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
Horticulture
Ezgi Mehmetoglu, Yasin Kaymaz, Duygu Ates, Abdullah Kahraman, Muhammed Bahattin Tanyolac
Summary: In this study, the complete chloroplast genome of Cicer echinospermum was constructed and compared with Cicer arietinum. Phylogenetic relationships within the Cicer genus were also re-examined based on their cpDNAs. The results revealed the evolutionary changes in the chloroplast genome and identified potential markers for species identification. Additionally, the study confirmed the phylogenetic structure of the Cicer species and highlighted the importance of these genomic data for genetic engineering of economically important crops.
SCIENTIA HORTICULTURAE
(2022)
Article
Plant Sciences
Hongcheng Wang, Chenchen Gan, Xi Luo, Changyu Dong, Shijun Zhou, Qin Xiong, Qingbei Weng, Xin Hu, Xuye Du, Bin Zhu
Summary: Arabis paniculata, widely used for phytoremediation of heavy metals, has a complete chloroplast genome. The genome analysis reveals its relationship and gene selection pressure, providing valuable information for its optimal exploitation as a heavy-metal hyperaccumulator.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2022)
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
Biotechnology & Applied Microbiology
Shuangshuang Zhang, Yanshuo Liang, Jie Zhang, Stefano G. A. Draisma, Delin Duan
Summary: The study compared the mitochondrial and chloroplast genomes of Sargassum polycystum and Sargassum plagiophyllum, finding shared conserved synteny, sequence regions, and gene number among these and other Sargassum species. The synonymous and non-synonymous substitution rates in the mitochondrial and chloroplast genomes showed significant differences, highlighting divergence between the two types of organelle genomes. Phylogenetic analysis confirmed the close relationship between the two sequenced species and S. ilicifolium.
Article
Biodiversity Conservation
Ting Ren, Xueyimu Aou, Rongming Tian, Zhenbing Li, Chang Peng, Xingjin He
Summary: In this study, the complete chloroplast genome of the economically important traditional Chinese medicinal plant Cnidium monnieri was determined. The findings provide valuable genomic resources for understanding the taxonomy, phylogeny, and species authentication of C. monnieri, as well as elucidating the phylogenetic relationships and taxonomic position of Cnidium.
Article
Biodiversity Conservation
Gui Fu, Yuping Liu, Marcos A. Caraballo-Ortiz, Changyuan Zheng, Tao Liu, Yujie Xu, Xu Su
Summary: This study reports the complete chloroplast genome of Dracocephalum heterophyllum and provides insights into its gene content, structure, codon usage, genetic variation, and evolutionary history. Comparative genomic analyses with related species in the Lamiaceae family reveal the phylogenetic relationship and genetic diversity within the genus Dracocephalum. These results are valuable for conservation strategies and future genetic research on Dracocephalum species.
Article
Biotechnology & Applied Microbiology
Zhan Feng, Yan Zheng, Yuan Jiang, Yujing Miao, Guangming Luo, Linfang Huang
Summary: This study sequenced and characterized the complete chloroplast genome of Gentianopsis barbata, an essential medicinal plant in China. The results provide valuable insights into plastome evolution and important information on the genetic structure and diversity of G. barbata.
Article
Genetics & Heredity
Wenting Yang, Kunlin Wu, Lin Fang, Songjun Zeng, Lin Li
Summary: This study sequenced and annotated the chloroplast genomes of two Blepharoglossum species, finding a relatively conserved gene content and arrangement, but still identifying a high number of SNPs and indels. Comparative analyses among six chloroplast genomes in Malaxidinae revealed significant sequence divergences in intergenic and coding regions. Phylogenetic analysis showed a close sister group relationship between Blepharoglossum and Oberonia.
Article
Forestry
Dilmurod Makhmudjanov, Davlatali Abdullaev, Inom Juramurodov, Shakhzodbek Tuychiev, Ziyoviddin Yusupov, Hang Sun, Komiljon Tojibaev, Tao Deng
Summary: The study sequenced the complete chloroplast genomes of ten Eremurus species and analyzed their structure and evolutionary relationships. Results showed similarities in size, gene sequences, and gene classes among the genomes, and identified some genes with potential functions.
Article
Biochemistry & Molecular Biology
Jinliao Chen, Fei Wang, Zhuang Zhao, Minghe Li, Zhongjian Liu, Donghui Peng
Summary: In this study, the chloroplast genomes of three species of Paraphalaenopsis were reported and comprehensively analyzed. The genomes exhibited a quadripartite structure and varied in length from 147,311 bp to 149,240 bp. Unique genes including protein-coding genes, tRNA genes, and rRNA genes were identified in each genome. Six hypervariable regions were discovered as potential DNA molecular markers. Phylogenetic analysis indicated that Paraphalaenopsis is closely related to the Holcoglossum-Vanda clade within the Aeridinae subfamily. This study provides a foundation for future phylogenetic analysis of Aeridinae.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Yuying Huang, Jing Li, Zerui Yang, Wenli An, Chunzhu Xie, Shanshan Liu, Xiasheng Zheng
Summary: The study analyzed the plastomes of ten Ficus species, revealing their similar genome structure but with variation in inverted repeat regions. The comparative analysis showed low sequence variability and suggested eight variable regions as potential molecular markers. Phylogenetic analysis grouped the species into three clades based on subgenera, supporting the Berg classification system. The study contributes to understanding genetic diversity and species evolution of Ficus, providing valuable information for taxonomic and phylogenetic studies.
Article
Biotechnology & Applied Microbiology
Jiaojun Yu, Jun Fu, Yuanping Fang, Jun Xiang, Hongjin Dong
Summary: In this study, eight chloroplast genomes of Rubus from the Dabie Mountains in Central China were sequenced and analyzed. The results showed that these genomes had similar structures and gene compositions, and identified markers for genetic diversity and phylogenetic analysis. The study demonstrated the potential use of the whole plastome as a powerful tool in phylogenetic studies of this genus.
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
Genetics & Heredity
Chunyu Tian, Xiansong Li, Zinian Wu, Zhiyong Li, Xiangyang Hou, Frank Yonghong Li
Summary: This study sequenced and annotated the complete chloroplast genomes of three Astragalus species, revealing that they belong to the inverted repeat lacking clade (IRLC) and have similar sequences in terms of gene contents. Abundant simple sequence repeat (SSR) loci were detected, with most containing A/T homopolymers. Comparison with Astragalus membranaceus var. membranaceus showed divergence in non-coding regions. Seven genes showed high nucleotide variability and could be used as DNA barcodes for Astragalus spp. Phylogenetic analysis indicated that Astragalus is closely related to Oxytropis within the tribe Galegeae.
FRONTIERS IN GENETICS
(2021)
Correction
Biotechnology & Applied Microbiology
Gurusamy Raman, Kyu Tae Park, Joo-Hwan Kim, SeonJoo Park
Summary: A revised version of this article has been published and is available through the original article.
Article
Biotechnology & Applied Microbiology
Gurusamy Raman, Eun Mi Lee, SeonJoo Park
Summary: Intracellular gene transfer is common among plant genomes, but chloroplast genomes rarely incorporate foreign genetic material due to their high conservation. Convallaria, a genus of monocotyledonous plants, was found to have mitochondrial DNA sequences in the plastome. New plastid molecular genetic markers were developed to differentiate Convallaria species, revealing a separation into Eurasian and North American lineages during the middle Pliocene. Further studies are needed to understand the integration of the MCP region and gene flow in Convallaria.
Article
Biochemistry & Molecular Biology
Sivagami-Jean Claude, Sunmi Park, Seon-Joo Park
Summary: The phenylpropanoid pathway plays a crucial role in producing byproducts that promote human health, with caffeoylquinic acid being a common soluble phenolic compound in angiosperms. The study identified candidate genes for the biosynthesis of caffeoylquinic acid from the phenylpropanoid pathway in A. spathulifolius flowers and leaves through transcriptome analysis. Differential expression of genes related to PPP and CQA biosynthesis was observed between the flowers and leaves, indicating a potential tissue-specific regulation of these pathways.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Genetics & Heredity
Gurusamy Raman, Kyu Tae Park, SeonJoo Park
Summary: The study sequenced and characterized the complete chloroplast genome of Cardamine amaraeformis, aiding in distinguishing it from C. scutata and revealing its phylogenetic relationship within the Cardamine lineage.
MITOCHONDRIAL DNA PART B-RESOURCES
(2021)
Article
Genetics & Heredity
Gurusamy Raman, SeonJoo Park
Summary: This study presents the complete chloroplast genome of Cardamine fallax and its phylogenetic analysis, revealing the genomic structure and phylogenetic position of this species.
MITOCHONDRIAL DNA PART B-RESOURCES
(2021)
Article
Biochemistry & Molecular Biology
Seongjun Park, Minji Jun, Sunmi Park, SeonJoo Park
Summary: Plastid genomes within the Caprifoliaceae s.l. family underwent one inversion and two inverted repeat boundary shifts in the common ancestor, followed by overall conservation; new plastome sequences provide insights into structural evolution within the family, with accelerated nucleotide substitution rates observed in the Valerianoideae subfamily.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Akbar Idhayadhulla, Aseer Manilal, Anis Ahamed, Saud Alarifi, Gurusamy Raman
Summary: Copper nanoparticles synthesized using copper(II)-tyrosinase from potato peel powder showed potential cytotoxicity against MCF-7 breast cancer cells, indicating their possible use as anticancer agents in future research.
Article
Virology
Gurusamy Raman, Sivasankaran Ayyaru, SeonJoo Park, Young-Ho Ahn
Summary: Antimicrobial resistance is a global concern, with municipal wastewater being the primary source of contamination. Biological strategies are effective in controlling antibiotic-resistant bacteria. A bacteriophage has been discovered to be effective against multi-drug resistance in municipal wastewater.
Article
Multidisciplinary Sciences
SathishKumar Chidambaram, Daoud Ali, Saud Alarifi, Raman Gurusamy, SurendraKumar Radhakrishnan, Idhayadhulla Akbar
Summary: 1,5-diphenylpent-4-en-1-one derivatives were synthesized with Cu(II)-tyrosinase as a catalyst using the grindstone method. Compound 1i showed notably high larvicidal activity against Culex quinquefasciatus, while being non-toxic to Oreochromis mossambicus. Molecular docking studies confirmed that compound 1i has potential as a larvicide with high binding energy.
SCIENTIFIC REPORTS
(2021)
Article
Biotechnology & Applied Microbiology
Perumal Gobinath, Ponnusamy Packialakshmi, Daoud Ali, Saud Alarifi, Raman Gurusamy, Akbar Idhayadhulla, Radhakrishnan SurendraKumar
Summary: In this study, zinc oxide nanoparticles were synthesized using Moringa oleifera extract, and a novel antibacterial medication was prepared. The antibacterial activity of the medication was found to be superior to other drugs, and in silico molecular docking studies revealed potential strong antibacterial properties.
BIOMED RESEARCH INTERNATIONAL
(2022)
Article
Chemistry, Multidisciplinary
Ponnusamy Packialakshmi, Perumal Gobinath, Daoud Ali, Saud Alarifi, Raman Gurusamy, Akbar Idhayadhulla, Radhakrishnan Surendrakumar
Summary: In this study, chitosan derivatives were synthesized into sulfonated Schiff bases compounds without the use of a catalyst. The synthesized compounds showed high anticancer activity against MCF-7 cancer cells and low cytotoxicity against normal cell lines. In-silico study also revealed that one of the compounds exhibited higher binding affinity for a specific protein, indicating its potential as an anticancer drug.
FRONTIERS IN CHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Chidambaram SathishKumar, Radhakrishnan Surendrakumar, Gurusamy Raman, Daoud Ali, Saud Alarifi, Akbar Idhayadhulla
Summary: In this study, AEEA-Cu(II)-NPs catalyst was synthesized and used in Biginelli reactions. The synthesized nanocatalysis was characterized using various analytical techniques. Thioxo-1,2,3,4-tetrahydropyrimidine-5-carboxamide derivatives were successfully synthesized via the Biginelli method using the AEEA-Cu(II)-NPs catalyst. The synthesized compounds were characterized, and computational methods and cytotoxicity screening were performed, suggesting the potential therapeutic applications of these new compounds.
JOURNAL OF KING SAUD UNIVERSITY SCIENCE
(2022)
Article
Anatomy & Morphology
Wajid Zaman, Fazal Ullah, Gaurav Parmar, Saddam Saqib, Asma Ayaz, SeonJoo Park
Summary: In this research, scanning electron microscopy was used to identify and study the morphological characteristics of 25 Lamiaceae species used in traditional medicine. The study found that the anatomical features of the leaf epidermis can be used for accurate identification of these species. Additionally, the study described the diverse microstructures of these plants, providing insights for further research and classification of traditional medicinal plants.
MICROSCOPY RESEARCH AND TECHNIQUE
(2022)
Article
Agronomy
Javed Iqbal, Nasiruddin Shaikh, Moinuddin Ahmed, Wajid Zaman, Adam Khan, Asma Ayaz, Diaa O. El-Ansary, Hanoor Sharma, Hosam O. Elansary, SeonJoo Park
Summary: This study used multivariate analysis to explore the moist temperate forests of the Shangla district, Khyber Pakhtunkhwa, aiming to quantitatively describe and differentiate the vegetation groups and their determining factors. The results showed that elevation was the prominent factor influencing the composition of plant communities, while soil characteristics, soil moisture, and other environmental factors also had a significant relationship with vegetation.
Article
Biochemistry & Molecular Biology
Gurusamy Raman, SeonJoo Park
Summary: In this study, the complete chloroplast genome of Cardamine occulta was assembled and analyzed, revealing unique genetic characteristics and evolutionary insights. The identified genetic markers and phylogenetic relationships provide valuable information for species validation in the Cardamine genus.
FRONTIERS IN BIOSCIENCE-LANDMARK
(2022)