Article
Agronomy
Pao Theen See, Caroline S. Moffat
Summary: After 40 years of DNA molecular marker development in plant breeding, the wheat research community has accumulated a large collection of molecular markers that have been widely used for selecting agronomic, physiological and disease resistance traits in wheat breeding programs. Tan spot, a major fungal disease of wheat caused by Pyrenophora tritici-repentis, was evaluated for potential use of a PCR-based marker (Ta1AS3422) on wheat chromosome 1A. The marker showed significant correlation with disease susceptibility, indicating its potential for varietal improvement against tan spot disease.
Article
Plant Sciences
Katherine L. D. Running, Aliya Momotaz, Gayan K. Kariyawasam, Jason D. Zurn, Maricelis Acevedo, Arron H. Carter, Zhaohui Liu, Justin D. Faris
Summary: This study investigates the sensitivity of wheat lines carrying specific genes to the necrotrophic effector produced by the necrotrophic fungal pathogen Pyrenophora tritici-repentis (Ptr), which causes the foliar disease tan spot. The research maps the genetic markers and identifies candidate genes for the trait, providing a foundation for future cloning of the gene and development of genetically resistant cultivars.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Sudhir Navathe, Xinyao He, Umesh Kamble, Manjeet Kumar, Madhu Patial, Gyanendra Singh, Gyanendra Pratap Singh, Arun Kumar Joshi, Pawan Kumar Singh
Summary: Leaf blight diseases, such as Septoria nodorum blotch and tan spot, are becoming more prevalent in northern parts of India due to changing climate conditions. A study on 296 bread wheat cultivars released in India over the past two decades identified novel genetic markers associated with resistance to these diseases. The findings provide valuable information for future wheat improvement programs.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Genetics & Heredity
Alma Kokhmetova, Deepmala Sehgal, Shaukat Ali, Makpal Atishova, Madina Kumarbayeva, Irina Leonova, Susanne Dreisigacker
Summary: This study evaluated 191 wheat lines for resistance to tan spot and identified novel resistant alleles, as well as SNP markers associated with resistance. The results suggest potential candidate varieties for future breeding efforts.
FRONTIERS IN GENETICS
(2021)
Article
Agronomy
Francisco Jose Sautua, Marcelo Anibal Carmona
Summary: Tan spot caused by Ptr in wheat crops in Argentina has become more prevalent and intense in recent years. Failure to control the disease with strobilurin fungicides has been observed, and this study found the mutation conferring QoI resistance in Ptr in South America, which is crucial for future decisions on fungicide use and rotation in the region.
Article
Biology
Oksana Yu. Kremneva, Nina V. Mironenko, Galina V. Volkova, Olga A. Baranova, Yuri S. Kim, Nadezhda M. Kovalenko
Summary: Studies demonstrate that the susceptibility of wheat varieties to tan spot is affected by weather conditions, and most Russian winter wheat varieties in the North Caucasus region are susceptible to P. tritici-repentis.
SAUDI JOURNAL OF BIOLOGICAL SCIENCES
(2021)
Article
Agronomy
Akerke Maulenbay, Kunsulu Zakarya, Raushan Moldazhanova, Aralbek Rsaliyev
Summary: This study investigated the race composition of Pyrenophora tritici-repentis (Ptr) responsible for tan spot disease in Kazakhstan. The analysis showed that the Ptr isolates in Kazakhstan belonged to four known races and one potential atypical race. Races 1 and 2 were identified as critical for wheat production in Kazakhstan.
Article
Agronomy
Julian Taylor, Dorthe Jorgensen, Caroline S. Moffat, Ken J. Chalmers, Rebecca Fox, Grant J. Hollaway, Melissa J. Cook, Stephen M. Neate, Pao Theen See, Manisha Shankar
Summary: Tan spot is a foliar disease in wheat caused by the fungal pathogen Pyrenophora tritici-repentis (Ptr) and can lead to significant yield losses. Genetic resistance through plant breeding is the most economically sustainable approach to reduce the disease. A study using a diverse panel of 192 wheat lines revealed high heritability for tan spot traits, with ICARDA lines showing the greatest resistance. Whole-genome analysis identified numerous significant genetic loci, but lacked repeatability across traits. Genomic prediction of tan spot traits identified CIMMYT lines with broad resistance that can be used in Australian wheat breeding programs.
THEORETICAL AND APPLIED GENETICS
(2023)
Article
Agronomy
Muhammad Iqbal, Kassa Semagn, Harpinder Randhawa, Reem Aboukhaddour, Izabela Ciechanowska, Klaus Strenzke, Amidou N'Diaye, Curtis Pozniak, Dean Spaner
Summary: This study mapped QTLs associated with resistance to leaf spot, leaf rust, stripe rust, and common bunt in two wheat populations using the IWGSC physical map. A total of 82 QTLs were identified, with 29 of them associated with disease severity in all environments. This methodology provides a resource for comparing QTLs across different populations and studies based on improved physical information.
Article
Agronomy
S. Kamel, M. Cherif
Summary: This study investigated the distribution of tan spot in nine districts of Northern Tunisia and assessed its prevalence, incidence, and severity. It was found that the disease was particularly serious in certain districts in 2016, 2017, and 2018, with durum wheat being more susceptible than bread wheat. Farmers can use this information to choose more tolerant varieties for cultivation.
CEREAL RESEARCH COMMUNICATIONS
(2021)
Article
Plant Sciences
Nerida Lozano-Ramirez, Susanne Dreisigacker, Carolina P. Sansaloni, Xinyao He, Sergio Sandoval Islas, Paulino Perez-Rodriguez, Aquiles Carballo Carballo, Cristian Nava-Diaz, Masahiro Kishii, Pawan K. Singh
Summary: Synthetic hexaploid wheat (SHW) has been found to have effective resistance to tan spot, a foliar disease caused by Pyrenophora tritici-repentis. Through evaluation and genotyping of 443 SHW plants, 30 significant marker-trait associations were identified, providing important candidate lines for wheat breeding with improved resistance to tan spot.
Article
Agronomy
Eric G. Dinglasan, Tamaya Peressini, Kalai A. Marathamuthu, Pao Theen See, Lisle Snyman, Greg Platz, Ian Godwin, Kai P. Voss-Fels, Caroline S. Moffat, Lee T. Hickey
Summary: QTL mapping identified key genomic regions associated with adult-plant resistance to tan spot in wheat, providing a new genetic solution for developing disease-resistant cultivars. By exploiting variation in quantitative forms of resistance, such as adult-plant resistance, broad-spectrum protection can be achieved, even in the presence of sensitivity genes. This study demonstrates the potential to combine multiple QTL to enhance resistance levels and decrease production losses in wheat cultivation.
THEORETICAL AND APPLIED GENETICS
(2021)
Article
Agronomy
Kazi A. Kader, Robert M. Hunger, Aswathy Sreedharan, Stephen M. Marek
Summary: A study on tan spot of wheat caused by Pyrenophora tritici-repentis in Oklahoma revealed an increasing prevalence of the disease. Most isolates were classified as race 1 and displayed varying symptoms on different wheat cultivars. Genetic analysis indicated that the isolates likely originated from a single lineage.
CEREAL RESEARCH COMMUNICATIONS
(2022)
Article
Plant Sciences
Agnes Szabo-Hever, Gurminder Singh, Amanda R. Peters Haugrud, Katherine L. D. Running, Sudeshi Seneviratne, Zengcui Zhang, Gongjun Shi, Filippo M. Bassi, Marco Maccaferri, Luigi Cattivelli, Roberto Tuberosa, Timothy L. Friesen, Zhaohui Liu, Steven S. Xu, Justin D. Faris
Summary: Compared to common wheat, less is known about the genetics and molecular basis of tan spot resistance in durum wheat. Through evaluation of durum wheat lines, several loci associated with tan spot caused by different races were identified. Our findings provide guidance for durum wheat breeding.
Article
Plant Sciences
Marwa Laribi, Alireza Akhavan, Sarrah Ben M'Barek, Amor H. Yahyaoui, Stephen E. Strelkov, Khaled Sassi
Summary: Pyrenophora tritici-repentis causes tan spot, an important foliar disease of wheat. The population structure and genetic diversity of P. tritici-repentis can be influenced by geographic origin and different necrotrophic effectors.
Article
Plant Sciences
Adam Schoen, Anupama Joshi, Vijay Tiwari, Bikram S. Gill, Nidhi Rawat
Summary: In this study, a triple knockout mutant genotype was developed in the elite wheat cultivar 'Jagger' to significantly increase resistant starch content. Apart from improving resistant starch content, this method also avoids the shriveled grain phenotype seen in other knockout genotypes.
Article
Biotechnology & Applied Microbiology
Kumar Gaurav, Sanu Arora, Paula Silva, Javier Sanchez-Martin, Richard Horsnell, Liangliang Gao, Gurcharn S. Brar, Victoria Widrig, W. John Raupp, Narinder Singh, Shuangye Wu, Sandip M. Kale, Catherine Chinoy, Paul Nicholson, Jesus Quiroz-Chavez, James Simmonds, Sadiye Hayta, Mark A. Smedley, Wendy Harwood, Suzannah Pearce, David Gilbert, Ngonidzashe Kangara, Catherine Gardener, Macarena Forner-Martinez, Jiaqian Liu, Guotai Yu, Scott A. Boden, Attilio Pascucci, Sreya Ghosh, Amber N. Hafeez, Tom O'Hara, Joshua Waites, Jitender Cheema, Burkhard Steuernagel, Mehran Patpour, Annemarie Fejer Justesen, Shuyu Liu, Jackie C. Rudd, Raz Avni, Amir Sharon, Barbara Steiner, Rizky Pasthika Kirana, Hermann Buerstmayr, Ali A. Mehrabi, Firuza Y. Nasyrova, Noam Chayut, Oadi Matny, Brian J. Steffenson, Nitika Sandhu, Parveen Chhuneja, Evans Lagudah, Ahmed F. Elkot, Simon Tyrrell, Xingdong Bian, Robert P. Davey, Martin Simonsen, Leif Schauser, Vijay K. Tiwari, H. Randy Kutcher, Pierre Hucl, Aili Li, Deng-Cai Liu, Long Mao, Steven Xu, Gina Brown-Guedira, Justin Faris, Jan Dvorak, Ming-Cheng Luo, Ksenia Krasileva, Thomas Lux, Susanne Artmeier, Klaus F. X. Mayer, Cristobal Uauy, Martin Mascher, Alison R. Bentley, Beat Keller, Jesse Poland, Brande B. H. Wulff
Summary: The study sequenced 242 accessions of Aegilops tauschii and identified a rare lineage contributing to the wheat D subgenome. Through association mapping, genomic regions with candidate genes for disease and pest resistance were identified and successfully transferred into wheat. Exploiting the genomic diversity of the wild progenitor allows for rapid trait discovery and functional genetic validation.
NATURE BIOTECHNOLOGY
(2022)
Article
Genetics & Heredity
Habtamu Ayalew, Joshua D. Anderson, Nick Krom, Yuhong Tang, Twain J. Butler, Nidhi Rawat, Vijay Tiwari, Xue-Feng Ma
Summary: Triticale, a hybrid species between wheat and rye, has a limited genomic resource due to its large and complex genome. This study used genotyping-by-sequencing to generate dense marker data and identified a large number of single nucleotide polymorphism markers. Genetic diversity and population structure analysis provided insights into the genetic background and population composition of triticale. Additionally, genomic selection models were used to estimate the accuracy of improving forage yield in triticale, showing the potential of genomic selection in triticale breeding.
G3-GENES GENOMES GENETICS
(2022)
Article
Multidisciplinary Sciences
Guifang Lin, Hui Chen, Bin Tian, Sunish K. Sehgal, Lovepreet Singh, Jingzhong Xie, Nidhi Rawat, Philomin Juliana, Narinder Singh, Sandesh Shrestha, Duane L. Wilson, Hannah Shult, Hyeonju Lee, Adam William Schoen, Vijay K. Tiwari, Ravi P. Singh, Mary J. Guttieri, Harold N. Trick, Jesse Poland, Robert L. Bowden, Guihua Bai, Bikram Gill, Sanzhen Liu
Summary: The study identifies three candidate genes for the Lr42 leaf rust resistance gene using the BSR-Seq mapping strategy and confirms the function of a nucleotide-binding site leucine-rich repeat gene in conferring resistance. The rare Lr42 resistance allele likely originated from ectopic recombination in Aegilops tauschii. Cloning of Lr42 provides diagnostic markers and its widespread use in crop improvement is well-documented.
NATURE COMMUNICATIONS
(2022)
Review
Plant Sciences
Babar Hussain, Bala A. Akpinar, Michael Alaux, Ahmed M. Algharib, Deepmala Sehgal, Zulfiqar Ali, Gudbjorg I. Aradottir, Jacqueline Batley, Arnaud Bellec, Alison R. Bentley, Halise B. Cagirici, Luigi Cattivelli, Fred Choulet, James Cockram, Francesca Desiderio, Pierre Devaux, Munevver Dogramaci, Gabriel Dorado, Susanne Dreisigacker, David Edwards, Khaoula El-Hassouni, Kellye Eversole, Tzion Fahima, Melania Figueroa, Sergio Galvez, Kulvinder S. Gill, Liubov Govta, Alvina Gul, Goetz Hensel, Pilar Hernandez, Leonardo Abdiel Crespo-Herrera, Amir Ibrahim, Benjamin Kilian, Viktor Korzun, Tamar Krugman, Yinghui Li, Shuyu Liu, Amer F. Mahmoud, Alexey Morgounov, Tugdem Muslu, Faiza Naseer, Frank Ordon, Etienne Paux, Dragan Perovic, Gadi V. P. Reddy, Jochen Christoph Reif, Matthew Reynolds, Rajib Roychowdhury, Jackie Rudd, Taner Z. Sen, Sivakumar Sukumaran, Bahar Sogutmaz Ozdemir, Vijay Kumar Tiwari, Naimat Ullah, Turgay Unver, Selami Yazar, Rudi Appels, Hikmet Budak
Summary: Recent technological advances in next-generation sequencing have made DNA sequencing more accessible for species with large and complex genomes, including bread wheat. Despite its importance as a food crop, breeding in bread wheat has been limited by its large polyploid genome. However, after years of effort, draft and reference genome sequences of bread wheat have been released, providing valuable resources for breeding. These advances have also facilitated the use of genotyping arrays in wheat breeding, allowing for fast and reliable characterization of wheat lines. Additionally, gene-editing and genomic selection methods have shown promise in improving important traits in wheat breeding.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Multidisciplinary Sciences
Inderjit Singh Yadav, S. C. Bhardwaj, Jaspal Kaur, Deepak Singla, Satinder Kaur, Harmandeep Kaur, Nidhi Rawat, Vijay Kumar Tiwari, Diane Saunders, Cristobal Uauy, Parveen Chhuneja
Summary: This study conducted whole-genome re-sequencing of three prevalent Indian Pst pathotypes and found that they were highly heterozygous. Pathogenicity-related genes were identified and shown to be under positive selection. The association between effector genes and transposable elements may contribute to the rapid evolution of these strains.
Article
Multidisciplinary Sciences
Inderjit S. Yadav, Narinder Singh, Shuangye Wu, Jon Raupp, Duane L. Wilson, Nidhi Rawat, Bikram S. Gill, Jesse Poland, Vijay K. Tiwari
Summary: This study used GBS technology to analyze wild and domesticated tetraploid wheat, finding misclassification and redundancy. By determining the center of genetic diversity, a core set was generated that preserved over 93% of the available diversity. The study found that wild germplasm showed more differentiation than domesticated accessions, providing sufficient diversity for crop improvement.
JOURNAL OF ADVANCED RESEARCH
(2023)
Article
Agronomy
Adam Schoen, Sydney Wallace, Meghan Fisher Holbert, Gina Brown-Guidera, Stephen Harrison, Paul Murphy, Nicholas Sanantonio, David Van Sanford, Richard Boyles, Mohamed Mergoum, Nidhi Rawat, Vijay Tiwari
Summary: By using high-density 50-cell trays with a 22-hour setting (22 h day/2 h night, 25 degrees C/22 degrees C), the generation time of winter wheat can be advanced by four generations, resulting in a shorter breeding time.
Article
Genetics & Heredity
Adam Schoen, Inderjit Yadav, Shuangye Wu, Jesse Poland, Nidhi Rawat, Vijay Tiwari
Summary: In this study, a novel tillering number gene was identified in wheat through the use of a mutagen and genetic mapping techniques. The gene was located on chromosome 2DS within a 2.1 Mb region, and 22 candidate genes were identified.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2023)
Article
Agronomy
Anmol Kajla, Adam Schoen, Carl Paulson, Inderjit Singh Yadav, Kumari Neelam, Oscar Riera-Lizarazu, Jeff Leonard, Bikram S. S. Gill, Prakash Venglat, Raju Datla, Jesse Poland, Gary Coleman, Nidhi Rawat, Vijay Tiwari
Summary: This study provides an approach to precisely map wheat genes in the centromeric and pericentromeric regions using the example of the C-locus. Integration of radiation hybrid and high-resolution genetic mapping successfully located the C-locus on a specific arm of chromosome 2D. This study demonstrates the value of this integrated strategy in mapping dominant genes in low-recombination regions.
THEORETICAL AND APPLIED GENETICS
(2023)
Article
Multidisciplinary Sciences
Hanin Ibrahim Ahmed, Matthias Heuberger, Adam Schoen, Dal-Hoe Koo, Jesus Quiroz-Chavez, Laxman Adhikari, John Raupp, Stephane Cauet, Nathalie Rodde, Charlotte Cravero, Caroline Callot, Gerard R. Lazo, Nagarajan Kathiresan, Parva K. Sharma, Ian Moot, Inderjit Singh Yadav, Lovepreet Singh, Gautam Saripalli, Nidhi Rawat, Raju Datla, Naveenkumar Athiyannan, Ricardo H. Ramirez-Gonzalez, Cristobal Uauy, Thomas Wicker, Vijay K. Tiwari, Michael Abrouk, Jesse Poland, Simon G. Krattinger
Summary: Genome sequencing of wild and domesticated wheat provides insights into its evolutionary history, genetic diversity, and its contribution to bread wheat. This research is valuable for improving both einkorn and bread wheat through genomics-assisted approaches.
Review
Agronomy
Richard E. Boyles, Carolina Ballen-Taborda, Gina Brown-Guedira, Jose Costa, Christina Cowger, Noah DeWitt, Carl A. Griffey, Stephen A. Harrison, Amir Ibrahim, Jerry Johnson, Jeanette Lyerly, David S. Marshall, R. Esten Mason, Mohamed Mergoum, J. Paul Murphy, Nicholas Santantonio, Gautam Saripalli, Russell Sutton, Vijay Tiwari, David van Sanford, Zachary J. Winn
Summary: Significant progress has been made in developing varieties and plant resistance to mitigate Fusarium head blight (FHB) since its onset in the southeastern United States in the early 2000s. The US Wheat & Barley Scab Initiative (USWBSI) has played a crucial role in supporting research efforts and reducing the threat of FHB epidemics. The coordinated screening of germplasm and the utilization of resistance genes have contributed to the improvement of FHB resistance in southern SRWW.
Article
Plant Sciences
Inderjit S. Yadav, Nidhi Rawat, Parveen Chhuneja, Satinder Kaur, Christobal Uauy, Gerard Lazo, Yong Q. Gu, Jaroslav Dolezel, Vijay K. Tiwari
Summary: Wheat is an important cereal crop facing increasing stresses, but genetic improvement and finding novel genes from the tertiary gene pool can enhance its genetic diversity and resistance. This study compared the evolution of homoeologous genes in chromosomes 5M(g), 5U(u), and group 5 wheat chromosomes. The findings revealed diverse transcription factors and resistance genes, influenced by gene family expansion, with enrichment in genes responding to biotic and abiotic stresses. The phylogenetic study suggested a closer relationship between the M genome and the D genome, with substantial impact on gene function due to SNPs on chromosome 5D.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biology
Gautam Saripalli, Laxman Adhikari, Cameron Amos, Ashraf Kibriya, Hanin Ibrahim Ahmed, Matthias Heuberger, John Raupp, Naveenkumar Athiyannan, Thomas Wicker, Michael Abrouk, Sydney Wallace, Seyedali Hosseinirad, Parveen Chhuneja, Janelle Livesay, Nidhi Rawat, Simon G. Krattinger, Jesse Poland, Vijay Tiwari
Summary: This study utilized genomic advancements to map agronomic traits in einkorn wheat, resulting in the identification of candidate genes and a domestication locus. This resource can be utilized to improve wheat cultivars and explore agronomically important traits.
COMMUNICATIONS BIOLOGY
(2023)
Article
Plant Sciences
Sanu Arora, Andrew Steed, Rachel Goddard, Kumar Gaurav, Tom O'Hara, Adam Schoen, Nidhi Rawat, Ahmed F. F. Elkot, Andrey V. V. Korolev, Catherine Chinoy, Martha H. H. Nicholson, Soichiro Asuke, Rea Antoniou-Kourounioti, Burkhard Steuernagel, Guotai Yu, Rajani Awal, Macarena Forner-Martinez, Luzie Wingen, Erin Baggs, Jonathan Clarke, Diane G. O. Saunders, Ksenia V. V. Krasileva, Yukio Tosa, Jonathan D. G. Jones, Vijay K. K. Tiwari, Brande B. H. Wulff, Paul Nicholson
Summary: Since 1985, wheat blast has spread throughout South America, Bangladesh, and Zambia. Two wheat resistance genes, Rwt3 and Rwt4, have been identified as barriers against non-Triticum blast pathotypes. These genes provide molecular targets for studying the interaction between pathogen effector and host resistance genes, and can potentially improve wheat resistance to blast fungus.
