Article
Fisheries
Jiamin Guo, Anqi Wang, Siqi Mao, Xiaoyan Xu, Jiale Li, Yubang Shen
Summary: This study constructed the first high-density genetic linkage map of black carp and identified QTL related to growth traits. The map provides valuable genomic resources for understanding economically important traits in black carp and can be used for comparative genomics and evolutionary studies.
Article
Fisheries
Xinghua Lin, Jiru Tan, Yijun Shen, Binlan Yang, Yulei Zhang, Yu Liao, Beibei Wang, Dayan Zhou, Guangli Li, Changxu Tian
Summary: In this study, a high-density genetic linkage map of Hong Kong catfish (Clarias fuscus) was generated using high-throughput sequencing. Sex-linked SNP loci and a sex-determining interval were identified, providing important tools and methodological guidance for sex control technology in breeding C. fuscus.
Article
Plant Sciences
Xiaopeng Hao, Tao Yang, Yan Wang, Rong Liu, Xue Dong, Jiandong Zhao, Jucai Han, Xuxiao Zong, Jianwu Chang, Huiping Liu
Summary: A high-density genetic linkage map of grasspea was developed, providing valuable information for understanding the grasspea genome and accelerating selective breeding.
Article
Plant Sciences
Wenhua Liang, Hongyang Du, Bingwen Pang, Junjie Cheng, Bing He, Fengqin Hu, Yuanda Lv, Yadong Zhang
Summary: This study conducted a preliminary investigation of the genes related to anaerobic germination in rice seeds using high-density genetic mapping and QTL analysis. Many QTLs associated with coleoptile size and morphology were identified, and 31 candidate genes were identified. Furthermore, aggregation effect analysis revealed that individuals with more aggregation synergistic alleles had higher phenotypic values in different environments.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Na Zhao, Dong Xue, Yamei Miao, Yongqiang Wang, Enqiang Zhou, Yao Zhou, Mengnan Yao, Chunyan Gu, Kaihua Wang, Bo Li, Libin Wei, Xuejun Wang
Summary: In this study, an ultra-dense genetic map of faba bean was constructed using next-generation sequencing genotyping platform. A total of 65 QTLs for seed-related traits and 333 candidate genes were identified. These findings have significant implications for marker-assisted breeding and improvement of the faba bean genome.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biotechnology & Applied Microbiology
Qiaomu Hu, Yang Liu, Xiaolin Liao, Haifeng Tian, Xiangshan Ji, Jiajie Zhu, Hanbing Xiao
Summary: A high-density genetic linkage map of the Chinese giant salamander Andrias davidianus was constructed using ddRAD sequencing technology, revealing three sex-related loci. This map provides a valuable tool for future genomic studies and marker-assisted breeding efforts for this species.
Article
Plant Sciences
Yandi Wu, Yong Wang, Xiucai Fan, Ying Zhang, Jianfu Jiang, Lei Sun, Qiangwei Luo, Feng Sun, Chonghuai Liu
Summary: Grape berry shape is an important agricultural trait. This study constructed a high-density map to identify QTLs for berry shape and found three stable QTLs and candidate genes. These findings provide molecular insights for grape berry shape breeding.
HORTICULTURAL PLANT JOURNAL
(2023)
Article
Agronomy
Beant Singh, Dharminder Bhatia, Deepika Narang, Rajwinder Kaur, Parveen Chhuneja
Summary: A mapping population of barley was developed to identify genetic loci conferring resistance to corn leaf aphid. Several quantitative trait loci (QTLs) associated with aphid resistance and related traits were identified, with two QTLs on chromosome 6H showing the highest significance.
CEREAL RESEARCH COMMUNICATIONS
(2023)
Article
Plant Sciences
Hui Yan, Meng Ma, Muhammad Qadir Ahmad, Mohamed Hamed Arisha, Wei Tang, Chen Li, Yungang Zhang, Meng Kou, Xin Wang, Runfei Gao, Weihan Song, Zongyun Li, Qiang Li
Summary: This study used genetic analysis of 274 F1 progeny to identify major quantitative trait loci (QTLs) associated with flesh color, skin color, and anthocyanin content in sweet potato. The results showed significant positive correlations among these traits and high heritability. The findings confirm the importance of this study in establishing a marker-assisted breeding program for sweet potato improvement.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Agronomy
Xiaoxia Han, Ziyang Min, Minghua Wei, Yongqi Li, Duanhua Wang, Zhuqing Zhang, Xinjun Hu, Qiusheng Kong
Summary: This study successfully constructed a genetic map for pumpkin using a hybrid and genetic mapping approach, and identified 30 significant QTLs controlling fruit-related traits. These findings are important for further understanding the related genes and improving pumpkin quality.
Article
Agriculture, Multidisciplinary
Hu Fu-Chu, Chen Zhe, Wang Xiang-He, Wang Jia-Bao, Fan Hong-Yan, Qin Yong-Hua, Zhao Jie-Tang, Hu Gui-Bing
Summary: A high-density genetic map of litchi was constructed using genotyping-by-sequencing, and 37 QTLs related to dwarf traits were identified. These QTLs explained 8.0% to 14.7% of the phenotypic variation and showed clustering on LG04 and LG11.
JOURNAL OF INTEGRATIVE AGRICULTURE
(2021)
Article
Horticulture
Guihua Li, Tanveer Alam Khan, Juxian Guo, Luo Wenlong, Mei Fu, Tingyao Li, Dasen Xie, Qing Wang, Yujuan Zhong, Waheed Akram
Summary: This study investigated the genetic architecture of fresh pod colour trait in cowpea and developed dCAPS markers for efficient phenotype identification. The high-density genetic map and candidate gene region analysis revealed insights into the genetic mechanisms behind pod colour trait, facilitating genetic improvements and marker-assisted selection in cowpea.
JOURNAL OF HORTICULTURAL SCIENCE & BIOTECHNOLOGY
(2021)
Article
Forestry
Chenlu Liu, Lu Wang, Wenjie Lu, Jian Zhong, Hongyan Du, Panfeng Liu, Qingxin Du, Lanying Du, Jun Qing
Summary: In this study, a high-density genetic map of Eucommia ulmoides was constructed using genotyping-by-sequencing (GBS) with single-nucleotide polymorphism (SNP) markers. A total of 10,103 SNP markers were distributed on 17 linkage groups (LGs), and 44 QTLs associated with growth traits were detected. The results provide a solid foundation for chromosome assembly and refinement, and advance the investigation of forestry breeding efforts in E. ulmoides.
Article
Horticulture
Xingbo Wu, Amanda M. Hulse-Kemp, Phillip A. Wadl, Zach Smith, Keithanne Mockaitis, Margaret E. Staton, Timothy A. Rinehart, Lisa W. Alexander
Summary: Hydrangea, an important ornamental crop cultivated for over 300 years, has been limited in genetic studies due to lack of genetic resources. However, a recent transcriptomic study and large-scale marker development have greatly expanded the genetic resources available for hydrangea, including high-density genetic linkage maps.
Article
Plant Sciences
Yaping Wang, Antje Habekuss, Murukarthick Jayakodi, Martin Mascher, Rod J. Snowdon, Andreas Stahl, Janina Fuss, Frank Ordon, Dragan Perovic
Summary: In this study, 423 F-4 segmental recombinant inbred lines were developed from crosses of Chikurin Ibaraki 1 with two BaMMV-susceptible cultivars, Igri and Uschi. Using a set of 32 KASP assays, the target locus was narrowed down and several candidate genes were identified for further functional analysis.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Wenying Zhang, Cong Tan, Haifei Hu, Rui Pan, Yuhui Xiao, Kai Ouyang, Gaofeng Zhou, Yong Jia, Xiao-Qi Zhang, Camilla Beate Hill, Penghao Wang, Brett Chapman, Yong Han, Le Xu, Yanhao Xu, Tefera Angessa, Hao Luo, Sharon Westcott, Darshan Sharma, Eviatar Nevo, Roberto A. Barrero, Matthew Bellgard, Tianhua He, Xiaohai Tian, Chengdao Li
Summary: Divergent selection in different environments leads to functional genomic divergence. This study examined the genomic differentiation and gene expression patterns in two populations of wild barley under abiotic stress. The researchers identified structural variants and single nucleotide polymorphisms (SNPs) that may be associated with well-differentiated phenotypes and local adaptation. The findings provide new insights into the genomic basis of local adaptation and have implications for the genetic improvement of cultivated barley.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Agronomy
Gaofeng Zhou, Huaan Yang, Daniel Renshaw, Chengdao Li
Summary: Genetic map is crucial for plant molecular genetic studies, serving purposes such as QTL mapping, gene cloning, and physical map construction. This study constructed a genetic map using a F-8 RIL population derived from two domesticated narrow-leafed lupin cultivars. Initially, 37 linkage subgroups were created for the 20 chromosomes, and then these subgroups were merged based on physical maps and other genetic maps. The density of DNA variations between parents strongly correlated with marker density in the genetic map.
Article
Biotechnology & Applied Microbiology
Jingye Cheng, Camilla Hill, Yong Han, Tianhua He, Xingguo Ye, Sergey Shabala, Ganggang Guo, Meixue Zhou, Ke Wang, Chengdao Li
Summary: The green revolution employed genetic modification of the gibberellin hormone system to introduce dwarfing gene mutations, enabling plants to adapt to modern farming conditions. However, strong GA-related mutants had an unsatisfactory seedling emergence under drought conditions. This study introduces a semi-dwarfing gene, GA3ox1, in barley, which reduces plant height without restricting coleoptile and seedling growth. Using CRISPR/Cas9 technology, novel GA3ox1 mutants were generated and their function was validated, showing increased coleoptile length and improved seed dormancy.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
Article
Agronomy
Dandan Qin, Gang Liu, Rui Liu, Chunchao Wang, Fuchao Xu, Qing Xu, Yu Ling, Guoqing Dong, Yanchun Peng, Shuangtao Ge, Ganggang Guo, Jing Dong, Chengdao Li
Summary: This study identifies HvTUB8 as a candidate gene for barley spike and leaf development. The mutant phenotype of round lateral spikelet and dark green leaves is caused by changes in cell arrangement in the glume and enlarged chloroplasts. RNA-Seq analysis suggests that HvTUB8 may control spike morphogenesis through ethylene homeostasis and signaling, and regulate leaf color through chlorophyll metabolism. These findings provide new insights into the mechanisms of barley development.
THEORETICAL AND APPLIED GENETICS
(2023)
Article
Agronomy
Tianhua He, Tefera Tolera Angessa, Chengdao Li
Summary: Size scaling refers to the relative growth rates of different body parts in an organism, and is positively correlated. Domestication and crop breeding aim to control scaling traits in opposite directions. The genetic mechanism behind size scaling and its influence on plant height and seed weight in barley were explored using a diverse barley panel. It was discovered that pleiotropy and genetic linkage are likely responsible for the scaling of plant height and seed weight in barley. This study contributes to understanding the heritability and genetic basis of size scaling in plants.
Article
Biology
Yong Jia, Mingrui Xu, Haifei Hu, Brett Chapman, Calum Watt, B. Buerte, Ning Han, Muyuan Zhu, Hongwu Bian, Chengdao Li, Zhanghui Zeng
Summary: Using genomic data from Triticeae, this study explored gene retention in the process of gene duplication, and found that gene dosage constraint and environmental adaption are associated with the retention of HPT2 gene in barley, wild emmer, and bread wheat. Comparative gene retention analysis revealed that HPT2 duplicates are mainly small-scale duplicates, experiencing relaxed selection pressure and transcriptional divergence. These duplicates are enriched with molecular-binding and defense response functions, and larger gene families are more prone to gene loss. Overall, gene dosage constraint, environmental adaption, and species-specific selection are three factors affecting gene retention after gene duplication.
Article
Biochemistry & Molecular Biology
Gang Wang, Juncheng Wang, Lirong Yao, Baochun Li, Xiaole Ma, Erjing Si, Ke Yang, Chengdao Li, Xunwu Shang, Yaxiong Meng, Huajun Wang
Summary: This study investigated the mechanism of barley tolerance to low nitrogen at both the transcriptome and metabolomics levels. Significant differences were found in the transcript and metabolite levels of W26 and W20 under low nitrogen stress. Candidate genes and metabolites identified in this study will be validated in future studies.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Tianbao Li, Chuizheng Kong, Pingchuan Deng, Chengdao Li, Guangyao Zhao, Hongjie Li, Lifeng Gao, Dangqun Cui, Jizeng Jia
Summary: Crop genetic diversity is crucial for adaptation and productivity in agriculture. This study analyzed the sequence, expression, and functional diversity of homologous genes in common wheat, revealing that polyploids have more homologous diversity than diploids. The exploitation of intra-varietal diversity (IVD) might be a new approach for plant breeding, particularly for polyploid crops like wheat.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Plant Sciences
Haibo Liu, Jason L. Todd, Hong Luo
Summary: Turfgrasses are ground cover plants that have robust fibrous roots to withstand various soil stresses. Soil salinity, drought, flooding, acidity, compaction, unbalanced nutrients, heavy metals, and pollutants are major stressors for turfgrasses. Salinity is particularly significant as it is linked with drought and heat stresses. There are only a few dozen species of turfgrasses, but they vary in salinity tolerance. Improvement of turfgrass salinity tolerance has been an active area of research. This review focuses on new developments in turfgrasses for salinity stresses and provides insights for future turfgrass requirements.
Article
Plant Sciences
Dandan D. Qin, Rui Liu, Fuchao Xu, Guoqing Dong, Qing Xu, Yanchun Peng, Le Xu, Hongna Cheng, Ganggang Guo, Jing Dong, Chengdao Li
Summary: In this study, the gene HvMSNSD was identified as a key regulator of shoot branching, vegetative growth, and inflorescence development in barley. The mutant phenotype was characterized by increased stem nodes, reduced plant height, and multiple spikes on each tiller. The HvMSNSD gene controlled the phenotype through GA homeostasis and changed expression of genes related to floral development.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Rui Pan, Haifei Hu, Yuhui Xiao, Le Xu, Yanhao Xu, Kai Ouyang, Chengdao Li, Tianhua He, Wenying Zhang
Summary: Wild barley from Evolution Canyon in Israel's Mt. Carmel is an ideal model for studying cereal chromosome evolution. The two wild barley varieties, EC_S1 and EC_N1, come from different slopes with contrasting climates, resulting in differentiated selection. We assembled highly complete genomes for both varieties using multiple sequencing techniques. These genome assemblies will provide valuable genetic resources for domesticated barley.
Article
Plant Sciences
Brittany Clare Robertson, Yong Han, Chengdao Li
Summary: This study investigated whether stomatal density affects the capacity of barley genotypes to resist low water availability by growing 10 barley varieties under different soil water contents. The results showed that low-stomatal-density genotypes had the least impact on biomass production during drought treatment and exhibited better wilting resistance and more heads compared to high-stomatal-density genotypes under water-deprivation conditions. A correlation analysis also revealed a strong negative linear relationship between stomatal density and head number as well as the number of days until wilting symptoms. Overall, low-stomatal-density genotypes showed promising attributes for high water-use efficiency and may be useful for future breed improvement for drought tolerance in barley.
Article
Biotechnology & Applied Microbiology
Jian Wang, Wu Yang, Shaohong Zhang, Haifei Hu, Yuxuan Yuan, Jingfang Dong, Luo Chen, Yamei Ma, Tifeng Yang, Lian Zhou, Jiansong Chen, Bin Liu, Chengdao Li, David Edwards, Junliang Zhao
Summary: The researchers developed a novel strategy and analysis pipeline for constructing a plant pangenome and identifying the position information of genetic variants. They successfully constructed a high-quality rice pangenome and identified causal structural variations related to rice grain weight and plant height. This study provides valuable genomic resources for rice genomics research and improvement.
Article
Agriculture, Multidisciplinary
D. Real, C. Revell, Y. Han, C. Li, M. Castello, C. D. Bailey
Summary: In this study, a potential seedless triploid variety of leucaena was developed through interspecific hybridization, and its feasibility was investigated through planting and evaluation at two environmentally diverse sites in Australia.
CROP & PASTURE SCIENCE
(2023)
Review
Biotechnology & Applied Microbiology
Haifei Hu, Armin Scheben, Jian Wang, Fangping Li, Chengdao Li, David Edwards, Junliang Zhao
Summary: Inversions significantly impact plant adaptation and gene functions. This review highlights advancements in technology and methodology that allow a better understanding of inversion variants through the pangenome framework and machine learning algorithms. Genome editing is an efficient method for inducing or reversing inversion mutations in plants.
PLANT BIOTECHNOLOGY JOURNAL
(2023)
