
 
Copyright © 2012 InTech 
All chapters are Open Access distributed under the Creative Commons Attribution 3.0 
license, which allows users to download, copy and build upon published articles even for 
commercial purposes, as long as the author and publisher are properly credited, which 
ensures maximum dissemination and a wider impact of our publications. After this work 
has been published by InTech, authors have the right to republish it, in whole or part, in 
any publication of which they are the author, and to make other personal use of the 
work. Any republication, referencing or personal use of the work must explicitly identify 
the original source. 
 
As for readers, this license allows users to download, copy and build upon published 
chapters even for commercial purposes, as long as the author and publisher are properly 
credited, which ensures maximum dissemination and a wider impact of our publications. 
 
Notice 
Statements and opinions expressed in the chapters are these of the individual contributors 
and not necessarily those of the editors or publisher. No responsibility is accepted for the 
accuracy of information contained in the published chapters. The publisher assumes no 
responsibility for any damage or injury to persons or property arising out of the use of any 
materials, instructions, methods or ideas contained in the book. 
  
Publishing Process Manager Bojan Rafaj 
Technical Editor Teodora Smiljanic 
Cover Designer InTech Design Team 
 
First published April, 2012 
Printed in Croatia 
 
A free online edition of this book is available at www.intechopen.com 
Additional hard copies can be obtained from orders@intechopen.com 
 
 
DNA Sequencing – Methods and Applications, Edited by Anjana Munshi  
    p. cm.  
ISBN 978-953-51-0564-0  
  
Page 4


DNA SEQUENCING – 
METHODS AND 
APPLICATIONS 
 
Edited by Anjana Munshi 
 
  
 
 
 
 
 
 
 
 
DNA Sequencing – Methods and Applications 
Edited by Anjana Munshi 
 
 
Published by InTech 
Janeza Trdine 9, 51000 Rijeka, Croatia 
 
Copyright © 2012 InTech 
All chapters are Open Access distributed under the Creative Commons Attribution 3.0 
license, which allows users to download, copy and build upon published articles even for 
commercial purposes, as long as the author and publisher are properly credited, which 
ensures maximum dissemination and a wider impact of our publications. After this work 
has been published by InTech, authors have the right to republish it, in whole or part, in 
any publication of which they are the author, and to make other personal use of the 
work. Any republication, referencing or personal use of the work must explicitly identify 
the original source. 
 
As for readers, this license allows users to download, copy and build upon published 
chapters even for commercial purposes, as long as the author and publisher are properly 
credited, which ensures maximum dissemination and a wider impact of our publications. 
 
Notice 
Statements and opinions expressed in the chapters are these of the individual contributors 
and not necessarily those of the editors or publisher. No responsibility is accepted for the 
accuracy of information contained in the published chapters. The publisher assumes no 
responsibility for any damage or injury to persons or property arising out of the use of any 
materials, instructions, methods or ideas contained in the book. 
  
Publishing Process Manager Bojan Rafaj 
Technical Editor Teodora Smiljanic 
Cover Designer InTech Design Team 
 
First published April, 2012 
Printed in Croatia 
 
A free online edition of this book is available at www.intechopen.com 
Additional hard copies can be obtained from orders@intechopen.com 
 
 
DNA Sequencing – Methods and Applications, Edited by Anjana Munshi  
    p. cm.  
ISBN 978-953-51-0564-0  
  
 
Page 5


DNA SEQUENCING – 
METHODS AND 
APPLICATIONS 
 
Edited by Anjana Munshi 
 
  
 
 
 
 
 
 
 
 
DNA Sequencing – Methods and Applications 
Edited by Anjana Munshi 
 
 
Published by InTech 
Janeza Trdine 9, 51000 Rijeka, Croatia 
 
Copyright © 2012 InTech 
All chapters are Open Access distributed under the Creative Commons Attribution 3.0 
license, which allows users to download, copy and build upon published articles even for 
commercial purposes, as long as the author and publisher are properly credited, which 
ensures maximum dissemination and a wider impact of our publications. After this work 
has been published by InTech, authors have the right to republish it, in whole or part, in 
any publication of which they are the author, and to make other personal use of the 
work. Any republication, referencing or personal use of the work must explicitly identify 
the original source. 
 
As for readers, this license allows users to download, copy and build upon published 
chapters even for commercial purposes, as long as the author and publisher are properly 
credited, which ensures maximum dissemination and a wider impact of our publications. 
 
Notice 
Statements and opinions expressed in the chapters are these of the individual contributors 
and not necessarily those of the editors or publisher. No responsibility is accepted for the 
accuracy of information contained in the published chapters. The publisher assumes no 
responsibility for any damage or injury to persons or property arising out of the use of any 
materials, instructions, methods or ideas contained in the book. 
  
Publishing Process Manager Bojan Rafaj 
Technical Editor Teodora Smiljanic 
Cover Designer InTech Design Team 
 
First published April, 2012 
Printed in Croatia 
 
A free online edition of this book is available at www.intechopen.com 
Additional hard copies can be obtained from orders@intechopen.com 
 
 
DNA Sequencing – Methods and Applications, Edited by Anjana Munshi  
    p. cm.  
ISBN 978-953-51-0564-0  
  
 
 
 
 
 
 
 
Contents 
 
Preface VII 
Section 1 Methods of DNA Sequencing 1 
Chapter 1 DNA Representation 3 
Bharti Rajendra Kumar 
Chapter 2 Hot Start 7-Deaza-dGTP Improves Sanger  
Dideoxy Sequencing Data of GC-Rich Targets 15 
Sabrina Shore, Elena Hidalgo Ashrafi and Natasha Paul 
Section 2 Applications of DNA Sequencing 33 
Chapter 3 Sequencing Technologies and  
Their Use in Plant Biotechnology and Breeding 35 
Victor Llaca 
Chapter 4 DNA Sequencing and Crop Protection 61 
Rosemarie Tedeschi 
Chapter 5 Improvement of  
Farm Animal Breeding by DNA Sequencing 85 
G. Darshan Raj 
Chapter 6 The Input of DNA Sequences to  
Animal Systematics: Rodents as Study Cases 103 
Laurent Granjon and Claudine Montgelard 
Chapter 7 The Application of  
Pooled DNA Sequencing in Disease Association Study 141 
Chang-Yun Lin and Tao Wang 
Chapter 8 Nucleic Acid Aptamers as Molecular Tags for  
Omics Analyses Involving Sequencing 157 
Masayasu Kuwahara and Naoki Sugimoto 
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