Article
Biochemistry & Molecular Biology
Yanzhi Feng, Chaowei Yang, Jiajia Zhang, Jie Qiao, Baoping Wang, Yang Zhao
Summary: This study constructed high-quality chromosomal genome sequences of Paulownia fortunei using hybrid assembly and whole-genome resequencing. A high-density genetic map was obtained, and 73 QTLs related to important phenotypic traits were identified. These results not only enrich the genomic data of P. fortunei but also provide a solid foundation for fine QTL mapping and key marker/gene mining.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Xiaolei Wang, Lingfeng Li, Xiaotang Sun, Jie Xu, Linjuan Ouyang, Jianmin Bian, Xiaorong Chen, Weixing Li, Xiaosong Peng, Lifang Hu, Yicong Cai, Dahu Zhou, Xiaopeng He, Junru Fu, Haihui Fu, Haohua He, Changlan Zhu
Summary: The study detected quantitative trait loci (QTLs) for panicle apical abortion (PAA) in rice using chromosome segment substitution lines (CSSLs), identifying a novel major effector QTL, qPAA7. The research provides a foundation for further cloning and functional characterization of the target gene from this locus.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Kunjiang Yu, Yuqi He, Yuanhong Li, Zhenhua Li, Jiefu Zhang, Xiaodong Wang, Entang Tian
Summary: This study used a population of recombined inbred lines of Brassica napus to investigate the genetics of seed germination, uncovering a novel major QTL regulating germination. Transcriptome analysis revealed differences in metabolic pathways such as sugar, protein, lipid, and amino acid metabolism between the high germination rate variety 'Holly' and other varieties.
Article
Plant Sciences
Qing Meng, Zhiyuan Liu, Chunda Feng, Helong Zhang, Zhaosheng Xu, Xiaowu Wang, Jian Wu, Hongbing She, Wei Qian
Summary: In this study, a major quantitative trait locus (QTL) related to early bolting in spinach was identified, and two candidate genes associated with flowering regulatory pathways were proposed. This research provides a basis for understanding the molecular mechanisms of bolting in spinach.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Su-Kui Jin, Li-Na Xu, Qing-Qing Yang, Ming-Qiu Zhang, Shui-Lian Wang, Ruo-An Wang, Tao Tao, Lian-Min Hong, Qian-Qian Guo, Shu-Wen Jia, Tao Song, Yu-Jia Leng, Xiu-Ling Cai, Ji-Ping Gao
Summary: In this study, high-resolution QTL mapping was conducted to identify the genetic regions responsible for rice grain quality traits. A total of 15 QTLs were identified, including one overlapping with previously reported QTLs and the others being novel. These findings will facilitate the fine mapping and pyramiding of these QTLs, leading to genetic improvement of rice grain quality.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Sanjeev Kumar Dhungana, Ji-Hee Park, Jae-Hyeon Oh, Beom-Kyu Kang, Jeong-Hyun Seo, Jung-Sook Sung, Hong-Sik Kim, Sang-Ouk Shin, In-Youl Baek, Chan-Sik Jung
Summary: This study identified 10 QTLs for drought tolerance in soybean using a recombinant inbred line population developed from a cross between a drought-tolerant and a susceptible cultivar. The QTLs were found on seven chromosomes, with some overlapping or located close to previously reported related QTLs and/or potential candidate genes. These QTLs and closely linked markers could be used in marker-assisted selection to accelerate breeding for drought tolerance in soybean.
Article
Plant Sciences
Wanli Han, Jieyin Zhao, Xiaojuan Deng, Aixing Gu, Duolu Li, Yuxiang Wang, Xiaoshuang Lu, Qianli Zu, Qin Chen, Quanjia Chen, Jinfa Zhang, Yanying Qu
Summary: This study identified nine quantitative trait loci (QTLs) for resistance to FOV7 in cotton. Through comparative analysis of gene expression and DNA sequences, a candidate gene (GB_D03G0217) associated with FOV7 resistance was identified.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Multidisciplinary Sciences
Ya-Ching Chou, Ming-Jer Chen, Pi-Hua Chen, Ching-Wen Chang, Mu-Hsien Yu, Yi-Jen Chen, Eing-Mei Tsai, Shih-Feng Tsai, Wun-Syuan Kuo, Chii-Ruey Tzeng
Summary: This study identified novel genetic variants associated with susceptibility to endometriosis in a Taiwanese population through genome-wide association study and replication, while also observing eQTL related to the expression of the INTU gene. The findings suggest that these genetic variants may impact the risk of endometriosis in the Taiwanese population.
SCIENTIFIC REPORTS
(2021)
Article
Agricultural Engineering
Mengna Yu, Rui Zhang, Yajun Liu, Yuan Gu, Guoxia Shang, Yonghai Fan, Miao Liu, Shengting Li, Yuqiao Tang, Chuanfang Wan, Xuli Wu, Cunmin Qu, Jiana Li, Kun Lu
Summary: This study identified a stem bending 1 (stb1) mutant in rapeseed with abnormal stem development and conducted phenotype characterization, genetic analysis, quantitative trait locus mapping, and transcriptome analysis to elucidate the molecular mechanisms involved. The down-regulated genes in the mutant were mainly related to auxin transport and coenzyme metabolism processes, suggesting defects in polar auxin transport as a potential cause for the phenotype of the stb1 mutant. These findings lay a foundation for further investigation into the molecular mechanisms of stem development in rapeseed.
INDUSTRIAL CROPS AND PRODUCTS
(2022)
Article
Agronomy
Jiwei Zhang, Wanglong Li, Peng Lv, Xin Yang, Wang Xu, Xianlin Ni, Hui Feng, Ganlin Zhao, Mei Pu, Shixin Zhou, Zhixue Zhao, Ling Li, Yanyan Huang, Jing Fan, Yan Li, Jianqing Zhu, Guoqing Liu, Wenming Wang
Summary: The study identified genes underlying aphid resistance in sorghum through whole-genome resequencing and transcriptome analysis of resistant and susceptible breeding materials. Four QTLs on chromosome 6 were discovered, along with differentially expressed genes associated with plant stress resistance. A SNP marker with potential for marker-assisted selection to improve aphid resistance in sorghum was also identified.
Article
Agronomy
Edward Mwando, Tefera Tolera Angessa, Yong Han, Gaofeng Zhou, Chengdao Li
Summary: The study demonstrated significant impacts of salinity stress on survival traits of barley seedlings, particularly showing pronounced effects on shoot length and seedling vigour index length. QTL analysis revealed multiple genetic loci associated with salinity tolerance, some of which may potentially harbor candidate genes with functional significance.
Article
Microbiology
Abdelraheem Abdelraheem, Yi Zhu, Jinfa Zhang
Summary: This study identified significant genotypic variations for FOV4 resistance in 163 recombinant inbred lines (RILs) of Pima cotton. Five and four quantitative trait loci (QTL) on six chromosomes were detected in two replicated tests, with three QTL in common between the two tests. The heritability estimate for FOV4 resistance was 0.65, indicating a considerable genetic contribution to the phenotypic variation.
Article
Plant Sciences
Xiaohui Zhang, Xiang Li, Huining Li, Zhuanrong Wang, Rui Xia, Jin Hu, Pengfei Wang, Xianming Zhou, Lili Wan, Dengfeng Hong, Guangsheng Yang
Summary: Improving sclerotinia stem rot (SSR) resistance in rapeseed faces three challenges: limited investigation of breeding materials, linkage between SSR resistance and flowering time, and neglect of resistance loci in susceptible materials. This study mapped multiple QTLs for stem resistance, disease index, and flowering time in a doubled haploid population, and proposed a strategy for resistance improvement based on identified QTLs.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Zhijun Tong, Zhihui Xiu, Yao Ming, Dunhuang Fang, Xuejun Chen, Yafei Hu, Juhong Zhou, Weiming He, Fangchan Jiao, Chi Zhang, Shancen Zhao, Han Jin, Jianbo Jian, Bingguang Xiao
Summary: A genetic map containing 45,081 SNP markers was constructed using whole-genome sequencing data for a tobacco population. QTLs associated with important traits in tobacco were identified, providing insights for molecular breeding applications. BayesB showed the highest prediction accuracy for the recombinant inbred line population in genomic selection models.
PLANT BIOTECHNOLOGY REPORTS
(2021)
Article
Agronomy
Nan Su San, Kazuya Soda, Yosuke Ootsuki, Masahiro Yamashita, Ryoji Karimata, Kasumi Suzuki, Shunsuke Adachi, Toshio Yamamoto, Takanari Tanabata, Tadamasa Ueda, Taiichiro Ookawa, Tadashi Hirasawa
Summary: Improving canopy architecture is a practical way to boost rice productivity, but the genetic control of this trait in rice cultivars is not well understood. Research showed that specific alleles from the high-yielding indica cultivar Takanari contributed to increased dry matter production and leaf inclination angle (LIA) in rice plants, while no corresponding alleles were found in the less productive japonica cultivar Koshihikari. The study also identified multiple quantitative trait loci (QTLs) that could potentially enhance LIA and dry matter production in rice plants.
FIELD CROPS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Jiaojiao Ren, Nicholas A. Boerman, Ruixiang Liu, Penghao Wu, Benjamin Trampe, Kimberly Vanous, Ursula K. Frei, Shaojiang Chen, Thomas Lubberstedt
Article
Agronomy
Stephanie M. Coffman, Matthew B. Hufford, Carson M. Andorf, Thomas Lubberstedt
THEORETICAL AND APPLIED GENETICS
(2020)
Article
Biochemical Research Methods
Liya Wang, Zhenyuan Lu, Michael Regulski, Yinping Jiao, Junping Chen, Doreen Ware, Zhanguo Xin
Summary: The BSAseq workflow is an efficient method for identifying potential phenotypic gene mutations. By sequencing the parental line at high accuracy to capture background mutations, true causal mutations were successfully identified in multiple bulked F2 samples.
Article
Agronomy
Jeffery L. Gustin, Ursula K. Frei, John Baier, Paul Armstrong, Thomas Lubberstedt, A. Mark Settles
Article
Agronomy
Supaporn Sukto, Khomsorn Lomthaisong, Jirawat Sanitchon, Sompong Chankaew, Shanerin Falab, Thomas Lubberstedt, Kamol Lertrat, Khundej Suriharn
Summary: The study focused on improving small-ear waxy corn populations for prolificacy, high carotenoid content, and resistance to downy mildew. After three cycles of modification, two populations were selected for their resistance to downy mildew and high productivity.
Article
Plant Sciences
Claudio Cropano, Chloe Manzanares, Steven Yates, Dario Copetti, Javier Do Canto, Thomas Lubberstedt, Michael Koch, Bruno Studer
Summary: The study identified a locus causing self-compatibility in perennial ryegrass, mapped to LG 5 through low-resolution and fine mapping, providing diagnostic markers for introgressing self-compatibility into elite germplasm of forage grasses.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Agronomy
Abil Dermail, Aphakorn Fuengtee, Kamol Lertrat, Willy Bayuardi Suwarno, Thomas Lubberstedt, Khundej Suriharn
Summary: This study performed multi-trait selection to identify sweet-waxy corn hybrids that meet the preferences of consumers, growers, and seed producers. The results showed that both the unweighted selection index and overall rank-sum index methods were effective in ranking genotypes based on given selection criteria.
Article
Plant Sciences
Qinghui Han, Qingxiang Zhu, Yao Shen, Michael Lee, Thomas Luebberstedt, Guangwu Zhao
Summary: Chilling injury is a serious threat to seed emergence of spring-sowing maize in China. In this study, QTL analysis and RNA-Seq technology were used to identify key genes controlling low-temperature germination in maize. Several candidate genes related to low-temperature tolerance were discovered, providing a theoretical basis for marker-assisted breeding and understanding the molecular mechanism of low-temperature germination tolerance in maize.
Article
Plant Sciences
Abil Dermail, Sompong Chankaew, Kamol Lertrat, Thomas Luebberstedt, Khundej Suriharn
Summary: This study introduced haploid inducers suitable for tropical savanna climate regions, showing positive genetic gains in inducer seed set and R1-nj anthocyanin marker expression through a modified ear-to-row selection, but with low effectiveness in improving haploid induction rate.
Article
Plant Sciences
Leandro Tonello Zuffo, Rodrigo Oliveira DeLima, Thomas Lubberstedt
Summary: Combining maize association panels with different genetic backgrounds can improve the efficiency of identifying candidate genes associated with root traits. In this study, the combined panel successfully identified SNPs associated with root traits and showed higher prediction accuracy compared to using individual panels.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Plant Sciences
Benjamin Trampe, Grigorii Batiru, Arthur Pereira da Silva, Ursula Karoline Frei, Thomas Lubberstedt
Summary: This study evaluated the phenotypic variation for inducibility (IND) in a mapping population of temperate inbred lines to identify regions in the maize genome associated with IND. In total, four QTL were detected, explaining 37.4% of the phenotypic variance. The joint analysis revealed QTL x location interactions, indicating that minor QTL control IND and are influenced by the environment.
Article
Plant Sciences
Henrique Uliana Trentin, Grigorii Batiru, Ursula Karoline Frei, Somak Dutta, Thomas Lubberstedt
Summary: The doubled haploid technology is a feasible and cost-efficient way to produce completely homozygous lines in maize, with factors such as haploid induction rate, donor background, and environmental conditions contributing to its success. Different genetic backgrounds showed varied haploid induction rates in different environments, with poor-performing donors possibly affected by anthocyanin inhibitor genes.
Article
Plant Sciences
Paepan Sintanaparadee, Abil Dermail, Thomas Lubberstedt, Kamol Lertrat, Sompong Chankaew, Vinitchan Ruanjaichon, Nittaya Phakamas, Khundej Suriharn
Summary: This study investigated the seasonal variation of tropical savanna climate and its impact on agronomic traits and haploid induction rate of haploid inducer lines. The results showed that the dry season was more suitable for haploid induction and maintenace, and haploid inducers performed better during this season.
Article
Plant Sciences
Henrique Uliana Trentin, Recep Yavuz, Abil Dermail, Ursula Karoline Frei, Somak Dutta, Thomas Lubberstedt
Summary: The effectiveness of haploid induction systems depends on high haploid induction rate (HIR) and resource savings. An isolation field approach for hybrid induction is proposed. The success of efficient haploid production relies on inducer traits such as high HIR, abundant pollen production, and tall plants. Evaluation of seven hybrid inducers and their respective parents showed that mid-parent heterosis benefited plant height, ear height, and tassel size. Two promising hybrid inducers, BH201/LH82-Ped126 and BH201/LH82-Ped128, were identified for haploid induction in isolation fields. Hybrid inducers offer convenience and resource-effectiveness by improving plant vigor without compromising HIR.
Article
Plant Sciences
Siddique I. Aboobucker, Liming Zhou, Thomas Lubberstedt
Summary: Doubled haploid technology is an efficient method for accelerating plant breeding, with key steps involving haploid induction and doubled haploid production from fertile haploid plants. The lack of haploid male fertility has been a major limitation, but this study showcases that mutations in parallel spindle genes can overcome this limitation in Arabidopsis, restoring haploid male fertility without affecting haploid female fertility.