Advances in Wheat Genetics: From Genome to Field

Yasunari Ogihara • Shigeo Takumi Hirokazu Handa Editors

Advances in Wheat Genetics: From Genome to Field Proceedings of the 12th International Wheat Genetics Symposium

ISBN 978-4-431-55674-9 ISBN 978-4-431-55675-6 (eBook) DOI 10.1007/978-4-431-55675-6

Library of Congress Control Number: 2015949398

Springer Tokyo Heidelberg New York Dordrecht London © The Editor(s) (if applicable) and the Author(s) 2015 . The book is published with open access at SpringerLink.com. Open Access This book is distributed under the terms of the Creative Commons Attribution Non-commercial License which permits any noncommercial use, distribution, and reproduction in any medium, provided the original author(s) and source are credited. All commercial rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifi cally the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfi lms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specifi c statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made.

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Editors Yasunari Ogihara Kihara Institute for Biological Research Yokohama City University Yokohama , Kanagawa , Japan

Hirokazu Handa Plant Genome Research Unit National Institute of Agrobiological Sciences Tsukuba , Ibaraki , Japan

Shigeo Takumi Graduate School of Agricultural Sciences Kobe University Kobe , Hyogo , Japan

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Sponsors

We would like to acknowledge the following organizations and companies for their sponsorship of the 12th International Wheat Genetics Symposium.

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Pref ace

This volume of proceedings is a collection of papers that were presented at the 12th International Wheat Genetics Symposium (IWGS) held in Yokohama, Japan, September 8–14, 2013, containing a selection of invited lectures and representative presentations. All papers were peer-reviewed by the Local Organizing Committee.

On August 29, 1953, 26 wheat geneticists from 19 countries who got together at the 9th International Congress of Genetics held at Bellagio, Italy, initiated the International Organizing Committee of the 1st IWGS. In 1958, the 1st symposium, which Hitoshi Kihara chaired, was held in Winnipeg, Canada. Since then, the IWGS has been held every 5 years at different locations around the world. In 2013, the IWGS turned 60 years old, an age of great traditional importance in East Asia. This volume commemorates an occasion of special celebration.

This proceedings presents the current status of our understanding of wheat genet-ics and its application to cultivated wheat and related plants. Importantly, it shows that breeding wheat based on genetics has come of age. Despite the large genome size and complexity, molecular breeding has become much more realistic than ever in wheat mainly through development in genomics research. In addition, the global food crisis and the impact of climate change on the food chain have become press-ing problems. Consequently, improved production of cereals including wheat is urgently required in order to increase yields for human consumption. The produc-tion of wheat is particularly important in this regard as it is the most widely grown crop. We hope that this volume will provide a useful research reference in the fi eld of wheat genetics.

The editors wish to thank Dr. Shuhei Nasuda, who fi rst suggested the idea of preparing this book and collaborated in its initial planning. The editors are also very grateful to Dr. Yoshihiro Matsuoka for his valuable help in the editing work.

Yokohama , Japan Yasunari Ogihara Kobe , Japan Shigeo Takumi Tsukuba , Japan Hirokazu Handa

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List of the Meetings of International Wheat Genetics Symposium Held to Date

I. Winnipeg, Canada, 1958 II. Lund, Sweden, 1963 III. Canberra, Australia, 1968 IV. Columbia, Missouri, USA, 1973 V. New Delhi, India, 1978 VI. Kyoto, Japan, 1983 VII. Cambridge, UK, 1988 VIII. Beijing, China, 1993 IX. Saskatoon, Canada, 1998 X. Paestum, Italy, 2003 XI. Brisbane, Australia, 2008 XII. Yokohama, Japan, 2013

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Contents

Part I Wheat Genetics: Past, Present, and Future

1 Prof. H. Kihara’s Genome Concept and Advancements in Wheat Cytogenetics in His School .................................................... 3 Koichiro Tsunewaki

2 How a Gene from Japan Revolutionized the World of Wheat: CIMMYT’s Quest for Combining Genes to Mitigate Threats to Global Food Security ......................................................................... 13 Thomas A. Lumpkin

Part II Germplasm and Genetic Diversity

3 Genetic Resources of Triticum ............................................................... 23 Karl Hammer and Helmut Knüpffer

4 Development of Core Set of Wheat ( Triticum spp .) Germplasm Conserved in the National Genebank in India ............... 33 Manoranjan Dutta , B. S. Phogat , Sandeep Kumar , Naresh Kumar , Jyoti Kumari , Avinash C. Pandey , T. P. Singh , R. K. Tyagi , Sherry R. Jacob , Kalyani Srinivasan , I. S. Bisht , M. Karale , Mamata Yadav , Pankaj Sharma , Geeta Kumari , Tariq Aftab , Y. S. Rathi , Amit K. Singh , Sunil Archak , K. V. Bhat , D. C. Bhandari , Y. P. S. Solanki , Dhiraj Singh , and Kailash C. Bansal

5 Transfer to Wheat of Potentially New Stem Rust Resistance Genes from Aegilops speltoides ........................................... 47 Ian Dundas , Dawn Verlin , Peng Zhang , Yue Jin , Jacob Manisterski , and Rafi qul Islam

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6 Genetic Variation and Its Geographical Distribution in Aegilops caudata L.: Morphology, Hybrid Sterility and Gametocidal Genes ......................................................................... 53 Shoji Ohta and Naomi Yasukawa

Part III Cytogenetics and Allopolyploid Evolution

7 Wheat Chromosome Analysis ............................................................... 65 Bikram S. Gill

8 New Aneuploids of Common Wheat ..................................................... 73 Takashi R. Endo

9 Chromosomal Changes over the Course of Polyploid Wheat Evolution and Domestication .................................................... 83 Ekaterina D. Badaeva , Olga S. Dedkova , V. A. Pukhalskyi , and A. V. Zelenin

Part IV Toward Whole Genome Sequencing

10 Comprehensive Functional Analyses of Expressed Sequence Tags in Common Wheat ........................................................ 93 Yasunari Ogihara , Kohei Mishina , Kanako Kawaura , Hiroshi Tarui , Keiichi Mochida , Kentaro Yano , and Jun Kawai

11 Development of the BAC Physical Maps of Wheat Chromosome 6B for Its Genomic Sequencing ..................................... 101 Fuminori Kobayashi , Satoshi Katagiri , Wataru Karasawa , Yumiko Hanawa , Hiroyuki Kanamori , Yukiyo Ito , Hiroko Fujisawa , Yoshiyuki Mukai , Tsuyoshi Tanaka , Satoko Kaneko , Shota Watanabe , Toyotaka Sakaguchi , Shuhei Nasuda , Katsuyuki Hayakawa , Chikako Abe , Ryoko Ohno , Julio C. M. Iehisa , Shigeo Takumi , Jaroslav Doležel , Yasunari Ogihara , Takashi Matsumoto , Yuichi Katayose , Jianzhong Wu , and Hirokazu Handa

Part V Structural and Functional Genomics

12 Sequencing of Wheat Chromosome 6B: Toward Functional Genomics ............................................................................. 111 Tsuyoshi Tanaka , Fuminori Kobayashi , Giri Prasad Joshi , Ritsuko Onuki , Hiroaki Sakai , Hiroyuki Kanamori , Jianzhong Wu , Hana Šimková , Shuhei Nasuda , Takashi R. Endo , Katsuyuki Hayakawa , Jaroslav Doležel , Yasunari Ogihara , Takeshi Itoh , Takashi Matsumoto , and Hirokazu Handa

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13 Genetic Mechanisms of Vernalization Requirement Duration in Winter Wheat Cultivars .................................................... 117 Liuling Yan , Genqiao Li , Ming Yu , Tilin Fang , Shuanghe Cao , and Brett F. Carver

14 Building Ultra-Dense Genetic Maps in the Presence of Genotyping Errors and Missing Data .............................................. 127 Yefi m Ronin , Dina Minkov , David Mester , Eduard Akhunov , and Abraham Korol

Part VI Functional Gene Analysis and Molecular Tools

15 Exploiting Comparative Biology and Genomics to Understand a Trait in Wheat, Ph1 ................................................... 137 Graham Moore

16 The Specific Features of Anthocyanin Biosynthesis Regulation in Wheat............................................................................... 147 Olesya Y. Shoeva and Elena K. Khlestkina

17 Association of Wheat miRNAs with Hybrid Incompatibility in Interspecific Crosses of Triticum and Aegilops ................................ 159 Shigeo Takumi , Ryusuke Matsuda , and Julio C. M. Iehisa

18 High Efficiency Wheat Transformation Mediated by Agrobacterium tumefaciens ............................................................... 167 Yuji Ishida , Yukoh Hiei , and Toshihiko Komari

19 Extra Early-Flowering (exe) Mutants in Einkorn Wheat Generated by Heavy-Ion Beam Irradiation ............................ 175 Aiko Nishiura , Yusuke Kazama , Tomoko Abe , Nobuyuki Mizuno , Shuhei Nasuda , and Koji Murai

Part VII Biotic Stress Response

20 Stem Rust Resistance: Two Approaches ............................................... 183 Colin Hiebert , Wolfgang Spielmeyer , Curt McCartney , Mulualem Kassa , Tom Fetch , Frank You , Jim Menzies , Gavin Humphreys , and Brent McCallum

21 Germplasm Enhancement for Resistance to Pyrenophora tritici-repentis in Wheat .......................................................................... 193 Manisha Shankar , Diane Mather , Dorthe Jorgensen , Hossein Golzar , Ken Chalmers , Grant Hollaway , Mark McLean , Stephen Neate , and Rob Loughman

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22 Next Generation Sequencing Enabled Genetics in Hexaploid Wheat ................................................................................ 201 Ricardo H. Ramirez-Gonzalez , Vanesa Segovia , Nicholas Bird , Mario Caccamo , and Cristobal Uauy

Part VIII Abiotic Stress Response

23 Genomics Approaches to Dissect the Genetic Basis of Drought Resistance in Durum Wheat .............................................. 213 Roberto Tuberosa and Marco Maccaferri

24 Hybrid Breeding in Wheat .................................................................... 225 M. Florian Mette , Mario Gils , C. Friedrich H. Longin , and Jochen C. Reif

25 Broadening the Genetic Diversity of Common and Durum Wheat for Abiotic Stress Tolerance Breeding ................. 233 Hisashi Tsujimoto , Quahir Sohail , and Yoshihiro Matsuoka

26 Early Maturity in Wheat for Adaptation to High Temperature Stress ................................................................................ 239 Suchismita Mondal , Arun K. Joshi , Julio Huerta-Espino , and Ravi P. Singh

27 Gene Expression Profiles Involved in Development of Freezing Tolerance in Common Wheat ............................................ 247 Hirokazu Yokota , Julio C. M. Iehisa , Etsuo Shimosaka , and Shigeo Takumi

Part IX Improvement of Grain Quality

28 Coping with Wheat Quality in a Changing Environment: Proteomics Evidence for Stress Caused by Environmental Changes ...................................................... 255 Gérard Branlard , Véronique S. Lesage , Emmanuelle Bancel , Pierre Martre , Benoit Méleard , and Larbi Rhazi

29 Starch Modification: A Model for Wheat MAS Breeding .................. 265 Toshiki Nakamura , Patricia Vrinten , Tomoya Shimbata , and Mika Saito

30 Quality Characteristics of Soft Kernel Durum; A New Cereal Crop ................................................................................ 275 Craig F. Morris and E. Patrick Fuerst

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31 Proposal of International Gluten Research Group ............................. 279 Tatsuya M. Ikeda , W. John Rogers , Gerard Branlard , Roberto J. Peña , Silvia E. Lerner , Adriana Arrigoni , Wujun Ma , Rudi Appels , Odean Lukow , William Hurkman , Marie Appelbee , Mike Sissons , Jose M. Carrillo , and Zhonghu He

32 Enlargement of the Genetic Diversity for Grain Quality in Bread Wheat Through Alien Introgression ..................................... 287 Tatyana A. Pshenichnikova , Alexander V. Simonov , Ludmila V. Shchukina , Evgeniya V. Morozova , Angela K. Chistyakova , and Andreas Börner

33 Complex G × E Interactions and QTL Clusters Govern End-Use Quality Traits in Hexaploid Wheat ......................... 293 Ramya Prashant , Elangovan Mani , Richa Rai , R. K. Gupta , Ratan Tiwari , Manoj Oak , Narendra Y. Kadoo , and Vidya S. Gupta

34 A Consistent QTL for Flour Yield on Chromosome 3B in the Soft Winter Wheat Variety, Kitahonami ................................... 301 Goro Ishikawa , Kazuhiro Nakamura , Hiroyuki Ito , Mika Saito , Mikako Sato , Hironobu Jinno , Yasuhiro Yoshimura , Tsutomu Nishimura , Hidekazu Maejima , Yasushi Uehara , and Toshiki Nakamura

Part X Marker-Assisted Breeding

35 Recent Improvements in Japanese Wheat Varieties ........................... 311 Shunsuke Oda

36 Determining the Order of Resistance Genes Qsng-3BS , Fhb1 and Sr2 and Combining Them in Coupling on Wheat Chromosome 3BS ................................................................................... 319 Rima Thapa , Gina Brown-Guedira , Herbert W. Ohm , Kiersten Wise , and Stephen B. Goodwin

37 Meta-analysis of Resistance to Fusarium Head Blight in Tetraploid Wheat: Implications for Durum Wheat Breeding ........ 323 Noémie Prat , Maria Buerstmayr , Barbara Steiner , and Hermann Buerstmayr

38 Interest of a Multiparental and Outcrossing Wheat Population for Fine Mapping ................................................................ 331 Stéphanie Thépot , Gwendal Restoux , Frédéric Hospital , David Gouache , Ian Mackay , Isabelle Goldringer , and Jérôme Enjalbert

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39 The Effect of Earliness per se ( Eps ) Genes on Flowering Time in Bread Wheat ............................................................................. 339 Meluleki Zikhali and Simon Griffi ths

Part XI Toward Sustainable Wheat Production

40 Recapitulating the OECD-CRP Session (Sponsored by the OECD’s Co-operative Research Program on Biological Resource Management for Sustainable Agricultural Systems) ............................................................................ 349 Masa Iwanaga and Tomohiro Ban

41 Exploring Genetic Resources to Increase Adaptation of Wheat to Climate Change ................................................................. 355 Matthew Reynolds, Maria Tattaris, C. Mariano Cossani, Marc Ellis, Kazuko Yamaguchi-Shinozaki, and Carolina Saint Pierre

42 Genomic Approaches Towards Durable Fungal Disease Resistance in Wheat.................................................................. 369 Beat Keller, Simon Krattinger, Liselotte Selter, Chauhan Harsh, Jyoti Singla, Susanne Brunner, Severine Hurni, Daniel Stirnweis, Margarita Shatalina, Thomas Wicker, Francis Parlange, Joanna Risk, and Evans Lagudah

43 Review and New Progress in Wheat Wide Hybridization for Improving the Resistance to Biotic and Abiotic Stresses .............. 377 Zhen-Sheng Li, Bin Li, Qi Zheng, and Hongwei Li

44 Global Crop Improvement Networks to Bridge Technology Gaps .................................................................... 387 Michael Baum, Wuletaw Tadesse, Miloudi Nachit, Osman Abdalla, Sanjaya Rajaram, Ravi Singh, Tomas Payne, Karim Ammar, Alex Morgounov, and Hans Braun

45 Genomic Selection in Plants: Empirical Results and Implications for Wheat Breeding .................................................. 401Mark E. Sorrells

46 Dietary Fibre: Wheat Genes for Enhanced Human Health ............... 411Rowan A.C. Mitchell and Peter R. Shewry

Appendices ....................................................................................................... 421

Contents