Article
Biotechnology & Applied Microbiology
Lei Tao, Hanning Duan, Kaifeng Tao, Yan Luo, Qingqing Li, Lu Li
Summary: The chloroplast genomes of Phalaenopsis storbatiana and P. wilsonii were analyzed and compared, revealing their genetic relationship and taxonomic information. The study also found high sequence similarity in coding and non-coding regions among these two species and six related taxa, but different amplification in IR regions. Phylogenetic analysis confirmed the placement of P. storbatiana and P. wilsonii in tribe Vandeae of Epidendroideae, consistent with previous studies.
Article
Genetics & Heredity
Zhi-Feng Fan, Da-Yong Yu, Chang-Le Ma
Summary: The complete chloroplast genome sequence of the vulnerable wild moth orchid species Phalaenopsis wilsonii was determined using whole genome next-generation sequencing. The genome structure and phylogenetic relationship with P. lowii were analyzed, providing valuable genomic data for conservation genetics, phylogeny, and molecular breeding in Phalaenopsis.
MITOCHONDRIAL DNA PART B-RESOURCES
(2021)
Article
Biotechnology & Applied Microbiology
Ding-Kun Liu, Cheng-Yuan Zhou, Xiong-De Tu, Zhuang Zhao, Jin-Liao Chen, Xu-Yong Gao, Shao-Wei Xu, Meng-Yao Zeng, Liang Ma, Sagheer Ahmad, Ming-He Li, Siren Lan, Zhong-Jian Liu
Summary: This study analyzed the plastome characteristics of the Chiloschista genus in the Orchidaceae family for the first time. The results showed that Chiloschista plastomes have conserved plastome structures. Several genes and noncoding regions were identified as potential barcodes for phylogenetic and population studies. Chiloschista may serve as an ideal system for investigating plastome evolution dynamics and DNA barcoding in orchid studies.
Article
Plant Sciences
Qiqian Xue, Jiapeng Yang, Wenhui Yu, Hongman Wang, Zhenyu Hou, Chao Li, Qingyun Xue, Wei Liu, Xiaoyu Ding, Zhitao Niu
Summary: Based on the net photosynthetic rates, Dendrobium species were classified into three photosynthetic pathways, and their chloroplast genomes were compared. Significant differences were found in GC content, sequence variability, and IR junctions among different photosynthetic pathways. Phylogenetic analysis revealed multiple independent CAM origins in selected Dendrobium species. The occurrence rates and distribution densities of insertions and deletions varied among different photosynthetic pathways. Furthermore, the evolution patterns of chloroplast genes were diversified among three photosynthetic pathways in Dendrobium. Temperature and precipitation influenced the distribution of different photosynthetic pathways and promoted the formation of CAM pathway in Dendrobium orchids.
Article
Plant Sciences
Kaihui Zhao, Lianqiang Li, Hong Quan, Junbo Yang, Zhirong Zhang, Zhihua Liao, Xiaozhong Lan
Summary: This study sequenced and analyzed six Zanthoxylum chloroplast genomes, identifying specific genomic characteristics and mutational hotspots, with seven DNA barcode sequences for species differentiation. The phylogenetic analysis supported the existence of the Fagara subgenus within Zanthoxylum and proposed the potential for a new subgenus. The availability of these genomes provides valuable information for species identification, molecular breeding, and evolutionary analysis of Zanthoxylum.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Horticulture
Dewi Pramanik, Marlies Spaans, Twan Kranenburg, Diego Bogarin, Reinout Heijungs, Frederic Lens, Erik Smets, Barbara Gravendeel
Summary: Phalaenopsis is an important ornamental pot plant for the global horticultural market. This study investigated the lignification patterns and orientation of Phalaenopsis inflorescence stems and found significant differences among different species and hybrids. The study also revealed a positive correlation between inflorescence orientation and the degree of lignification.
SCIENTIA HORTICULTURAE
(2022)
Article
Plant Sciences
Consolata Nanjala, Vincent Okelo Wanga, Wyclif Odago, Elizabeth Syowai Mutinda, Emmanuel Nyongesa Waswa, Millicent Akinyi Oulo, Elijah Mbandi Mkala, Josiah Kuja, Jia-Xin Yang, Xiang Dong, Guang-Wan Hu, Qing-Feng Wang
Summary: This study investigated the complete plastomes of 6 Calanthe and 2 Phaius species, revealing their structural characteristics. The results showed highly conserved plastomes among the species, with some non-coding regions having more sequence repeats important for DNA barcoding. Phylogenetic analysis revealed a paraphyletic relationship in the Calanthe group and confirmed the position of Phaius delavayi within the genus Calanthe.
Article
Biotechnology & Applied Microbiology
Zhou Hong, Xuezhu Liao, Yuanjun Ye, Ningnan Zhang, Zengjiang Yang, Weidong Zhu, Wei Gao, Joel Sharbrough, Luke R. Tembrock, Daping Xu, Zhiqiang Wu
Summary: The complete mitochondrial genome of Dalbergia odorifera was assembled for the first time in this study, providing a baseline resource for understanding genomic evolution in the highly specious Fabaceae. The assessment of intergenomic sequence transfer suggests common and recent transfers, indicating a potential role in environmental adaptation. Analysis also shows a rapid evolution of mitochondrial genome structure compared to chloroplasts in Faboideae.
Article
Plant Sciences
Jun Chen, Yu Zang, Shuai Shang, Shuo Liang, Meiling Zhu, Ying Wang, Xuexi Tang
Summary: Seagrasses are marine flowering plants found in tropical and sub-tropical areas that evolved from terrestrial monocotyledons, providing insight into plant adaptation to sea environments. The analysis of chloroplast genomes of Zostera species revealed conserved structures, candidate DNA barcodes, and positively selected genes for seagrass adaptation. Additionally, seagrasses were found to have a higher rate of evolution than terrestrial monocotyledons, indicating greater environmental pressure and potential key roles of specific genes in seagrass adaptation.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Plant Sciences
Dhafer A. Alzahrani
Summary: Abutilon fruticosum, an endemic plant in Saudi Arabia, has a complete chloroplast genome with 114 unique genes. Comparative analyses show similarities with other Malvaceae species in gene content and structure, and variability in gene position. Phylogenetic analysis suggests a close relationship with Althaea officinalis, contradicting previous systematic positions. This study provides valuable insights for further phylogenetic and evolutionary studies within the Malvaceae family.
Article
Genetics & Heredity
Ying-Hui Cao, Mei-Juan Hu, Yan Tong, Yan-Ping Zhang, Rui-Yue Zheng, Kai Zhao, Dong-Hui Peng, Yu-Zhen Zhou
Summary: In this study, we reported the chloroplast genome of Phalaenopsis stobartiana and found its close relationship with Phalaenopsis wilsonii. These findings provide molecular data for further research, genetic protection, and breeding programs of Phalaenopsis stobartiana.
MITOCHONDRIAL DNA PART B-RESOURCES
(2022)
Article
Plant Sciences
Na Duan, Lili Deng, Ying Zhang, YanCai Shi, Bingbing Liu
Summary: This study reported three new Heteroplexis chloroplast genomes, which showed high conservation and provided valuable genetic resources for future studies on the taxonomy, phylogeny, and evolution of the Aster genus. Phylogenetic analyses did not support the monophyly of the Heteroplexis genus, suggesting that the five species might be subsumed into the Aster genus.
Article
Plant Sciences
Jianshuang Shen, Xueqin Li, Mingzhi Li, Hefeng Cheng, Xiaoling Huang, Songheng Jin
Summary: This study analyzed the organelle genome information of R. x pulchrum and its related species, revealing the characteristics of their mitochondrial and chloroplast genomes, as well as potential molecular markers. It also discovered gene rearrangement between R. x pulchrum and other species. The study showed that codon usage bias is influenced by mutation and selection, and identified homologous fragments between the chloroplast and mitochondrial genomes.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Multidisciplinary Sciences
Yingfeng Niu, Chengwen Gao, Jin Liu
Summary: The study reported and compared four newly sequenced plastid genomes of the genus Mangifera, finding high similarities among them. Certain DNA sequences were identified as potential DNA barcodes for Mangifera, and interspecies relationships were well resolved based on whole plastid genome data. Additionally, the study revealed large fragments transferred from the plastid genome to the mitochondrial genome.
Article
Horticulture
Yaxuan Xin, Wen-Bin Yu, Wichan Eiadthong, Zhengying Cao, Qishao Li, Zhenxin Yang, Wenzhi Zhao, Peiyao Xin
Summary: In this study, the chloroplast genomes of Mangifera species were analyzed, resulting in the identification of three highly variable regions that could be used as DNA barcodes for species determination. Phylogenetic analysis divided Mangifera into three clades, providing a theoretical basis for species determination and evolutionary studies.
Article
Plant Sciences
B. -Y. Lin, C. -D. Chang, L. L. H. Huang, Y. -C. Liu, Y. -Y. Su, T. -C. Chen, R. -H. Lee, H. -J. Huang, W. -L. Wu, C. -C. Chang
BIOLOGIA PLANTARUM
(2016)
Article
Horticulture
Jhong-Yi Lin, Bo-Yen Lin, Ching-Dong Chang, Sin-Chung Liao, Yu-Chang Liu, Wen-Luan Wu, Ching-Chun Chang
SCIENTIA HORTICULTURAE
(2015)
Article
Horticulture
Yu-Chang Liu, Bo-Yen Lin, Jhong-Yi Lin, Wen-Luan Wu, Ching-Chun Chang
SCIENTIA HORTICULTURAE
(2016)
Article
Plant Sciences
Ting-Chieh Chen, Yu-Chang Liu, Xuewen Wang, Chi-Hsuan Wu, Chih-Hao Huang, Ching-Chun Chang
Article
Biochemistry & Molecular Biology
Sy-Jye Tham, Ching-Dong Chang, Hao-Jen Huang, Yueh-Feng Lee, Tze-Sing Huang, Ching-Chun Chang
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2010)
Article
Evolutionary Biology
Rui-Jiang Wang, Chiao-Lei Cheng, Ching-Chun Chang, Chun-Lin Wu, Tian-Mu Su, Shu-Miaw Chaw
BMC EVOLUTIONARY BIOLOGY
(2008)
Article
Cell Biology
Chun-Chung Lee, Ko-Jiunn Liu, Yu-Chen Wu, Sue-Jane Lin, Ching-Chun Chang, Tze-Sing Huang
Article
Biochemical Research Methods
Shih-Wei Lu, Kuo-Chih Wang, Hung-Jen Liu, Ching-Dong Chang, Hao-Jen Huang, Ching-Chun Chang
JOURNAL OF VIROLOGICAL METHODS
(2011)
Article
Plant Sciences
Chung-Wen Lin, Chung-Yi Lin, Ching-Chun Chang, Ruey-Hua Lee, Tsung-Mu Tsai, Po-Yu Chen, Wen-Chang Chi, Hao-Jen Huang
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2009)
Article
Plant Sciences
Po-Yu Chen, Kuo-Ting Lee, Wen-Chang Chi, Heribert Hirt, Ching-Chun Chang, Hao-Jen Huang
Article
Plant Sciences
Jin-Min Tu, Ming-Chung Chang, Lynn L. H. Huang, Ching-Dong Chang, Hao-Jen Huang, Ruey-Hua Lee, Ching-Chun Chang
Article
Horticulture
Ting-Chieh Chen, Yu-Ya Su, Chi-Hsuan Wu, Yu-Chang Liu, Chih-Hao Huang, Ching-Chun Chang
SCIENTIA HORTICULTURAE
(2020)
Article
Plant Sciences
Tsung-Mu Tsai, Ying-Ru Chen, Tien-Wen Kao, Wen-Su Tsay, Chiou-Ping Wu, Ding-Ding Huang, Wen-Huei Chen, Ching-Chun Chang, Hao-Jen Huang
PLANT CELL REPORTS
(2007)
Article
Plant Sciences
Ching-Chun Chang, Pin-Sheng Huang, Huei-Ru Lin, Chun-Hsien Lu
PLANT AND CELL PHYSIOLOGY
(2007)
Article
Biochemistry & Molecular Biology
Yanru Feng, Muhammad Shahedul Alam, Feng Yan, Michael Frei
Summary: Tropospheric ozone has significant effects on the remobilization and allocation efficiency of aboveground biomass and nutrients in cereal crops. Long-term ozone exposure increases straw C:N ratio and affects grain C:N ratio. Grain N concentrations increase significantly under ozone stress, but N yield declines due to grain yield losses. Various indicators of N use efficiency are reduced, indicating reduced N absorption from soil and allocation from vegetative to reproductive organs. Straw C:N ratio is not suitable for predicting wheat productivity. Nitrogen harvest index (NHI) is not affected by ozone stress, but the relationship between harvest index (HI) and NHI is changed by elevated ozone concentration.
Article
Biochemistry & Molecular Biology
Cong Guan, Wei Li, Guoliang Wang, Ruimei Yang, Jinglei Zhang, Jinhong Zhang, Bo Wu, Run Gao, Chunlin Jia
Summary: This study characterized the expression profiles of mRNAs and ncRNAs in switchgrass under drought stress. The up-regulated mRNAs were enriched in starch and sucrose metabolism pathway, while the differentially expressed lncRNAs potentially regulated protein-coding genes. The study also constructed regulatory networks and validated the functionality of the target gene PvSS4 in enhancing drought tolerance.
Article
Biochemistry & Molecular Biology
Juan Nicolas-Espinosa, Lucia Yepes-Molina, Fuensanta Martinez-Bernal, Miriam Fernandez-Pozurama, Micaela Carvajal
Summary: This study aimed to investigate the physiological response of broccoli leaves to abiotic stresses such as salinity and boron toxicity/deficiency. The results showed that the combined stress of salinity and boron deficiency resulted in a significant reduction in plant biomass, and the adaptation mechanisms were associated with water and boron concentration in the leaves. The expression patterns of PIP aquaporins varied among the different stress treatments, and their presence in the plasma membrane and interaction with the lipid environment played potential regulatory roles in facilitating salinity-boron stress adaptation mechanisms.
Review
Biochemistry & Molecular Biology
Wen-Feng Huang, Juan Li, Jian-An Huang, Zhong-Hua Liu, Li-Gui Xiong
Summary: This review examines the seasonal trends of phyllosphere microorganisms in woody and herbaceous plants and explores the factors influencing these trends. While herbaceous and woody plants share some similarities and differences in their phyllosphere microbiomes, further experimental validation is needed.
Article
Biochemistry & Molecular Biology
Changguang Liao, Hui Shen, Zihan Gao, Yunshu Wang, Zhiguo Zhu, Qiaoli Xie, Ting Wu, Guoping Chen, Zongli Hu
Summary: The novel CRF, SlCRF6, plays a crucial role in regulating tomato plant morphology, leaf development, and the accumulation of photosynthetic products.
Article
Biochemistry & Molecular Biology
Alok Madhu, Alok Sharma, Amandeep Kaur, Kashmir Singh, Santosh Kumar Upadhyay
Summary: In this study, 15 TaMDHAR genes were identified in bread wheat and their crucial roles in antioxidants, growth and development, and stress responses were revealed.
Article
Biochemistry & Molecular Biology
Kai Zheng, Yongsheng Cai, Yanying Qu, Lu Teng, Chaoyue Wang, Jie Gao, Quanjia Chen
Summary: In this study, the whole genome identification and bioinformatics analysis of the HCT gene family were performed in G. barbadense. The results showed that the GbHCT114 gene regulates plant trichome development, which is closely related to cotton fiber quality. Gene silencing and overexpression experiments confirmed the important role of GbHCT114 gene in cotton fiber morphology, lignin content, and secondary xylem duct cell wall development. Transcriptomic analysis identified differentially expressed genes associated with lignin synthesis and fiber development.
Review
Biochemistry & Molecular Biology
Tanashvi Seth, Sejal Asija, Shahid Umar, Ravi Gupta
Summary: Plants activate a sophisticated signaling cascade in response to pests and pathogens, with lipids playing a crucial role in mediating these defense responses. Different types of lipids are involved in cell signaling during plant-pathogen interaction and each lipid has specific relevance and contributes to specific signaling cascades. Lipid biosynthetic enzymes, including phospholipases, are involved in the production of defense signaling molecules. Lipids participate in stress signaling by mediating signal transduction, acting as precursors for bioactive molecules, regulating ROS formation, and interacting with phytohormones.
Article
Biochemistry & Molecular Biology
Yangyang Chen, Xiao Wu, Xiaohua Wang, Qionghou Li, Hao Yin, Shaoling Zhang
Summary: 'Nanguo' pears emit a rich aroma when fully ripe, and the important volatile components are the six-carbon compounds derived from the lipoxygenase pathway. This study identified a highly expressed bZIP transcription factor that is induced during the mature stage of 'Nanguo' pears, and demonstrated its regulatory role in fatty acid-derived volatile biosynthesis.
Article
Biochemistry & Molecular Biology
Zhao Geng, Haikuan Dou, Jianguang Liu, Guiyuan Zhao, Linlin Liu, Ning Zhao, Hanshuang Zhang, Yongqiang Wang, Zetong An
Summary: The overexpression of GhFB15 gene decreases the salt tolerance of Arabidopsis plants, while silencing the gene improves the salt tolerance of cotton plants. Furthermore, GhFB15 regulates the accumulation of flavonoids and the levels of ROS.
Article
Biochemistry & Molecular Biology
Linjun Cai, Ancheng Ma, Jiao Lei, Chongsheng He
Summary: METTL4 is identified as a plant DNA 6mA methyltransferase in Arabidopsis thaliana and plays a crucial role in regulating heat stress response.
Article
Biochemistry & Molecular Biology
Zailong Tian, Kun Li, Yaru Sun, Baojun Chen, Zhaoe Pan, Zhenzhen Wang, Baoyin Pang, Shoupu He, Yuchen Miao, Xiongming Du
Summary: Plants have evolved a mechanism called 'stress memory' to survive in various environmental stresses. This study reveals the physiological, biochemical, and molecular mechanisms underlying drought stress memory formation in cotton, highlighting the role of histone modification H3K4me3 in regulating transcriptional memory. It also investigates the intergenerational inheritance of drought stress memory in cotton, providing theoretical guidance for cotton breeding.