Article
Multidisciplinary Sciences
Mohammed Ayaad, Zhongmin Han, Kou Zheng, Gang Hu, Mahmoud Abo-Yousef, Sobeih El. S. Sobeih, Yongzhong Xing
Summary: This study investigated the genetic effects of QTL conferring grain appearance quality in rice using SNP-GWAS and bin-GWAS methods. The results showed the potential of identifying superior alleles and improving rice appearance quality through the pyramiding of these alleles.
JOURNAL OF ADVANCED RESEARCH
(2021)
Article
Plant Sciences
Xiuyan Liu, Hong Jiang, Jing Yang, Jiajia Han, Mengxian Jin, Hongsheng Zhang, Liang Chen, Sunlu Chen, Sheng Teng
Summary: In this study, a high-resolution genetic map was constructed for 261 recombinant inbred lines derived from two indica parents. Comprehensive analyses of quantitative trait loci (QTLs) were performed for seven key agronomic traits in rice under two different nitrogen levels. Possible candidate genes for NUE-related QTLs were identified, providing insight into NUE regulation in indica rice.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Carlos Lopez-Ortiz, Umesh K. Reddy, Chong Zhang, Purushothaman Natarajan, Padma Nimmakayala, Vagner Augusto Benedito, Matthew Fabian, John Stommel
Summary: A study was conducted to identify quantitative trait loci (QTLs) associated with anthracnose resistance in tomatoes. Twenty QTLs were identified using traditional mapping and deep sequencing techniques, and several candidate genes underlying these QTLs were validated. The findings provide a foundation for further research in anthracnose resistance breeding in tomatoes.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Derun Huang, Zhenhua Zhang, Yeyang Fan, Shaoqing Tang, Jieyun Zhuang, Yujun Zhu
Summary: Rice is highly sensitive to high-temperature stress, which hinders its yield and quality. In this study, recombinant inbred lines (RILs) derived from two restorer lines were planted in two years, with different sowing dates. Two traits related to high-temperature tolerance, heading date (HD) and spikelet fertility (SF), were measured. QTL analysis revealed several QTL for both traits, including qHD8 in the DTH8/Ghd8 region, which showed the largest genetic effect for HD, and qSF1, qSF2, qSF3.1, qSF3.2, and qSF8, which showed high-temperature tolerance and potential for rice breeding.
Article
Agronomy
Xianming Zhou, Lihong Dai, Pengfei Wang, Ying Liu, Zhaoqi Xie, Haiyan Zhang, Qiang Xin, Lili Wan, Liyong Yang, Guangsheng Yang, Dengfeng Hong
Summary: In this study, a doubled haploid population derived from the elite rapeseed cultivar ZS11 and 195-14A was developed, and a high-density genetic linkage map was constructed using a SNP array. Multiple QTL related to yield and quality traits were identified, with most favorable alleles coming from ZS11. Comparative genomics and expression analysis predicted potential candidate genes underlying these QTL, providing insights for future allele cloning.
Article
Plant Sciences
Jun-jie Dong, Yu-xiang Zeng, Zhi-juan Ji, Yuan Chen, Shu-zhen Wang, Yan Liang, Chang-deng Yang
Summary: This study identified 14 sheath blight resistance loci in 158 rice genotypes through association mapping, showing consistent resistance over a 5-year period. The results demonstrate the potential of pyramiding favorable resistance alleles to improve sheath blight resistance in rice breeding.
PLANT GROWTH REGULATION
(2021)
Article
Plant Sciences
Yutong Liu, Guangdi Yuan, Huan Si, Ying Sun, Zipeng Jiang, Dan Liu, Caihong Jiang, Xuhao Pan, Jun Yang, Zhaopeng Luo, Jianfeng Zhang, Min Ren, Yi Pan, Kefan Sun, He Meng, Liuying Wen, Zhiliang Xiao, Quanfu Feng, Aiguo Yang, Lirui Cheng
Summary: This study identified 43 QTLs associated with agronomic traits in tobacco using linkage mapping and association mapping methods. Three major QTLs were repeatedly identified across different environments. Candidate genes for these major QTLs were predicted and the utilization of one major QTL for improving leaf width in tobacco was investigated.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Huizhen Chen, Laiyuan Zhai, Kai Chen, Congcong Shen, Shuangbing Zhu, Pingping Qu, Jie Tang, Jianping Liu, Haohua He, Jianlong Xu
Summary: This study identified QTL for grain appearance quality in rice using GWAS and LA, and found common QTL and new QTL across different populations. The results demonstrate the significance of genetic background and highlight the effectiveness of the 8way population for QTL mapping.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Zhu-Hao Li, Shi-Lin Wang, Yu-Jun Zhu, Ye-Yang Fan, De-Run Huang, Ai-Ke Zhu, Jie-Yun Zhuang, Yan Liang, Zhen-Hua Zhang
Summary: Grain shape and size in rice are crucial for yield and appearance quality. In this study, the gene OsPUB3 was identified as a key regulator of grain shape and size through knockout and overexpression experiments. The results showed that OsPUB3 controls grain width, weight, and the ratio of length to width in a complex manner. Different functional alleles of OsPUB3 in different rice cultivars were found to cause variations in grain shape. Overall, OsPUB3 is a promising target for improving grain appearance quality through molecular breeding.
Article
Plant Sciences
Shuai Zhi, Wenli Zou, Jinyan Li, Lijun Meng, Jindong Liu, Jingguang Chen, Guoyou Ye
Summary: This study used a MAGIC population constructed using four parental lines and genotyped by a 55 K rice SNP array to determine the QTLs related to Mg2+ uptake and translocation in rice at the seedling stage. Four QTLs were detected for root Mg2+ concentration, three QTLs for shoot Mg2+ concentration, and two QTLs for Mg2+ translocation from roots to shoots. LOC_Os03g04360 was identified as a candidate gene playing important roles in Mg2+ uptake, translocation, and accumulation in rice.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Agronomy
Famao Liang, Wei Zhan, Gang Hu, Hua Liu, Yongzhong Xing, Zhixin Li, Zhongmin Han
Summary: Currently, the effectiveness of QTL mapping depends on the quality of phenotypic data, and the sample size and mapping method also influence the results. Experimental results show that phenotypic data from 5 plants per genotype are sufficient for QTL mapping of traits with high or moderate heritability, and the genotype-based mapping method is more powerful.
MOLECULAR BREEDING
(2022)
Article
Plant Sciences
Dina Abdulmajid, Nour Ali, Moaz S. Eltahawy, Erbao Liu, Xiaojing Dang, Delin Hong
Summary: In this study, favorable alleles for rice coleoptile elongation length sensitivity to exogenous gibberellin were identified by combining phenotypic and genotype data of a large number of rice accessions. These alleles can be used to improve rice cultivation under water-seeded conditions.
JOURNAL OF PLANT GROWTH REGULATION
(2021)
Article
Plant Sciences
Mohamed Abdelrahman, Mahmoud E. Selim, Mahmoud A. ElSayed, Megahed H. Ammar, Fatma A. Hussein, Neama K. ElKholy, Essam A. ElShamey, Naeem Khan, Kotb A. Attia
Summary: In this study, 19 new rice lines were developed through hybridization, showing high yields under water shortage stress conditions. The research demonstrated the effectiveness of direct selection for grain yield under water-shortage stress and identified QTLs related to yield through molecular marker analysis.
Article
Plant Sciences
Nazanin P. P. Afsharyan, Wiebke Sannemann, Agim Ballvora, Jens Leon
Summary: Barley is a widely cultivated cereal that is greatly affected by drought, causing reduction in yield. This study analyzed the genetic factors affecting seven yield-related traits in barley under well-watered and drought conditions. The findings identified several loci and QTLs associated with these traits, including a major flowering time gene and a sucrose transporter gene. These results provide valuable insights for improving barley yield under drought conditions.
Article
Plant Sciences
Daisuke Ogawa, Toshihiro Sakamoto, Hiroshi Tsunematsu, Noriko Kanno, Yasunori Nonoue, Jun-ichi Yonemaru
Summary: The study shows that genetic analysis using high-throughput phenotyping data derived from high-resolution UAV images can provide insights into growth, architecture, biomass, and yield characteristics of rice plants.
JOURNAL OF EXPERIMENTAL BOTANY
(2021)
Article
Multidisciplinary Sciences
Mohammed Ayaad, Zhongmin Han, Kou Zheng, Gang Hu, Mahmoud Abo-Yousef, Sobeih El. S. Sobeih, Yongzhong Xing
Summary: This study investigated the genetic effects of QTL conferring grain appearance quality in rice using SNP-GWAS and bin-GWAS methods. The results showed the potential of identifying superior alleles and improving rice appearance quality through the pyramiding of these alleles.
JOURNAL OF ADVANCED RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Jia Zhang, Xiaowei Fan, Yong Hu, Xiangchun Zhou, Qin He, Liwen Liang, Yongzhong Xing
Summary: The study showed that CCT domain-containing genes play a crucial role in regulating heading date in rice, with functional redundancy observed in certain genes. The diverse and flexible gene combinations of CCT family genes provide potential for generating rice varieties with specific heading dates.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Shan Tang, Hu Zhao, Shaoping Lu, Liangqian Yu, Guofang Zhang, Yuting Zhang, Qing-Yong Yang, Yongming Zhou, Xuemin Wang, Wei Ma, Weibo Xie, Liang Guo
Summary: This study deciphers the genetic basis of seed oil content (SOC) variation in Brassica napus by genome- and transcriptome-wide association studies, identifying genes and gene modules associated with SOC. A gene prioritization framework, POCKET, was implemented to determine causal genes in QTL regions. The study provides valuable genetic resources for improving SOC and understanding the complex machinery of oil accumulation in oil crops.
Article
Biochemistry & Molecular Biology
Shiyu Liao, Ju Yan, Hongkun Xing, Yuan Tu, Hu Zhao, Gongwei Wang
Summary: The study identified significant association loci for vascular bundle variations in rice, with key loci such as Ghd7 and NAL1 influencing the vascular bundles in different parts of the plant. These findings could be valuable for improving the vascular bundle system in rice breeding.
Article
Agronomy
Yong Hu, Xin Zhou, Bo Zhang, Shuangle Li, Xiaowei Fan, Hu Zhao, Jia Zhang, Haiyang Liu, Qin He, Qiuping Li, Mohammed Ayaad, Aiqing You, Yongzhong Xing
Summary: Heading date is an essential agronomic trait in rice regulated by multiple genes, including OsPRR37, which shows a novel function as a promoter of heading date. The study highlights the distinct role of OsPRR37 in regulating heading date and enriches the theoretical foundations for future improvement in rice heading date.
Article
Biotechnology & Applied Microbiology
Zengdong Tan, Zhaoqi Xie, Lihong Dai, Yuting Zhang, Hu Zhao, Shan Tang, Lili Wan, Xuan Yao, Liang Guo, Dengfeng Hong
Summary: This study revealed the genetic structure and breeding history of low seed glucosinolates (SGC) improvement in rapeseed by GWAS and TWAS, identified 15 reliable QTLs associated with reduced SGC in modern cultivars, and highlighted the candidate gene BnaC02.GTR2. Experimental validation showed that BnaC02.GTR2 and its paralogs positively regulate seed glucosinolate accumulation, with implications for seed development and potential for crop improvement.
PLANT BIOTECHNOLOGY JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Guojing Shen, Wei Hu, Xianmeng Wang, Xiangchun Zhou, Zhongming Han, Ahmed Sherif, Mohammed Ayaad, Yongzhong Xing
Summary: This study successfully achieved heterosis in an elite rice hybrid by manipulating major quantitative trait loci. The results suggest that dominance underlying functional complementation is an important contributor to yield heterosis and that manipulating several major dominant heterotic loci can successfully achieve heterosis assembly.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2022)
Review
Multidisciplinary Sciences
Yanfang Du, Bi Wu, Yongzhong Xing, Zuxin Zhang
Summary: This review summarizes the genetic regulatory network controlling inflorescence branching in maize and rice, and provides strategies for utilizing these achievements to improve crop yield. It also suggests a potential regulatory network underlying inflorescence branching and explores the developmental process and genetic regulatory pathways of inflorescence branching.
JOURNAL OF ADVANCED RESEARCH
(2022)
Editorial Material
Biochemistry & Molecular Biology
Haiyang Liu, Zhanyi Zhang, Wenhao Yan, Yongzhong Xing
Article
Plant Sciences
Guofang Zhang, Jinzhi Zhou, Yan Peng, Zengdong Tan, Yuting Zhang, Hu Zhao, Dongxu Liu, Xiao Liu, Long Li, Liangqian Yu, Cheng Jin, Shuai Fang, Jiawei Shi, Zedong Geng, Shanjing Yang, Guoxing Chen, Kede Liu, Qingyong Yang, Hui Feng, Liang Guo, Wanneng Yang
Summary: Salt stress affects the survival and growth of crops, and understanding the genetic resources related to salt stress tolerance in Brassica napus is important. This study quantified the salt stress tolerance of B. napus using a high-throughput phenotyping platform and identified candidate genes associated with salt stress response through genome-wide association study and linkage analysis.
PLANT CELL AND ENVIRONMENT
(2023)
Letter
Biochemistry & Molecular Biology
Zhichao Yu, Yongming Chen, Yong Zhou, Yulu Zhang, Mengyuan Li, Yidan Ouyang, Dmytro Chebotarov, Ramil Mauleon, Hu Zhao, Weibo Xie, Kenneth L. McNally, Rod A. Wing, Weilong Guo, Jianwei Zhang
Article
Biology
Liangqian Yu, Dongxu Liu, Feifan Yin, Pugang Yu, Shaoping Lu, Yuting Zhang, Hu Zhao, Chaofu Lu, Xuan Yao, Cheng Dai, Qing-Yong Yang, Liang Guo
Summary: This study reveals the transcriptional regulation between lipid and phenylpropane accumulation during Brassica napus seed development. Co-expression network analysis and correlation analysis identified candidate genes that may regulate seed oil content.
Review
Biochemistry & Molecular Biology
Yuzhou Yang, Que Kong, Audrey R. Q. Lim, Shaoping Lu, Hu Zhao, Liang Guo, Ling Yuan, Wei Ma
Summary: This article summarizes recent advances in understanding the regulatory mechanisms of plant fatty acid biosynthesis, revealing that plant oil biosynthesis is regulated by developmental and environmental cues, and fine-tunes the spatiotemporal regulation of pathway genes through the interaction of transcriptional activators and repressors.
PLANT COMMUNICATIONS
(2022)
Article
Biotechnology & Applied Microbiology
Zengdong Tan, Yan Peng, Yao Xiong, Feng Xiong, Yuting Zhang, Ning Guo, Zhuo Tu, Zhanxiang Zong, Xiaokun Wu, Jiang Ye, Chunjiao Xia, Tao Zhu, Yinmeng Liu, Hongxiang Lou, Dongxu Liu, Shaoping Lu, Xuan Yao, Kede Liu, Rod J. Snowdon, Agnieszka A. Golicz, Weibo Xie, Liang Guo, Hu Zhao
Summary: This study comprehensively characterizes the gene regulatory features in Brassica napus seeds and reveals the gene networks regulating the seed oil content.
Article
Biotechnology & Applied Microbiology
Yuting Zhang, Hui Zhang, Hu Zhao, Yefan Xia, Xiangbo Zheng, Ruyi Fan, Zengdong Tan, Chenhua Duan, Yansong Fu, Long Li, Jiang Ye, Shan Tang, Honghong Hu, Weibo Xie, Xuan Yao, Liang Guo
Summary: This study provides insights into the genetic basis of seed coat content variation in Brassica napus by utilizing transcriptomic and genomic approaches. Multiple genes and gene modules associated with seed coat content are identified, and the roles of genes such as BnaC07.CCRL and BnaTT8s in regulating lignin biosynthesis and seed coat development are elucidated. This study not only enhances our understanding of the complex machinery of seed coat development but also provides genetic resources for improving seed coat content in Brassica napus breeding.