Plant Genetic Resources: Characterization and Utilization Special issue on the 2nd International Symposium on “Genomics of Plant Genetic Resources”, 24–27 April 2010, Bologna, Italy Guest editors Roberto Tuberosa Andreas Graner Rajeev K. Varshney Plant Genetic Resources Characterization and Utilization journals.cambridge.org/pgr Publishing, Production, Marketing and publication. Replacement copies supplied after this date will be Subscription Sales Office: chargeable. Cambridge University Press The Edinburgh Building US POSTMASTERS: please send address corrections Plant Genetic Shaftesbury Road Resources USA address. 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Back volumes are available. Please contact CUP Publishing for further information. This journal issue has been printed on FSC-certified paper and cover board. FSC is an independent, non-governmental, not-for-profit Claims for non-receipt of journal issues will be considered on organization established to promote the responsible management of their merit and only if the claim is received within six months of the world’s forests. Please see www.fsc.org for information. q NIAB 2011 Plant Genetic Resources: Characterization and Utilization 9(2) July 2011 ISSN 1479-2621 Plant Genetic Resources Characterization and Utilization Contents Genomics of plant genetic resources: an introduction Roberto Tuberosa, Andreas Graner and Rajeev K. Varshney .............................. 151 Genomics of plant genetic resources: past, present and future Kyujung Van, Dong Hyun Kim, Jin Hee Shin and Suk-Ha Lee ........................... 155 Genomic tools for the analysis of genetic diversity J. Antoni Rafalski ........................................................... 159 Long terminal repeat retrotransposon Jeli provides multiple genetic markers for common wheat (Triticum aestivum) Nataliya V. Melnikova, Fedor A. Konovalov and Alexander M. Kudryavtsev .................. 163 HRM technology for the identification and characterization of INDEL and SNP mutations in genes involved in drought and salt tolerance of durum wheat Linda Mondini, Miloudi M. Nachit, Enrico Porceddu and Mario A. Pagnotta ................. 166 Starch metabolism mutants in barley: A TILLING approach Riccardo Bovina, Valentina Talame`, Salvi Silvio, Maria Corinna Sanguineti, Paolo Trost, Francesca Sparla and Roberto Tuberosa ........................................... 170 Collection of mutants for functional genomics in the legume Medicago truncatula O. Calderini, M. Carelli, F. Panara, E. Biazzi, C. Scotti, A. Tava, A. Porceddu and S. Arcioni ............................................................. 174 Polymorphisms in intron 1 of carrot AOX2b – a useful tool to develop a functional marker? He´lia Cardoso, Maria Doroteia Campos, Thomas Nothnagel and Birgit Arnholdt-Schmitt ......... 177 Next-Gen sequencing of the transcriptome of triticale Y. Xu, C. Badea, F. Tran, M. Frick, D. Schneiderman, L. Robert, L. Harris, D. Thomas, N. Tinker, D. Gaudet and A. Laroche ............................................. 181 A comparison of population types used for QTL mapping in Arabidopsis thaliana Joost J. B. Keurentjes, Glenda Willems, Fred van Eeuwijk, Magnus Nordborg and Maarten Koornneef .......................................................... 185 Molecular characterization of the Latvian apple (Malus) genetic resource collection based on SSR markers and scab resistance gene Vf analysis Gunars Lacis, Irita Kota, Laila Ikase and Dainis Rungis ................................ 189 Molecular adaptation of the chloroplast matK gene in Nymphaea tetragona, a critically rare and endangered plant of India Jeremy Dkhar, Suman Kumaria and Pramod Tandon ................................. 193 The genetic make-up of the European landraces of the common bean S. A. Angioi, D. Rau, L. Nanni, E. Bellucci, R. Papa and G. Attene .............................. 197 Investigation of genetic diversity in Russian collections of raspberry and blue honeysuckle Didier Lamoureux, Artem Sorokin, Isabelle Lefe`vre, Sergey Alexanian, Pablo Eyzaguirre and Jean-Franc¸ois Hausman ............................................................. 202 Morpho-agronomic characterization and variation of indigo precursors in woad (Isatis tinctoria L.) accessions Luı´s Rocha, Carlos Carvalho, Sandra Martins, Fernando Braga and Valdemar Carnide ................ 206 Genetic diversity in woad (Isatis tinctoria L.) accessions detected by ISSR markers Luı´s Rocha, Sandra Martins, Valdemar Carnide, Fernando Braga and Carlos Carvalho ............... 210 Genetic diversity among Italian melon inodorus (Cucumis melo L.) germplasm revealed by ISSR analysis and agronomic traits S. Sestili, A. Giardini and N. Ficcadenti ................................................. 214 Analysis of genetic diversity in Citrus Franc¸ois Luro, Julia Gatto, Gilles Costantino and Olivier Pailly ................................. 218 Diversity of seed storage protein patterns of Slovak accessions in jointed goatgrass (Aegilops cylindrica Host.) Edita Gregova´, Pavol Hauptvogel, Rene´ Hauptvogel, Ga´bor Vo¨ro¨sva´ry and Ga´bor Ma´lna´si Csizmadia ...... 222 Assessment of genetic diversity among Sri Lankan rice varieties by AFLP markers Gowri Rajkumar, Jagathpriya Weerasena, Kumudu Fernando and Athula Liyanage .................. 224 Molecular and morphological diversity in Japanese rice germplasm Fa´tima Bosetti, Maria Imaculada Zucchi and Jose´ Baldin Pinheiro .............................. 229 Molecular characterization of the European rice collection in view of association mapping Brigitte Courtois, Raffaella Greco, Gianluca Bruschi, Julien Frouin, Nourollah Ahmadi, Gae¨tan Droc, Chantal Hamelin, Manuel Ruiz, Jean-Charles Evrard, Dimitrios Katsantonis, Margarida Oliveira, Sonia Negrao, Stefano Cavigiolo, Elisabetta Lupotto and Pietro Piffanelli .......................... 233 Screening of barley germplasm for resistance to root lesion nematodes Shiveta Sharma, Shailendra Sharma, Tobias Keil, Eberhard Laubach and Christian Jung .............. 236 Allelic variation at the EF-G locus among northern Moroccan six-rowed barleys Takahide Baba, Ken-ichi Tanno, Masahiko Furusho and Takao Komatsuda ....................... 240 Comparison of genomic and EST-derived SSR markers in phylogenetic analysis of wheat Agata Gadaleta, Angelica Giancaspro, Silvana Zacheo, Domenica Nigro, Stefania Lucia Giove, Pasqualina Colasuonno and Antonio Blanco ............................................. 243 Exploring the genetic diversity of the DRF1 gene in durum wheat and its wild relatives Domenico Di Bianco, Karthikeyan Thiyagarajan, Arianna Latini, Cristina Cantale, Fabio Felici and Patrizia Galeffi ............................................................... 247 Allele variation in loci for adaptive response in Bulgarian wheat cultivars and landraces and its effect on heading date Stanislav Kolev, Dimitar Vassilev, Kostadin Kostov