Article
Plant Sciences
Chao Ma, Le Liu, Tianxiang Liu, Yatao Jia, Qinqin Jiang, Haibo Bai, Sishuang Ma, Shuhua Li, Zhonghua Wang
Summary: In this study, a genetic linkage map of tetraploid wheat was constructed using the wheat55K single nucleotide polymorphism array, and QTLs for important agronomic traits were mapped. A total of 52 major or stable QTLs were identified, including some novel loci controlling plant height, spike-branching, and kernel length-width ratio. Candidate genes were predicted for four stable QTLs, and QTL clusters and segregation distortion regions were also detected. These results provide valuable information for wheat breeding.
Article
Plant Sciences
Francisco J. de Blas, Cecilia Bruno, Renee S. Arias, Carolina Ballen-Taborda, Eva Mamani, Claudio Oddino, Melina Rosso, Beatriz P. Costero, Marina Bressano, Juan H. Soave, Sara J. Soave, Mario Buteler, J. Guillermo Seijo, Alicia N. Massa
Summary: A major QTL and a minor QTL identified in this study provide new insights into the genetic architecture of peanut smut resistance that may aid in breeding new varieties resistant to peanut smut.
Article
Biotechnology & Applied Microbiology
Jieguang Zhou, Cong Li, Jianing You, Huaping Tang, Yang Mu, Qiantao Jiang, Yaxi Liu, Guoyue Chen, Jirui Wang, Pengfei Qi, Jun Ma, Yutian Gao, Ahsan Habib, Yuming Wei, Youliang Zheng, Xiujin Lan, Jian Ma
Summary: This study detected and verified two stable and major QTL for kernel length (KL) and width (KW) in wheat, which were identified to have significant additive effects on increasing 1000-kernel weight (TKW). These QTL were found in wild relatives of wheat and could potentially be utilized for genetic improvement in wheat breeding programs.
Article
Biochemistry & Molecular Biology
Khaoula El Hassouni, Muhammad Afzal, Kim A. Steige, Malte Sielaff, Valentina Curella, Manjusha Neerukonda, Stefan Tenzer, Detlef Schuppan, Carl Friedrich Horst Longin, Patrick Thorwarth
Summary: Wheat proteins play an important role in nutrition, but can also cause adverse reactions. Through a genome wide association study, we identified quantitative trait loci that explain the genetic variation in wheat proteins. These loci can be used to select for low protein abundance in wheat cultivars for human health considerations.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Wei Xuan, Ling Zhang, Yu Zhang, Xiuping Sun, Jue Wang, Xianglei Li, Lingyan Zhang, Xinpei Wang, Grant Morahan, Chuan Qin
Summary: The complicated interactions between genetic background, environment, and lifestyle factors make it difficult to study the genetic basis of complex phenotypes in humans. Mouse studies offer the advantage of tight control over environmental and other factors. The Collaborative Cross (CC), a mouse genetic reference population, was used to assess behavioral measures associated with various traits. The study identified genetic variants underlying these traits and highlighted the potential of the CC population in behavioral genetic research.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Chunyun Zhou, Hongchun Xiong, Meiyu Fu, Huijun Guo, Linshu Zhao, Yongdun Xie, Jiayu Gu, Shirong Zhao, Yuping Ding, Yuting Li, Xuejun Li, Luxiang Liu
Summary: In this study, a high-density genetic linkage map was constructed using a recombinant inbred line (RIL) population derived from a mutant Rht8-2 and a local wheat variety. Seven stable QTLs for plant height and spike compactness were identified, and Rht8-B1 was confirmed as the causal gene for qPH2B.1. Furthermore, it was found that Rht8-B1 had a lower impact on plant height compared to Rht8-D1. These findings provide important information for marker-assisted selection in wheat breeding.
Article
Plant Sciences
Yingxin Guo, Guanying Wang, Xin Guo, Songqi Chi, Hui Yu, Kaituo Jin, Heting Huang, Dehua Wang, Chongning Wu, Jichun Tian, Jiansheng Chen, Yinguang Bao, Weidong Zhang, Zhiying Deng
Summary: QTL mapping and GWAS on wheat grain development revealed significant associations between 29 unconditional QTLs, 13 conditional QTLs, 99 unconditional marker-trait associations, 14 conditional marker-trait associations, and four quality traits. The study also predicted 28 QTL mapping and 69 GWAS candidate genes related to protein and starch synthesis during grain development.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agriculture, Multidisciplinary
Pu-yang DING, Zi-qiang MO, Hua-ping TANG, Yang MU, Mei DENG, Qian-tao JIANG, Ya-xi LIU, Guang-deng CHEN, Guo-yue CHEN, Ji-rui WANG, Wei LI, Peng-fei QI, Yun-feng JIANG, Hou-yang KANG, Gui-jun YAN, Yu-ming WEI, You-liang ZHENG, Xiu-jin LAN, Jian MA
Summary: This study identified and analyzed two major QTLs for spikelet number per spike (SNS) in wheat, contributing to a better understanding of the genetic basis of SNS. The effect of one QTL was successfully validated and several genes related to SNS were predicted in its interval. These findings have important implications for fine mapping and breeding utilization of the major QTLs.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2022)
Article
Plant Sciences
Weiya Xue, Kathleen G. Haynes, Christopher R. Clarke, Xinshun Qu
Summary: This study investigates the genetic basis of early blight resistance in potato by using hybridization and field trials. Several quantitative trait loci (QTL) associated with early blight resistance were identified, providing new insights for marker-assisted selection in breeding for early blight resistance.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Chaojie Wang, Lili Zhang, Yongdun Xie, Ahsan Irshad, Huijun Guo, Jiayu Gu, Linshu Zhao, Hongchun Xiong, Shirong Zhao, Chengshe Wang, Luxiang Liu
Summary: Plant height is a crucial agronomic trait in wheat breeding. The identification of a new recessive semi-dwarf gene Rht-SN33d in the semi-dwarf wheat mutant dwarf33 provides valuable insights into wheat height regulation. The mapping of Rht-SN33d to a specific chromosomal interval and the potential candidate gene TraesCS3D02G542800 contribute to expanding our understanding of the genetic basis of plant height in wheat.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Xu Jiang, Zhen Wang, Jing Feng, Ziyi Du, Zhongjun Zhang, Yibin Zhang, Mingzhe Che, Junda Ren, Haiguang Wang, Wei Quan
Summary: A wheat landrace called Qishanmai has been discovered to reduce the severity of stripe rust disease. The QYr.cau-1DL gene in Qishanmai has shown the best performance at the 6th leaf and flag leaf stages. Additionally, the QYr.cau-1DL gene and the Yr18 gene have a synergistic effect, significantly enhancing wheat resistance to stripe rust.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Jian Wang, Hang Liu, Conghao Zhao, Huaping Tang, Yang Mu, Qiang Xu, Mei Deng, Qiantao Jiang, Guoyue Chen, Pengfei Qi, Jirui Wang, Yunfeng Jiang, Shisheng Chen, Yuming Wei, Youliang Zheng, Xiujin Lan, Jian Ma
Summary: This study identified quantitative trait loci (QTL) for flag leaf length, width, area, and the length/width ratio in tetraploid wheat using recombinant inbred lines and a genetic map. A novel and major interval containing QTL for these traits was discovered and successfully verified in different genetic backgrounds. The study also detected and analyzed genetic associations between flag leaf-related traits and other agronomic traits. Several genes within this interval are likely involved in the growth and development of flag leaf size. Overall, this study provides important insights for understanding the genetic basis of flag leaf size and breeding wheat varieties with ideal plant structures.
Article
Plant Sciences
Firdissa E. Bokore, Richard D. Cuthbert, Ron E. Knox, Colin W. Hiebert, Curtis J. Pozniak, Samia Berraies, Yuefeng Ruan, Brad Meyer, Pierre Hucl, Brent D. McCallum
Summary: This study aimed to identify and map the leaf rust resistance of six Canadian Western Red Spring wheat cultivars. Three doubled haploid populations were evaluated for seedling resistance and adult plant disease response and genotyped with a SNP array. Multiple QTL for leaf rust resistance were found in each population, with contributions from different cultivars. The results provide valuable information for resistance breeding and expanding our knowledge of leaf rust resistance genes in Canadian wheat.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Qingguo Wang, Hongchun Xiong, Huijun Guo, Linshu Zhao, Yongdun Xie, Jiayu Gu, Shirong Zhao, Yuping Ding, Luxiang Liu
Summary: In this study, a semi-dwarf mutant jg0030 induced by ?-ray mutagenesis was identified in wheat. The mutant showed a reduced plant height compared to the wild type and exhibited no changes in yield-related traits. The dwarf gene was mapped to a specific region on chromosome 2B using different molecular techniques. This study provides valuable genetic resources and linked markers for wheat improvement in breeding programs.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Mangesh P. Jadhav, Sunil S. Gangurde, Anil A. Hake, Arati Yadawad, Supriya S. Mahadevaiah, Santosh K. Pattanashetti, M. V. Channabyre Gowda, Kenta Shirasawa, Rajeev K. Varshney, Manish K. Pandey, Ramesh S. Bhat
Summary: This study identified 47 main-effect QTLs for productivity and oil quality traits in peanut using a recombinant inbred line population developed from an elite variety and its mutant. Common QTL regions on Ah02 and Ah16 were found to be associated with multiple traits, while epistatic QTL analysis revealed intra- and inter-chromosomal interactions for main-effect QTLs. Genes affected by transposition and functional SNPs were identified as potential candidates for gene cloning and genomics-assisted breeding in peanut.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Agronomy
Hrannar Smari Hilmarsson, Simon Rio, Julio Isidro y Sanchez
Summary: Spring barley is the most important cereal in Iceland and the national breeding program aims to select genotypes adapted to the environment. Genotype by environment interaction was assessed in seven Icelandic environments, showing different responses for yield and thousand-kernel weight based on fertility and temperature gradients. Promising genetic material was identified for both traits, emphasizing the superiority of six-row genotypes for yield.
Article
Genetics & Heredity
Deniz Akdemir, Simon Rio, Julio Sanchez
Summary: This paper introduces an R package, TrainSel, for selecting training populations to address the main barrier of supervised learning in emerging applications. By carefully selecting training examples, the accuracy of predictive models can be improved.
FRONTIERS IN GENETICS
(2021)
Review
Biochemistry & Molecular Biology
Jitendra Kumar, Reyazul Rouf Mir, Safoora Shafi, Debjyoti Sen Gupta, Ivica Djalovic, Jegor Miladinovic, Rahul Kumar, Sachin Kumar, Rajeev Kumar
Summary: Due to climate change, rising temperatures negatively affect cool season grain legumes. Traditional breeding approaches are no longer sufficient to meet global demands, and genomic interventions have played a crucial role in improving legume varieties.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agronomy
Sourabh Kumar, Vivudh Pratap Singh, Dinesh Kumar Saini, Hemant Sharma, Gautam Saripalli, Sachin Kumar, Harindra Singh Balyan, Pushpendra Kumar Gupta
Summary: Meta-QTL analysis identified 85 robust MQTLs related to thermotolerance in wheat, including 7 breeders' MQTLs. In silico expression analysis led to the identification of 182 differentially expressed genes, with 36 high confidence candidate genes known to be important for thermotolerance.
MOLECULAR BREEDING
(2021)
Article
Agronomy
Simon Rio, Deniz Akdemir, Tiago Carvalho, Julio Isidro Y. Sanchez
Summary: In this study, new forms of the coefficient of determination (CD) were proposed to forecast the genomic prediction reliability of genotypes, helping to optimize multi-environment trials. These new CD criteria can be used to predict the performance and mean performance of genotypes in multi-environment trials, especially in the presence of complex pedigree relationships between genotypes.
THEORETICAL AND APPLIED GENETICS
(2022)
Review
Ecology
Jitendra Kumar, Ajay Kumar, Debjyoti Sen Gupta, Sachin Kumar, Ron M. DePauw
Summary: Advancements in genomics tools have led to the discovery of many genes, but their associated functions still need to be characterized. Recent developments in reverse genetic approaches have made it possible to identify the function of genes controlling nutritional and stress-related traits. This article reviews the current status and prospects of using these approaches to breed nutrient-rich and climate resilient cereal and food legume crops.
Article
Agronomy
Pushpendra K. Gupta, Harindra S. Balyan, Parveen Chhuneja, Jai P. Jaiswal, Shubhada Tamhankar, Vinod K. Mishra, Navtej S. Bains, Ramesh Chand, Arun K. Joshi, Satinder Kaur, Harinderjeet Kaur, Gurvinder S. Mavi, Manoj Oak, Achla Sharma, Puja Srivastava, Virinder S. Sohu, Pramod Prasad, Priyanka Agarwal, Moin Akhtar, Saurabh Badoni, Reeku Chaudhary, Vijay Gahlaut, Rishi Pal Gangwar, Tinku Gautam, Vandana Jaiswal, Ravi Shekhar Kumar, Sachin Kumar, M. Shamshad, Anupama Singh, Sandhya Taygi, Neeraj Kumar Vasistha, Manish Kumar Vishwakarma
Summary: Marker-assisted backcross breeding was used to improve the grain protein content, loaf volume, and rust resistance in 11 Indian wheat cultivars. The introduction and combination of high GPC gene, HMW glutenin subunits, and rust resistance genes led to improvements in these traits, although high GPC was often associated with reduced yield. The resulting pre-bred lines have the potential to contribute to the development of wheat cultivars with improved nutritional quality and rust resistance.
MOLECULAR BREEDING
(2022)
Article
Genetics & Heredity
Hemant Sharma, Ritu Batra, Sourabh Kumar, Manoj Kumar, Sachin Kumar, Harindra S. Balyan, Pushpendra K. Gupta
Summary: This study identified 67 genes encoding alpha- and beta-subunits of 20S proteasome in bread wheat and found that they are distributed on different chromosomes. Some of these genes are involved in heat stress and drought tolerance, which can contribute to the development of climate resilient wheat cultivars.
Article
Agronomy
Kalpana Singh, Dinesh Kumar Saini, Gautam Saripalli, Ritu Batra, Tinku Gautam, Rakhi Singh, Sunita Pal, Manoj Kumar, Irfat Jan, Sahadev Singh, Anuj Kumar, Hemant Sharma, Jyoti Chaudhary, Kuldeep Kumar, Sourabh Kumar, Vikas Kumar Singh, Vivudh Pratap Singh, Deepak Kumar, Shiveta Sharma, Sachin Kumar, Rahul Kumar, Shailendra Sharma, Shailendra Singh Gaurav, Pradeep Kumar Sharma, Harindra Singh Balyan, Pushpendra Kumar Gupta
Summary: We have developed an updated and improved version of the wheat QTL database (WheatQTLdb V2.0) that includes information on hexaploid wheat and other related species. The database provides an improved list of QTL and additional options for searching and selecting QTL, making it valuable for research and breeding programs.
MOLECULAR BREEDING
(2022)
Article
Agronomy
Fahimeh Shahinnia, Manuel Geyer, Friederike Schuermann, Sabine Rudolphi, Josef Holzapfel, Hubert Kempf, Melanie Stadlmeier, Franziska Loeschenberger, Laura Morales, Hermann Buerstmayr, Julio Isidro Y. Sanchez, Deniz Akdemir, Volker Mohler, Morten Lillemo, Lorenz Hartl
Summary: Two loci on chromosomes 2BS and 6AL were found to significantly contribute to stripe rust resistance in current European winter wheat germplasm. These findings provide valuable information for the breeding programs aimed at developing rust resistant cultivars. Genomic association analysis identified 12 SNP markers on six wheat chromosomes that consistently showed effects on adult plant stripe rust resistance. Two highly predictive markers on chromosomes 2BS and 6AL were validated in three independent populations, indicating their potential for efficient selection of resistant cultivars.
THEORETICAL AND APPLIED GENETICS
(2022)
Review
Plant Sciences
Vivek Kumar, Hemant Sharma, Lalita Saini, Archasvi Tyagi, Pooja Jain, Yogita Singh, Priyanka Balyan, Sachin Kumar, Sofora Jan, Reyazul Rouf Mir, Ivica Djalovic, Krishna Pal Singh, Upendra Kumar, Vijai Malik
Summary: This study identified 20S proteasome genes in rapeseed and studied their characteristics and expression patterns under various stress conditions. The genes were found to be distributed on all chromosomes of rapeseed and were duplicated on homoeologous chromosomes. Some of these genes showed high expression under abiotic and biotic stress conditions. These findings contribute to our understanding of the organization and function of 20S proteasome genes in rapeseed.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Multidisciplinary Sciences
Sachin Kumar, Ron M. DePauw, Sudhir Kumar, Jitendra Kumar, Sourabh Kumar, Madhav P. Pandey
Summary: Micronutrient malnutrition affects over two billion people worldwide, especially in developing nations. Agronomic and genetic interventions can improve the bioavailability of key micronutrients. The Consultative Group on International Agricultural Research prioritizes the development of biofortified crops rich in minerals and vitamins. 242 biofortified varieties of 11 major crops have been released in 30 countries across Asia, Africa, and Latin America.
ANNALS OF THE NEW YORK ACADEMY OF SCIENCES
(2023)
Article
Plant Sciences
J. Garcia-Abadillo, L. Morales, H. Buerstmayr, S. Michel, M. Lillemo, J. Holzapfel, L. Hartl, D. Akdemir, H. F. Carvalho, J. Isidro-Sanchez
Summary: Fusarium head blight (FHB) is a fungal disease of wheat that causes yield losses and produces mycotoxins. Efficient alternatives to the commonly used Area Under the Disease Progress Curve (AUDPC) metric for evaluating FHB have been identified, with the method capturing the maximum variance in FHB severity across plots being the most optimal approach.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Manoj Kumar, Sachin Kumar, Karansher Singh Sandhu, Neeraj Kumar, Gautam Saripalli, Ram Prakash, Akash Nambardar, Hemant Sharma, Tinku Gautam, Harindra Singh Balyan, Pushpendra Kumar Gupta
Summary: A genome-wide association study and genomic prediction analysis were conducted in wheat to identify genetic markers associated with pre-harvest sprouting tolerance and related traits. The study identified several M-QTNs and E-QTNs, which provided insights into the genetic architecture of PHST and offered resources for wheat breeding.
MOLECULAR BREEDING
(2023)
Article
Biochemistry & Molecular Biology
Hemant Sharma, Shayaba, Rahul Kumar, Jitendra Kumar, Deepa Bhadana, Ritu Batra, Rakhi Singh, Sachin Kumar, Joy K. S. Roy, Harindra K. Balyan, Pushpendra Gupta
Summary: This study analyzed VMT genes in six monocots and three dicots, with a focus on wheat VMT genes (TaVMTs), using the OsVMT gene as a reference. The results showed that each VMT protein carried a functional domain and 7 to 10 distinct motifs (including 9 novel motifs). qRT-PCR analysis demonstrated differential expression of all six TaVMT genes in wheat genotypes with high and low GFe/GZn at two different grain filling stages.
