Table Of Content

Cotton Breeding and Biotechnology Cotton Breeding and Biotechnology Challenges and Opportunities Edited by Zulqurnain Khan Zulfiqar Ali Asif Ali Khan First edition published 2022 by CRC Press 6000 Broken Sound Parkway NW, Suite 300, Boca Raton, FL 33487-2742 and by CRC Press 2 Park Square, Milton Park, Abingdon, Oxon, OX14 4RN CRC Press is an imprint of Taylor & Francis Group, LLC © 2022 selection and editorial matter, Zulqurnain Khan, Zulfiqar Ali, Asif Ali Khan; individual chapters, the contributors Reasonable efforts have been made to publish reliable data and information, but the author and publisher cannot assume responsibility for the validity of all materials or the consequences of their use. The authors and publishers have attempted to trace the copyright holders of all material reproduced in this publication and apologize to copyright holders if permission to publish in this form has not been obtained. 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Library of Congress Cataloging-in-Publication Data Names: Khan, Zulqurnain, editor. Title: Cotton breeding and biotechnology : challenges and opportunities / edited by Zulqurnain Khan, Zulfiqar Ali, Asif Ali Khan. Description: First edition. | Boca Raton : CRC Press, 2022. | Includes bibliographical references and index. Identifiers: LCCN 2021041143 | ISBN 9780367562205 (hardback) | ISBN 9781003096856 (paperback) | ISBN 9781003096856 (ebook) Subjects: LCSH: Cotton--Breeding. | Cotton--Biotechnology. Classification: LCC SB249 .C79358 2022 | DDC 633.5/1--dc23/eng/20211018 LC record available at https://lccn.loc.gov/2021041143 ISBN: 978-0-367-56220-5 (hbk) ISBN: 978-0-367-56222-9 (pbk) ISBN: 978-1-003-09685-6 (ebk) DOI: 10.1201/9781003096856 Typeset in Times by SPi Technologies India Pvt Ltd (Straive) Contents Foreword ..........................................................................................................................................vii Editors ...............................................................................................................................................ix List of Contributors ...........................................................................................................................xi Chapter 1 Role of Breeding and Biotechnology in Sustainable Cotton Production .....................1 Zulqurnain Khan, Zulfiqar Ali and Asif Ali Khan Chapter 2 Cotton Genetics and Genomics ..................................................................................15 Muhammad Umar Iqbal, Sultan Habibullah Khan, Muhammad Salman Mubarik, Aftab Ahmad, Muhammad Sajjad and Hafiz Muhammad Imran Chapter 3 Conventional Breeding of Cotton ...............................................................................29 Farzana Ashraf, Nadia Iqbal, Wajid Nazeer, Zia Ullah Zia, Asif Ali Khan and Saghir Ahmad Chapter 4 Molecular Cotton Breeding ........................................................................................47 Zulqurnain Khan, Zulfiqar Ali and Asif Ali Khan Chapter 5 Gene Mapping in Cotton ............................................................................................69 Muhammad Abu Bakar Saddique, Zulfiqar Ali, Muhammad Ali Sher, Babar Farid, Furqan Ahmad and Sarmad Frogh Arshad Chapter 6 Functional Genomics in Cotton ..................................................................................87 Furqan Ahmad, Akash Fatima, Plosha Khanum, Shoaib ur Rehman, Muhammad Abu Bakar Saddique, Mahmood Alam Khan and Zulqurnain Khan Chapter 7 Cotton Transformation and Regeneration ................................................................101 Ummara Waheed, Sadia Shabir, Fatima Mazhar, Mamoona Rehman, Hamza Ahmad Qureshi and Nadia Iqbal Chapter 8 Breeding Cotton for Heat Tolerance .........................................................................113 Muhammad Kashif Riaz Khan, Fang Liu, Baohua Wang, Manzoor Hussain, Allah Ditta, Zunaira Anwar and Aqsa Ijaz Chapter 9 Breeding Cotton for Drought Tolerance ...................................................................139 Muhammad Mahmood Ahmed, Muhammad Waseem Akram and Zulfiqar Ali v vi Contents Chapter 10 Breeding Cotton for Salt Tolerance ..........................................................................157 Zulfiqar Ali, Muhammad Tehseen Azhar, Muhammad Mahmood Ahmed, Umar Akram and Abid Hussain Chapter 11 Breeding Cotton for Cotton Leaf Curl Disease Resistance ......................................171 Judith K. Brown and Zulqurnain Khan Chapter 12 Breeding Cotton for Insects/Pests Resistance ..........................................................199 Hafiza Masooma Naseer Cheema, Asif Ali Khan, Muhammad Aakif Khan, Muhammad Ans Pervez, Muhammad Zubair Ghouri, Aftab Ahmad and Sultan Habibullah Khan Chapter 13 Breeding Cotton for Herbicide Resistance ...............................................................233 Muhammad Zaffar Iqbal and Shahid Nazir Chapter 14 Breeding Cotton for Fiber Traits ..............................................................................245 Nadia Iqbal, Farzana Ashraf, Ummara Waheed and Saghir Ahmad Chapter 15 Breeding Cotton for Value Added Traits ..................................................................259 Sajid Majeed, Muhammad Salman Mubarik, Muhammad Umar Iqbal, Xiongming Du and Muhammad Tehseen Azhar Chapter 16 Genetically Modified Cotton: Boom or Dust ...........................................................271 Iqrar Ahmad Rana, Allah Bakhsh, Shakhnozakhon Tillaboeva, Qandeel-e-Arsh, Shang Haihong and Muhammad Tehseen Azhar Chapter 17 Cotton Seed System .................................................................................................291 Fawad Salman Shah, Muhammad Aslam Bhatti, Asif Ali Khan, Irfan Ahmad Baig, Muhammad Hammad Nadeem Tahir, Furqan Ahmad and Muhammad Amir Bakhtavar Chapter 18 Cotton Breeding and Entrepreneurship: Challenges and Opportunities ..................311 Mubashir Mehdi, Muhammad Haseeb Raza and Muhammad Talha Azeem Chapter 19 Breeding Cotton for International Trade ..................................................................323 Khalid Abdullah and Zahid Khan Index ..............................................................................................................................................339 Foreword The Editors of the book, Asif Ali Khan, Zulfiqar Ali, and Zulqurnain Khan, are well known to me as breeders, geneticists, and biotechnologists. We have a strong collaboration in cotton breeding and biotechnology. The story started a decade ago when we established SINO-PAK International Cotton Conferences forum and conducted the first SINO-PAK Cotton Conference in 2017. Since then, we established joint labs and started research projects focusing on cotton breeding, genomics, transformation, and genetic adaptability. This contributed volume, addressing one of the most economi- cally important crops of the world, is a great venture by the Editors to share the latest and advanced knowledge on the subject. The content of the book is very attractive to readers, covering all basic topics of breeding and biotechnology with future trends. The chapters authored by the Editors, such as Chapters 1 and 4, provide a picture of the prevailing problems and constraints in cotton crop production and their solutions through breeding and biotechnology. Moreover, the book also discusses diverse and complex topics such as cotton genetics and genomics, breeding cotton for value-added traits, and functional genomics in cotton. Discussion of cotton seed system and breeding cotton for international trade is very useful for cotton stakeholders from industry, seed, and R&D sectors. The diversity of the authors from different countries, such as Pakistan, China, Turkey, and the USA, pro- vides this book a variety of knowledge based on the experiences of the researchers. Undoubtedly, the book is very comprehensive and well written in a reader-friendly manner. This book is equally beneficial for undergraduate as well as postgraduate students in academic institutes, researchers in public and private sectors, and policy makers. The Editors and authors deserve a huge amount of appreciation and encouragement. The publisher is also appreciated for taking this idea for publication. Prof. Zhang Rui Biotechnology Research Institute, CAAS People’s Republic of China vii Editors Dr. Zulqurnain Khan is an Assistant Professor at the Institute of Plant Breeding and Biotechnology (IPBB), MNS University of Agriculture, Multan (MNSUAM), Pakistan. Dr. Khan earned his PhD in Biotechnology from the University of Agriculture, Faisalabad (UAF), Pakistan, in 2017. He is the first PhD candidate from Pakistan to have a thesis on genome editing. He has been working in the field of genome editing since 2012. His research focuses on using genome-editing tools (TALEs, TALENs, Cas9, dCas9, and multiplexed CRISPR/Cas9) for resistance against begomoviruses using model plants such as Arabidopsis and Nicotiana benthamiana. He has developed resistance in cotton against CLCuD using multiplex CRISPR/Cas system. He is also using CRISPR/Cas9 technol- ogy for the genetic improvement in cereal crops for abiotic and biotic stress resistance. He has published one book chapter, two review articles, and three research articles in international peer- reviewed journals. Dr. Khan received an IRSIP fellowship from Higher Education Commission (HEC), Pakistan, during his PhD and worked as a visiting researcher with Prof. Caixia Gao at the Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of Sciences (CAS), Beijing, China. Dr. Khan has been engaged in teaching various courses in the field of biotechnology, breeding, molecular biology, genetics, and genome editing since 2018. Dr. Khan has recently edited two books for Springer Nature entitled “CRISPR Crops: The Future of Food Security” and “The CRISPR/Cas Tool Kit for Genome Editing”. Professor Zulfiqar Ali is a Professor at the Institute of Plant Breeding and Biotechnology and Principal Officer in the Office of Research Innovation and Commercialization (ORIC), MNS University of Agriculture, Multan (MNSUAM), Pakistan. Prof. Ali completed his PhD from the University of Agriculture, Faisalabad, Pakistan, and postdoctoral studies from Sydney University Plant Breeding Institute (2007–2008) and Jiangsu Academy of Agricultural Sciences Nanjing (2009–2011). He has published more than 80 books/chapters/research papers in highly popular journals like Plant Breeding, Nature’s Scientific Report, Rice, Field Crop Research, PLOS One, and has been serving as the section editor of Pakistan Journal of Agricultural Sciences. Prof. Ali has successfully completed various research projects. Currently, he is running six research projects funded by national and international funding agencies including HEC, PARB, ADP, USAID, DFID, ACIAR, etc. He has been granted awards, including the Gold Medal 2017 in Biotechnology from the Pakistan Academy of Sciences. Recently, Dr. Ali has also been awarded with the “National Level HEC Best Teacher Award 2021” by Higher Education Commission (HEC), Pakistan. For over the past 21 years, Prof. Ali has been engaged in the fields of plant biotechnology, breeding, genetics, and molecular biology. His research focuses on climate-smart breeding using functional genomics tools. Professor Asif Ali Khan is the Vice-Chancellor, MNS University of Agriculture, Multan (MNSUAM), Pakistan, since 2016. He did two postdocs from UC-Davis, USA, and Liverpool, UK. During his professional career, he has served at many key posts at the University of Agriculture, Faisalabad, the Director Office of Research Innovation and Commercialization (ORIC); Director, Business Incubation Centre (BIC); Director, External Linkages. Prof. Khan has been teaching plant breeding and genetics for the past 32 years. Prof. Khan has completed research projects funded by national and international agencies. Prof. Khan has published more than 140 articles in national and international impact factor journals. Prof. Khan has also edited and authored various books and book chapters. Prof. Khan received several fellowships and awards. Prof. Khan is a renowned geneticist and has completed more than ten research projects awarded by different national and international agencies. Over the past 32 years, Prof. Khan has been engaged in the field of genetics, evolution, functional genomics, plant biotechnology, and plant breeding. ix