Article
Plant Sciences
T. S. Aruna, Arpita Srivastava, Bhoopal Singh Tomar, Tusar Kanti Behera, Hari Krishna, Pradeep Kumar Jain, Renu Pandey, Bhupinder Singh, Ruchi Gupta, Manisha Mangal
Summary: This study investigates the genetic mechanisms underlying heat tolerance in hot peppers through the crossbreeding of two genotypes with contrasting heat tolerance characteristics. Phenotypic analysis of the F-2 population and parental lines under high-temperature conditions revealed the presence of 64 significant QTLs affecting heat tolerance. The identified QTLs and SSR markers provide valuable insights for the development of heat-tolerant varieties.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Carmen Santos, Davide Coelho Martins, Maria Jose Gonzalez-Bernal, Diego Rubiales, Maria Carlota Vaz Patto
Summary: In this study, a combination of phenotyping, gene expression, and linkage mapping was used to prioritize four candidate genes relevant for disease-resistance precision breeding in Lathyrus cicera. These genes are involved in adaptation to biotic stress, cellular and organelle homeostasis, and proteins directly involved in plant defense.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Genetics & Heredity
Hector Lopez-Moreno, Ana Celia Basurto-Garduno, Maria Alejandra Torres-Meraz, Eric Diaz-Valenzuela, Sergio Arellano-Arciniega, Juan Zalapa, Ruairidh J. H. Sawers, Angelica Cibrian-Jaramillo, Luis Diaz-Garcia
Summary: This study identified new genomic regions associated with domestication traits in chili peppers, including fruit shape, seedlessness, and growth habit. These findings contribute to the understanding of the genetic basis of Capsicum domestication and can guide strategies for the conservation and improvement of genetic resources.
FRONTIERS IN GENETICS
(2023)
Article
Plant Sciences
Xinwei Hou, Senan Cheng, Shukai Wang, Ting Yu, Yancui Wang, Pingping Xu, Xitong Xu, Qi Zhou, Xuetong Hou, Guobin Zhang, Cuixia Chen
Summary: Stalk strength is an important trait in maize, affecting lodging resistance and harvestable yield. In this study, populations derived from the cross of two inbred lines were used to map quantitative trait loci (QTL) for rind penetrometer resistance (RPR). Fourteen RPR QTLs were identified and two major QTLs were narrowed down using fine-mapping strategy. Twelve candidate genes were identified for one of the QTLs. These findings contribute to molecular breeding for RPR in maize.
FRONTIERS IN PLANT SCIENCE
(2022)
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
Yu Lin, Qing Wang, Hao Chen, Ning Yan, Fangkun Wu, Zhiqiang Wang, Caixia Li, Yaxi Liu
Summary: This study evaluated the resistance to Fusarium crown rot (FCR) in a collection of 286 A. tauschii accessions and identified five accessions with moderate resistance. Genome-wide association mapping revealed multiple significant SNPs on chromosomes 2D and 7D associated with FCR resistance. The resistance loci were independent of flowering time, heading date, and plant height. Six candidate genes encoding disease resistance-related proteins were selected for further validation.
FRONTIERS IN PLANT SCIENCE
(2022)
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
Tengyue Wang, Kaiji Wang, Chuanhong Wang, Yibing Zhao, Zhen Tao, Junyao Li, Lei Wang, Jian Shi, Shijie Huang, Chuanxiao Xie, Peijin Li
Summary: In this study, a stable QTL, qRTA6, was identified on chromosome 6, which explained 40.12-55.17% of the phenotypic variation in maize resistance to aphids. Transcriptome and metabolome analysis revealed three candidate genes associated with hypersensitive response, jasmonic acid pathway, and protein ubiquitination. Additionally, differentially expressed genes and metabolites were found to be enriched in flavonoid biosynthesis. These findings improve our understanding of the molecular mechanisms controlling aphid resistance in maize.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Horticulture
Soo-Young Chae, Kwanuk Lee, Jae-Wahng Do, Sun-Cheul Hong, Kang-Hyun Lee, Myeong-Cheoul Cho, Eun-Young Yang, Jae-Bok Yoon
Summary: In this study, QTL analysis was performed to identify genetic loci and alleles that play a crucial role in resistance to bacterial wilt (BW) in pepper plants. A genetic linkage map was constructed and a QTL on chromosome 01 was identified. These findings are valuable for developing SNP markers associated with BW resistance and breeding elite BW-resistant pepper cultivars.
Article
Plant Sciences
Anuj Sharma, Jian Li, Rebecca Wente, Gerald V. Minsavage, Upinder S. Gill, Arturo Ortega, C. Eduardo Vallejos, John P. Hart, Brian J. Staskawicz, Michael R. Mazourek, Robert E. Stall, Jeffrey B. Jones, Samuel F. Hutton
Summary: The objective of this study was to map the bs5 and bs6 loci in the pepper genome. Through crossing experiments, segregating populations were developed for bs5 and bs6, and their fine mapping showed that bs5 is located within a 535 Kbp interval on chromosome 3, and bs6 is located within a 666 Kbp interval on chromosome 6. By analyzing predicted protein coding polymorphisms, 14 candidate resistance genes for bs5 and 8 candidate resistance genes for bs6 were identified. This research enhances marker-assisted selection and provides insight into the molecular mechanisms underlying these resistances.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Huaijun Tang, Renyu Zhang, Min Wang, Xiaoqing Xie, Lei Zhang, Xuan Zhang, Cheng Liu, Baocheng Sun, Feng Qin, Xiaohong Yang
Summary: Maize grain yield can be greatly reduced when flowering time coincides with drought conditions, due to delayed silking. In this study, 16 quantitative trait loci (QTL) related to flowering time traits were identified in a maize-teosinte introgression population. Six of the QTL were found to be sensitive to drought stress, indicating the complex genetic nature of drought resistance in maize. Through colocalization analysis, 11 candidate genes were identified, five of which were found to be differentially expressed in response to drought stress or under selection during maize domestication.
MOLECULAR BREEDING
(2023)
Article
Plant Sciences
Xuejun Zhang, Yueming Ling, Wenli Yang, Minghua Wei, Zhenzhu Wang, Meihua Li, Yong Yang, Bin Liu, Hongping Yi, Yang-Dong Guo, Qiusheng Kong
Summary: This study constructed two F-2 populations using the DM-resistant accession PI 442177 and mapped QTLs conferring DM resistance. A high-density genetic map was generated and a major QTL DM9.1 was consistently detected at different growth stages. QTL-seq analysis validated the presence of DM9.1 and a KASP marker co-segregating with DM9.1 was successfully developed, providing valuable information for DM-resistant gene cloning and melon DM-resistant breeding programs.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Qiong Yan, Guoyun Jia, Wenjing Tan, Ran Tian, Xiaochen Zheng, Junming Feng, Xiaoqin Luo, Binfan Si, Xin Li, Kebing Huang, Meinan Wang, Xianming Chen, Yong Ren, Suizhuang Yang, Xinli Zhou
Summary: This study identified nine quantitative trait loci (QTLs) for stripe rust resistance in a wheat population derived from the cross between PI 660122 and Zhengmai 9023. One major QTL on chromosome 4DS explained the highest percentage of phenotypic variation. These QTLs can be utilized for wheat breeding to improve resistance to stripe rust.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Kai Su, Wei Zhao, Hong Lin, Changyue Jiang, Yuhui Zhao, Yinshan Guo
Summary: This study conducted QTL mapping for grape gray mold resistance based on two hybrid offspring populations. Two stable QTL related to gray mold resistance were detected on the LG2 and LG7 chromosomes. Through RNA sequencing, a structural gene VlEDR2 and three transcription factors VlERF039, VlNAC047, and VlWRKY51 were identified as potential candidates involved in VlEDR2 expression and grape gray mold resistance. These candidate resistance genes will provide an important theoretical reference for future research and breeding of gray mold-resistant grape cultivars.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Sara Louriki, Sajid Rehman, Samira El Hanafi, Yassine Bouhouch, Muamar Al-Jaboobi, Ahmed Amri, Allal Douira, Wuletaw Tadesse
Summary: This study aimed to identify sources of resistance to Septoria tritici blotch in wheat, using a panel of breeding lines from ICARDA, and to identify loci associated with resistance using genome-wide association mapping. The study found several resistant genotypes and identified quantitative trait loci (QTL) for resistance at both seedling and adult plant stages. The QTL for adult plant stage resistance explained a significant proportion of phenotypic variance, which will be valuable for STB resistance breeding.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Plant Sciences
Eleni Koseoglou, Jan M. van der Wolf, Richard G. F. Visser, Yuling Bai
Summary: Plants have developed complex defense mechanisms to resist pathogens, but pathogens can use effector proteins to manipulate plant susceptibility genes, rendering defenses ineffective. Identification and mutation of plant susceptibility genes utilized by bacterial pathogens are crucial for breeding durable and broad-spectrum resistant crops. New genome editing technologies offer new possibilities for modifying susceptibility genes.
TRENDS IN PLANT SCIENCE
(2022)
Article
Agronomy
Aina E. Prinzenberg, Hanneke van der Schoot, Olivier van Deth, Theoharis Ouzounis, Suzan Gabriels, Fien Meijer-Dekens, Leo F. M. Marcelis, Richard G. F. Visser, Ep Heuvelink, Henk J. Schouten
Summary: There are differences in growth between tomato plants grown under LED and HPS light. However, it is unclear if breeding specifically for LED supplemental light is worthwhile. In this study, tomato populations were grown under HPS or 95% red and 5% blue LED light. The results showed that LED supplemental lighting led to reduced plant height and side shoot size in all populations. Adult plants under LED had shorter internode lengths, fewer trusses, fruits, and lower yield of ripe fruits per plant compared to HPS. However, including unripe fruits in the yield calculation eliminated the difference between HPS and LED, indicating that plants under LED were compact and slower in development but still produced similar yield.
Article
Biochemistry & Molecular Biology
J. G. A. M. L. Uitdewilligen, A. M. A. Wolters, H. J. van Eck, R. G. F. Visser
Summary: Association analysis identified specific StGWD alleles that cause an increase or decrease in starch phosphate content in potatoes, and this was confirmed in diploid and tetraploid mapping populations. The study also revealed the genetic diversity in phosphate content among different potato varieties and provided insights into the breeding history of elite potato germplasm.
PLANT MOLECULAR BIOLOGY
(2022)
Article
Agronomy
Aina E. Prinzenberg, Hanneke Schoot, Richard G. F. Visser, Leo F. M. Marcelis, Ep Heuvelink, Henk J. Schouten
Summary: This study found that the severity of intumescence in tomato plants is highly dependent on genotype, with a high heritability. QTLs for intumescence were identified at chromosomal positions, and these QTLs are consistent among different populations. Environmental factors such as light spectrum have no significant influence on intumescence score, but there is a low negative correlation with multiple aspects of plant performance.
Article
Cell Biology
Guglielmo Puccio, Antonino Crucitti, Antonio Tiberini, Antonio Mauceri, Anna Taglienti, Antonio Palumbo Piccionello, Francesco Carimi, Martijn van Kaauwen, Olga Scholten, Francesco Sunseri, Ben Vosman, Francesco Mercati
Summary: This study provides a detailed molecular analysis of the dormancy process in onion. The presence of onion yellow dwarf virus alters the dormancy state and the molecular mechanisms involved in dormancy regulation were investigated. The WRKY-TF family, ABA, GAs, IAA, and BRs were identified as key players in the dormancy release of onion.
Article
Agronomy
Efstathios Roumeliotis, Bjorn Kloosterman, Marian Oortwijn, Wouter Kohlen, Harro J. Bouwmeester, Christian W. B. Bachem, Richard G. F. Visser
Summary: This study investigates the effects of altered auxin content on potato development by cloning and overexpressing the StYUCCA8 gene. The transgenic plants exhibited increased shoot and stolon branching, reduced leaf size, lower average tuber fresh weight, and enhanced adventitious and lateral root formation. Despite the high expression of the StYUCCA8 gene, the concentration of auxin was not altered in the shoot apex but significantly lower in the basal part of the stem.
Article
Biochemical Research Methods
Roeland E. Voorrips, Giorgio Tumino
Summary: This study presents a new method to reconstruct haplotypes from SNP dosages derived from genotyping arrays in polyploids. The method shows higher accuracy compared to existing software, especially in the presence of full-sib families. The results demonstrate the usefulness of this method in polyploid genetic analysis.
BMC BIOINFORMATICS
(2022)
Article
Agronomy
Jorge Aleman-Baez, Jian Qin, Chengcheng Cai, Chunmei Zou, Johan Bucher, Maria-Joao Paulo, Roeland E. Voorrips, Guusje Bonnema
Summary: Correlations between the morphological traits of cabbage rosette leaves and heads were identified, and 50 robust quantitative trait loci (QTLs) were found through genome-wide association studies. Half of these loci affect both organs. This study provides valuable insights into the relationship and genetic basis of leaf development and leafy head formation in cabbage.
THEORETICAL AND APPLIED GENETICS
(2022)
Review
Genetics & Heredity
Faisal Saeed, Usman Khalid Chaudhry, Ali Raza, Sidra Charagh, Allah Bakhsh, Abhishek Bohra, Sumbul Ali, Annapurna Chitikineni, Yasir Saeed, Richard G. F. Visser, Kadambot H. M. Siddique, Rajeev K. Varshney
Summary: Climate change directly impacts the yield of vegetables through rising temperatures. Breeding for climate-resilient crops requires significant time and effort, but advancements in omics technologies have improved the efficiency of identifying pathways for high-temperature stress resilience in vegetable crops. Genomics-assisted breeding, gene editing, and speed breeding offer new approaches to develop temperature-resilient vegetables more efficiently. This review discusses the effects of heat stress on vegetables and highlights the use of omics and genome editing in producing temperature-resilient vegetables.
FUNCTIONAL & INTEGRATIVE GENOMICS
(2023)
Article
Agronomy
Peter G. Vos, M. Joao Paulo, Peter M. Bourke, Chris A. Maliepaard, Fred A. van Eeuwijk, Richard G. F. Visser, Herman J. van Eck
Summary: Genome-wide association studies (GWAS) are a valuable tool for understanding the genetic architecture of complex traits, but careful interpretation is required. This study identified multiple quantitative trait loci (QTL) associated with steroidal glycoalkaloid (SGA) accumulation in potato tubers, but also highlighted challenges and pitfalls in GWAS analyses, with population structure being the most important factor. The study also revealed that introgression breeding has introduced new haplotypes associated with higher SGA levels in certain pedigrees.
MOLECULAR BREEDING
(2022)
Article
Agronomy
Corentin R. Clot, Xulan Wang, Joey Koopman, Alejandro Therese Navarro, Johan Bucher, Richard G. F. Visser, Richard Finkers, Herman J. van Eck
Summary: The reinvention of potato as a diploid hybrid crop requires understanding of mutational load, recombination landscape, and genetic basis of fertility. In this study, the OutcrossSeq pipeline was implemented in R for analyzing a large diploid potato population. This pipeline allowed for marker inference, linkage map construction, and QTL mapping, leading to new insights for diploid potato breeding.
Article
Agronomy
Eleni Koseoglou, Matthijs Brouwer, Derek Mudadirwa, Jan M. van der Wolf, Richard G. F. Visser, Yuling Bai
Summary: Research indicates that tolerance to Clavibacter michiganensis (Cm) in tomatoes is controlled by multiple loci, with a major locus located on chromosome 7. However, further investigation reveals that in addition to chromosome 7, there are also other loci on chromosomes 2 and 4 associated with tolerance to Cm.
Article
Genetics & Heredity
Corentin R. Clot, Dennis Klein, Joey Koopman, Cees Schuit, Christel J. M. Engelen, Ronald C. B. Hutten, Matthijs Brouwer, Richard G. F. Visser, Martina Juranic, Herman J. van Eck
Summary: The balanced segregation of homologous chromosomes is crucial for fertility during meiosis. A reduction in crossover (CO) number can lead to unpaired chromosomes and the production of unbalanced, sterile gametes. However, if combined with another meiotic alteration, it can result in uniform, non-recombinant gametes. In potato, a recessive trait known as CO shortage has been mapped to chromosome 8. This study has identified StMSH4 as a candidate gene for CO shortage and discovered nonfunctional alleles in potato cultivars, providing breeders with options for improving fertility or producing uniform gametes.
Article
Plant Sciences
Emily M. S. Ter Steeg, Paul C. Struik, Richard G. F. Visser, Pim Lindhout
Summary: This article analyzes how biological and economic factors determine whether a commercial plant breeder will choose a hybrid breeding system, highlighting the cost of seed production as a key factor. It emphasizes the effectiveness of hybrid breeding in crop genetic improvement, but also points out that high seed production costs are the main hindrance to its commercial application.
Article
Horticulture
Naser Askari, Sasan Aliniaeifard, Richard G. F. Visser
Summary: CO2 starvation in tissue culture has a negative impact on the growth of regenerated plantlets, with or without sucrose in the medium, indicating that reduced CO2 concentrations in vitro result in disrupted photosynthesis functionality and the generation of reactive oxygen species.
