Article
Genetics & Heredity
Wei Chen, Huai Yang, Shengfu Zhong, Jun Zhu, Qiuyi Zhang, Zhi Li, Tianheng Ren, Feiquan Tan, Jinliang Shen, Qing Li, Peigao Luo
Summary: In this study, SSRs were identified from the transcriptomic data of Akebia trifoliata fruit, and functional EST-SSR primers were successfully designed. These results provide a powerful tool for accelerating the discovery of metabolic and pathway-specific functional genes, and contribute to genetic improvement and increased commercial productivity of A. trifoliata.
Article
Plant Sciences
Xiaojiao Yu, Shengfu Zhong, Huai Yang, Chen Chen, Wei Chen, Hao Yang, Ju Guan, Peng Fu, Feiquan Tan, Tianheng Ren, Jinliang Shen, Min Zhang, Peigao Luo
Summary: Akebia trifoliata, an important multiuse perennial plant, lacks research on its resistance genes, hindering the breeding of resistant varieties. Genes encoding proteins with NBS and LRR motifs are crucial for plant disease resistance, and a comprehensive genome-wide analysis identified 73 NBS genes in the A. trifoliata genome.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Chen Tan, Haimei Zhang, Haidong Chen, Miaotian Guan, Zhenzhi Zhu, Xueying Cao, Xianhong Ge, Bo Zhu, Daozong Chen
Summary: Potential SSR molecular markers were successfully developed for 40 Matthiola incana varieties using whole genome analysis, providing an important genetic tool for theoretical and applied research on M. incana.
Article
Agronomy
Wei Chen, Huai Yang, Hao Yang, Shengfu Zhong, Qing Dong, Chen Chen, Tianheng Ren, Zhi Li, Feiquan Tan, Peigao Luo
Summary: By analyzing the diversity and structure of Akebia trifoliata, it was found that this species has high genetic diversity and potential breeding applications.
GENETIC RESOURCES AND CROP EVOLUTION
(2023)
Article
Plant Sciences
Shengfu Zhong, Wei Chen, Huai Yang, Jinliang Shen, Tianheng Ren, Zhi Li, Feiquan Tan, Peigao Luo
Summary: This study characterized the profile of SSRs in the high-quality assembled genome of Akebia trifoliata and developed a set of effective molecular markers. The results showed that the genome of A. trifoliata contained abundant SSRs, mainly consisting of single-nucleotide repeats and dinucleotide repeats. These SSRs were physically mapped on the chromosomes, and a positive correlation was found between the number of SSRs and chromosomal length. Furthermore, the SSR loci exhibited broad transferability, particularly the dinucleotide repeats, among all angiosperms. Additionally, the dinucleotide repeats were found to be potentially responsible for microsatellite origin and gene function protection.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Ecology
Jun-Ming Zhang, Xiang-Yong Peng, Min-Li Song, Zhen-Jian Li, Xin-Qiao Xu, Wei Wang
Summary: Understanding the distribution and response of Akebia trifoliata to climate change is crucial for its sustainable management and economic development. This study used field investigation and molecular markers to study the distribution and genetic diversity of A. trifoliata. The results showed that the suitable area of A. trifoliata will increase significantly under future climate scenarios and the geometric center of its distribution in China will move northwards.
ECOLOGY AND EVOLUTION
(2022)
Article
Plant Sciences
Shengfu Zhong, Ju Guan, Chen Chen, Feiquan Tan, Peigao Luo
Summary: This study found that Akebia trifoliata fruit has the highest content of free amino acids and aromatic amino acids compared to other popular fruits. The study also revealed an inverse relationship between AAAs and flavonoid levels in the fruit tissues, and identified gene-specific expression as a main reason for this relationship.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Horticulture
Ju Guan, Peng Fu, Xianshu Wang, Xiaojiao Yu, Shengfu Zhong, Wei Chen, Hao Yang, Chen Chen, Huai Yang, Peigao Luo
Summary: In this study, we evaluated the genetic diversity, phenotypic traits, and nutritional components of three-leaf akebia (Akebia trifoliata). We found large variation in phenotypic traits and nutritional components, especially in vitamin C, seed/pulp, and fruit color. Many phenotypic traits and nutritional components were significantly correlated. Principal component analysis identified five principal components that explained 83.2% of the total variation. SSR analysis revealed high polymorphism among the genotypes. Our results suggest the potential for developing new three-leaf akebia fruit cultivars through further selection.
Article
Plant Sciences
Xiujing Hong, Shengxiong Huang, Yongsheng Liu
Summary: Nigrospora sphaerica is a worldwide plant pathogen causing diseases on various plant hosts. This study reports the genome resource of N. sphaerica strain ZJJ-C1, which causes fruit dried-shrink disease in Akebia trifoliata in China. The genome sequence of ZJJ-C1 will be beneficial for studying the evolution, host adaptation, and pathogenicity of N. sphaerica, contributing to a better understanding of host-pathogen interaction mechanisms.
Article
Biochemical Research Methods
Deepika Sharma, J. Nanjundan, Lal Singh, Nehanjali Parmar, K. H. Singh, Kumar Sambhav Verma, Ajay Kumar Thakur
Summary: This study investigated the genetic diversity and population structure of 145 Indian mustard germplasm accessions. The results showed significant variability among the tested genotypes. Cluster analysis grouped the accessions into two major clusters based on morphological traits and SSR markers, while population structure analysis identified three subpopulations with varying degrees of admixture genotypes. These findings are important for the management and breeding programs of Indian mustard germplasm resources.
PLANT MOLECULAR BIOLOGY REPORTER
(2022)
Article
Genetics & Heredity
Yicheng Zhong, Yue Wang, Zhimin Sun, Juan Niu, Yaliang Shi, Kunyong Huang, Jing Chen, Jianhua Chen, Mingbao Luan
Summary: Genetic diversity and structure of 955 Akebia trifoliata germplasms were assessed using 28 SSR markers, revealing moderate polymorphism and weak genetic structure. Specific characters could completely distinguish the germplasms, and a core collection of 164 germplasms was identified with significantly different diversity parameters compared to a random core collection. These findings have implications for germplasm conservation and utilization.
FRONTIERS IN GENETICS
(2021)
Article
Plant Sciences
Yi Xiong, Xiong Lei, Shiqie Bai, Yanli Xiong, Wenhui Liu, Wendan Wu, Qingqing Yu, Zhixiao Dong, Jian Yang, Xiao Ma
Summary: This study conducted a genome survey and developed SSR markers for Siberian wildrye using Next-generation sequencing. The newly developed SSR markers will facilitate genetics study and breeding for Elymus species, providing insights for further whole genome sequencing strategies.
Article
Biochemistry & Molecular Biology
Lin Ma, Xiao Wang, Min Yan, Fang Liu, Shuxing Zhang, Xuemin Wang
Summary: This study conducted a whole genome survey of common vetch using next-generation sequencing, identifying a large number of simple sequence repeats and designing SSR primer pairs for further molecular marker development. The genetic diversity of Chinese common vetch was found to be high, with the population clustering into two main subgroups. This genomic information will aid in whole genome sequencing strategies and germplasm characterization for common vetch research.
MOLECULAR BIOLOGY REPORTS
(2022)
Article
Genetics & Heredity
Shengfu Zhong, Huai Yang, Ju Guan, Jinliang Shen, Tianheng Ren, Zhi Li, Feiquan Tan, Qing Li, Peigao Luo
Summary: This study identified and characterized the MADS-Box gene family in the whole-genome level of A. trifoliata, a basal eudicot plant, providing insights into its genome features, duplication events, and transcriptome information related to fruit and seed development. Additionally, diversification and phylogenetic analysis suggested a two-step process in a possible ancestral whole genome triplication event of eudicots.
Article
Genetics & Heredity
Jun Zhu, Shengfu Zhong, Ju Guan, Wei Chen, Hao Yang, Huai Yang, Chen Chen, Feiquan Tan, Tianheng Ren, Zhi Li, Qing Li, Peigao Luo
Summary: This study systematically characterizes the WRKY gene family in A. trifoliata and identifies genes that play important roles in plant growth and disease response. Gene identification and evolutionary analysis reveal patterns of gene duplication and distribution within the gene family. Transcriptome analysis shows that these genes are generally expressed at low levels in different tissues and developmental stages of fruits. Interaction analysis suggests that some genes may play a role in plant disease resistance by positively regulating other genes.