Article
Biochemistry & Molecular Biology
Zhuang Zhao, Meng-Yao Zeng, Yu-Wei Wu, Jin-Wei Li, Zhuang Zhou, Zhong-Jian Liu, Ming-He Li
Summary: Epidendrum, an important genus in the Orchidaceae family, has significant horticultural and ornamental value and serves as a valuable research model. By sequencing and assembling the plastomes of five Epidendrum species, the characteristics and phylogenetic relationships of this genus were explored.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biotechnology & Applied Microbiology
Shu-Dong Zhang, Kai Yan, Li-Zhen Ling
Summary: In this study, the chloroplast genomes of ten Spiraea species were analyzed and compared with five previously reported genomes. The results showed that the genomes were highly conserved, but there were polymorphic sites and mutation hotspots that could be used as molecular markers for species identification.
Article
Multidisciplinary Sciences
Zhixin Wang, Limin Cao, Jianhui Liu, Xingjin He
Summary: In this study, the complete chloroplast genomes of nine Pimpinella species from China were assembled and analyzed using next generation sequencing. Significant differences were found in genome size, gene number, IR boundary, and sequence identity among the Pimpinella species. The non-monophyly of the Pimpinella species and the distant relationship between the Pimpinella species and Pimpinelleae were confirmed. This study provides a foundation for future phylogenetic and taxonomic studies of the genus Pimpinella.
Article
Biochemistry & Molecular Biology
Cheng-Yuan Zhou, Meng-Yao Zeng, Xuyong Gao, Zhuang Zhao, Ruyi Li, Yuhan Wu, Zhong-Jian Liu, Diyang Zhang, Ming-He Li
Summary: Trichoglottis is a valuable ornamental orchid genus with rich variations in colors and shapes of flower. Plastome data is found to be a valuable source for molecular identification and evolutionary studies of Trichoglottis and its related genera.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Chunzhu Xie, Wenli An, Shanshan Liu, Yuying Huang, Zerui Yang, Ji Lin, Xiasheng Zheng
Summary: Ardisia plants are naturally distributed in tropical and subtropical areas, with edible and medicinal values. The chloroplast genomes of four Ardisia species were sequenced and analyzed, showing conservative gene content and low sequence divergence. The study provides useful information for taxonomic differences, molecular identification, and phylogenetic relationships of Ardisia plants.
SCIENTIFIC REPORTS
(2021)
Article
Plant Sciences
Xiangyu Tian, Jia Guo, Xiaojiao Zhou, Ke Ma, Yonggui Ma, Tuansheng Shi, Yuhua Shi
Summary: Many species of the genus Kalanchoe have evolved the Crassulacean acid metabolism (CAM) photosynthetic pathway for better adaptation to dry environments, although the monophyly of Kalanchoe is still debated. Plastomes of five Kalanchoe species were sequenced and analyzed, revealing similarities in size, GC contents, and gene numbers. Identification of SSRs, long repeats, and highly divergent regions could aid in future phylogenetic studies, while genomic analyses suggest potential roles of certain genes in the adaptive evolution of Kalanchoe to dry environments.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biochemistry & Molecular Biology
Shu-Dong Zhang, Li-Zhen Ling
Summary: Based on the study of chloroplast genomes, it was found that Sorbus species have a conserved gene structure with variations mainly observed in the non-coding regions. Protein-coding genes showed low variations under purifying selection. Phylogenetic and molecular-clock analysis provided insights into the evolutionary relationships and origins of Sorbus species.
Article
Biology
Xiu-Xiu Guo, Xiao-Jian Qu, Xue-Jie Zhang, Shou-Jin Fan
Summary: This study focuses on the plastomes of Aristidoideae, a subfamily in the family Poaceae. The plastomes of two species, Aristida adscensionis and Stipagrostis pennata, were newly sequenced and compared with a total of 16 Aristidoideae plastomes. The plastomes were found to be conservative in terms of genome size, gene number, structure, and IR boundary. Repeat sequence analysis showed that forward and palindrome repeats were the most common types. The study also analyzed codon usage and identified highly variable regions. The phylogenetic analysis supported the monophyly of Aristidoideae and the relationship between the three genera. The divergence between different species may be associated with factors such as carbon fixation patterns, geographical distributions, and ploidy. This study contributes to our understanding of the phylogeny and evolution of Aristidoideae.
Article
Agricultural Engineering
Shuying Wang, Nian Zhou, Naixing Shi, Guangfei Zhang, Haiyang Liu, Xiaorong Guo, Yunheng Ji
Summary: Polygonati Rhizoma, an important traditional Chinese medicine, is often adulterated with morphologically similar species, causing issues in quality and effectiveness. This study demonstrates that the complete plastomes of Polygonatum species can be used for accurate identification, and also provides a reference library for monitoring and controlling the trade of Polygonati Rhizoma.
INDUSTRIAL CROPS AND PRODUCTS
(2023)
Article
Plant Sciences
Wyclif Ochieng Odago, Emmanuel Nyongesa Waswa, Consolata Nanjala, Elizabeth Syowai Mutinda, Vincent Okelo Wanga, Elijah Mbandi Mkala, Millicent Akinyi Oulo, Yan Wang, Cai-Fei Zhang, Guang-Wan Hu, Qing-Feng Wang
Summary: This study used genome skimming data to sequence and analyze the plastomes of Hoya species, resolving the phylogenetic positions of some Chinese endemic species. It also identified potential molecular markers for DNA barcoding and species identification, and provided insights into the advantages of using plastome genome data for studying phylogenetic relationships.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Rong Wang, Kuan Liu, Xue-Jie Zhang, Wen-Li Chen, Xiao-Jian Qu, Shou-Jin Fan
Summary: This study investigated the plastomes of Cleistogenes and related genera, revealing similarities in structure and gene content, as well as identifying sequence divergence among taxa. The phylogenetic analysis indicated the evolutionary relationships within Cleistogenes and suggested a rapid divergence within the genus.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Multidisciplinary Sciences
Marcele Laux, Renato R. M. Oliveira, Santelmo Vasconcelos, Eder S. Pires, Talvane G. L. Lima, Mayara Pastore, Gisele L. Nunes, Ronnie Alves, Guilherme Oliveira
Summary: Ipomoea is a widely distributed genus with importance beyond economic value. This study provides genetic data and insights into the systematic phylogenetic relationships of key Ipomoea species from Eastern Amazon. The results highlight the importance of new plastome assemblies in resolving inconsistencies and increasing statistical confidence, especially for South American clades of Ipomoea.
Article
Agricultural Engineering
Jiajing Sheng, Mi Yan, Jia Wang, Lingling Zhao, Fasong Zhou, Zhongli Hu, Surong Jin, Ying Diao
Summary: The chloroplast genomes of five Miscanthus species were sequenced using Illumina technology, revealing conservation in gene content and order but also identifying variation hotspots. Comparisons with other grass chloroplast genomes showed polymorphism hotspots, while phylogenetic analysis suggested a sister relationship between certain clades. This comprehensive analysis provides valuable genetic information for phylogeography, population genetics, and plastid genetic engineering research in Miscanthus.
INDUSTRIAL CROPS AND PRODUCTS
(2021)
Article
Plant Sciences
Ruoran Li, Xuli Jia, Jing Zhang, Shangang Jia, Tao Liu, Jiangyong Qu, Xumin Wang
Summary: The study assembled seven plastid genomes of Sargassum, revealing the presence of 139 protein-coding genes, 28 tRNAs, and 6 rRNAs. Compared to other Fucales plastid genomes, 136 PCGs were conserved, with some shared with other species like Coccophora langsdorfii. The phylogenetic analysis showed the evolutionary history of brown algae and highlighted the speciation events within the Sargassum genus.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Genetics & Heredity
Haiyu Chen, Xinke Zhang, Guoshuai Zhang, Zhi Zhang, Guoxu Ma, Zhaocui Sun, Chang Liu, Linfang Huang
Summary: This study successfully obtained the chloroplast genome of Nepeta bracteata using Next-generation sequencing. The genome consists of 130 genes and exhibits a typical quadripartite structure. Comparative analysis with other species from the Nepeta genus identified five hypervariable regions. Phylogenetic analysis showed a close relationship between N. bracteata and Nepeta stewartiana. These findings enrich the resources available for chloroplast genomes in the Nepeta genus and highlight the potential of hypervariable regions as molecular markers.