Article
Biochemistry & Molecular Biology
Lei Han, Yuling Yang, Haimeng Li, Xiaoyu Zhou, Mengchao Zhou, Tianlu Liu, Yaxian Lu, Qing Wang, Shangcheng Yang, Minhui Shi, Xiuyun Li, Shan Du, Chunyu Guan, Yong Zhang, Wei Guo, Jiangang Wang, Hongliang Chai, Tianming Lan, Huan Liu, Quan Liu, Heting Sun, Zhijun Hou
Summary: This study expands our understanding of the diversity and evolutionary rates of the Ascaridoidea and Heterakoidea families through analyses of mitochondrial genes. The phylogenetic tree divides the Ascaridoidea into six major clades, and the divergence time of the Heterakoidea and Ascaridoidea families can be traced back to the early Carboniferous Period. The gene orders of the Ascaridoidea species are conserved, while the Heterakoidea species exhibit genome rearrangements.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Article
Plant Sciences
Jin Li, Christopher Cullis
Summary: The marama bean, a wild legume from tropical Africa, is being considered as a potential crop for local farmers due to its nutritional value. Research has shown that the mitochondrial genome of marama bean is 399,572 bp in length, with a 9,798 bp DNA fragment homologous to the chloroplast genome. Compared to other legumes, certain genes in the mitochondrial genome of marama have remained intact and functional throughout evolution.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Multidisciplinary Sciences
Min Kang Ling, Nicholas Wei Liang Yap, Iffah Binte Iesa, Zhi Ting Yip, Danwei Huang, Zheng Bin Randolph Quek
Summary: By sequencing and assembling eight mitochondrial genomes from three classes of medusozoan (Cubozoa, Hydrozoa, and Scyphozoa), the authors studied the phylogeny of medusozoans. They found that all reconstructed mitochondrial genomes had a typical gene composition for medusozoans. The gene order in non-cubozoan mitochondrial genomes was consistent, while the Cubozoa mitochondrial genome showed different gene arrangement. Comparative analysis and ancestral state reconstruction indicated minimal rearrangements among medusozoan classes. The findings provide insights into the phylogenetic relationships of medusozoans and expand the available medusozoan mitochondrial genomes.
Article
Agronomy
Xiaoyan Li, Qiuju Han, Mengyao Li, Qing Luo, Shunhua Zhu, Yangxia Zheng, Guofei Tan
Summary: In this study, the mitochondrial genome of watercress was assembled using Illumina and Nanopore sequencing platforms, revealing a circular structure of 384,074 bp with 28 tRNA genes, 3 rRNA genes, and 34 protein-coding genes. The study also identified watercress's codon preference for leucine, isoleucine, and serine, and its close evolutionary relationship with species such as Bupleurum, Apium, Angelica, and Daucus. This research provides a valuable resource for the study of watercress evolution and molecular breeding.
Article
Multidisciplinary Sciences
Lindsey Van Haute, Emily O'Connor, Hector Diaz-Maldonado, Benjamin Munro, Kiran Polavarapu, Daniella H. Hock, Gautham Arunachal, Alkyoni Athanasiou-Fragkouli, Mainak Bardhan, Magalie Barth, Dominique Bonneau, Nicola Brunetti-Pierri, Gerarda Cappuccio, Nikeisha J. Caruana, Natalia Dominik, Himanshu Goel, Guy Helman, Henry Houlden, Guy Lenaers, Karine Mention, David Murphy, Bevinahalli Nandeesh, Catarina Olimpio, Christopher A. Powell, Veeramani Preethish-Kumar, Vincent Procaccio, Rocio Rius, Pedro Rebelo-Guiomar, Cas Simons, Seena Vengalil, Maha S. Zaki, Alban Ziegler, David R. Thorburn, David A. Stroud, Reza Maroofian, John Christodoulou, Claes Gustafsson, Atchayaram Nalini, Hanns Lochmueller, Michal Minczuk, Rita Horvath
Summary: TEFM gene mutations are associated with mitochondrial respiratory chain deficiency and a wide range of clinical presentations, including a treatable neuromuscular transmission defect. The affected individuals show reduced levels of mitochondrial RNA transcripts in muscle and primary fibroblasts. Knockdown of tefm gene in zebrafish embryos resulted in neuromuscular junction abnormalities and abnormal mitochondrial function, further supporting the genotype-phenotype correlation.
NATURE COMMUNICATIONS
(2023)
Article
Plant Sciences
Zhihao Sun, Ya Wu, Pengyu Fan, Dengli Guo, Sanyin Zhang, Chi Song
Summary: This study reports the first complete mitochondrial genome of Prunella vulgaris, obtained by a hybrid assembly strategy using Nanopore and Illumina sequencing. The genome has two circular structures, a total length of 297,777 bp, a GC content of 43.92%, and 29 unique protein-coding genes. Comparative analysis with the chloroplast genome revealed 36 homologous fragments. This work provides valuable genetic information for further studies on Prunella vulgaris.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biotechnology & Applied Microbiology
Yonggang Qiao, Xinrui Zhang, Zheng Li, Yun Song, Zhe Sun
Summary: In this study, the mitochondrial genome of Bupleurum chinense was assembled and annotated. The results provide extensive information about the characteristics of the mitochondrial genome and lay the foundation for future studies on genetic variations, phylogeny, and breeding in B. chinense.
Article
Multidisciplinary Sciences
Benjamin Vernot, Elena Zavala, Asier Gomez-Olivencia, Zenobia Jacobs, Viviane Slon, Fabrizio Mafessoni, Frederic Romagne, Alice Pearson, Martin Petr, Nohemi Sala, Adrian Pablos, Arantza Aranburu, Jose Maria Bermudez de Castro, Eudald Carbonell, Bo Li, Maciej T. Krajcarz, Andrey Krivoshapkin, Kseniya A. Kolobova, Maxim B. Kozlikin, Michael Shunkov, Anatoly P. Derevianko, Bence Viola, Steffi Grote, Elena Essel, David Lopez Herraez, Sarah Nagel, Birgit Nickel, Julia Richter, Anna Schmidt, Benjamin Peter, Janet Kelso, Richard G. Roberts, Juan-Luis Arsuaga, Matthias Meyer
Summary: This study demonstrates the importance of using nuclear DNA extracted from sediments for studying the population history of ancient hominins. Population replacement in northern Spain and radiation events in Neanderthal history during the Late Pleistocene were identified through analysis of cave deposits in western Europe and southern Siberia.
Article
Endocrinology & Metabolism
Shaheen Bibi, Ghulam Abbas, Muhammad Zahoor Khan, Tanzeela Nawaz, Qudrat Ullah, Aziz Uddin, Muhammad Fiaz Khan, Sajid Ul Ghafoor, Muhammad Shahid Nadeem, Sadia Tabassum, Muhammad Zahoor
Summary: This study identifies variations in mitochondrial DNA that may be associated with the development of PCOS and have the potential to serve as predisposition tests. The findings highlight the presence of novel mutations in specific genes and frameshift mutations, contributing to our understanding of the genetic factors underlying the condition.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Article
Evolutionary Biology
Richard C. Winkworth, Grace Neal, Raeya A. Ogas, Briana C. W. Nelson, Patricia A. McLenachan, Stanley E. Bellgard, Peter J. Lockhart
Summary: This study compared and phylogenetically analyzed mitochondrial genome sequences from 15 out of the 19 recognized clades of Peronosporaceae, revealing conservation of mitochondrial genome size and gene content but limited conservation of synteny. It also provided strong support for higher-level relationships within the family using concatenated mitochondrial gene sequences.
GENOME BIOLOGY AND EVOLUTION
(2022)
Article
Biology
Andrew D. Sweet, Kevin P. Johnson, Stephen L. Cameron
Summary: The fragmentation of mitochondrial genomes in parasitic lice has evolved multiple times and is highly variable, showing associations with relaxed selection and lower AT% composition. These findings provide important insights into mitochondrial evolution.
COMMUNICATIONS BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Raymond T. Suhandynata, Yong-Qi Gao, Ann L. Zhou, Yusheng Yang, Pang-Che Wang, Huilin Zhou
Summary: Protein sumoylation, particularly catalyzed by the Mms21 SUMO E3 ligase, plays a crucial role in suppressing duplication-mediated gross chromosomal rearrangements (dGCRs). Esc2, with SUMO-like domains (SLDs), recruits the Ubc9 SUMO conjugating enzyme to enhance Mms21-dependent sumoylation and suppress dGCRs accumulation. The D430R mutation in Esc2 disrupts its interaction with Ubc9, leading to growth defects and dGCRs accumulation, while not significantly affecting sensitivity to DNA damage or dGCRs caused by catalytically inactive mms21-CH.
Article
Evolutionary Biology
Torsten H. Struck, Anja Golombek, Christoph Hoesel, Dimitar Dimitrov, Asmaa Haris Elgetany
Summary: The variability and evolution of the annelid gene order were investigated using a comprehensive and systematic approach. The study found that the gene order with and without tRNAs is generally conserved, but individual taxa exhibit higher degrees of variability. Molecular evolutionary aspects, such as substitution rate and base composition, were found to be the main driving forces behind gene order evolution. Life history and ecological factors did not explain the observed variability. The study also discussed the molecular properties of annelid mitochondrial genomes and potential reasons for the discrepancies with canonical views on gene evolution.
SYSTEMATIC BIOLOGY
(2023)
Article
Plant Sciences
Furong Zhong, Wenjia Ke, Yirou Li, Xiaoyan Chen, Tao Zhou, Binjie Xu, Luming Qi, Zhuyun Yan, Yuntong Ma
Summary: The mitochondrial genomes of Coptis chinensis, Coptis deltoidea and Coptis omeiensis were assembled for the first time, revealing the presence of repeat sequences and foreign sequences related to rearrangements and changes in gene position. Comparative analysis showed that the protein-coding genes under selection pressure mainly belong to mitochondrial complex I. Heat stress negatively affected the mitochondrial complex I and V, antioxidant enzyme system, ROS accumulation and ATP production in Coptis plants.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Evolutionary Biology
Chiara Papetti, Massimiliano Babbucci, Agnes Dettai, Andrea Basso, Magnus Lucassen, Lars Harms, Celine Bonillo, Franz Maximilian Heindler, Tomaso Patarnello, Enrico Negrisolo
Summary: Vertebrate mitochondrial genomes typically have a typical gene order, but Antarctic notothenioid fish exhibit various rearrangements. The mechanisms of rearrangement in notothenioid mitochondrial genomes include transpositions, duplications, and inversions. Antarctic fish mitochondrial genomes show a history of rapid gene order disruptions, likely attributed to pre-existing genomic flexibility and purifying selection for functional restoration.
GENOME BIOLOGY AND EVOLUTION
(2021)
Article
Biochemical Research Methods
Zewdu Ararso, Chuan Ma, Yuping Qi, Mao Feng, Bin Han, Han Hu, Lifeng Meng, Jianke Li
JOURNAL OF PROTEOME RESEARCH
(2018)
Article
Biotechnology & Applied Microbiology
Yong-Qiang Cao, Chuan Ma, Ji-Yue Chen, Da-Rong Yang
Article
Biotechnology & Applied Microbiology
Chuan Ma, Yeying Wang, Chao Wu, Le Kang, Chunxiang Liu
Article
Genetics & Heredity
Bo Zhang, Chuan Ma, Owain Edwards, Susan Fuller, Le Kang
Article
Biochemistry & Molecular Biology
Chuan Ma, Jianke Li
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2018)
Article
Biochemistry & Molecular Biology
Chuan Ma, Pengcheng Yang, Feng Jiang, Marie-Pierre Chapuis, Yasen Shali, Gregory A. Sword, Le Kang
Article
Multidisciplinary Sciences
Chuan Ma, Yeying Wang, Licui Zhang, Jianke Li
SCIENTIFIC REPORTS
(2019)
Article
Food Science & Technology
Chuan Ma, Licui Zhang, Mao Feng, Yu Fang, Han Hu, Bin Han, Lifeng Meng, Jianke Li
Summary: The study compared the metabolic profiles of royal jelly harvested from Italian bees and high royal jelly-producing bees, finding similar quality between the two bee strains and little influence of harvesting time on royal jelly quality. Analysis of metabolic composition provided evidence for mass production of high-quality royal jelly.
FOOD RESEARCH INTERNATIONAL
(2021)
Article
Biochemistry & Molecular Biology
Mao Feng, Yu Fang, Chuan Ma, Xiangyuan Duan, Yanyan Zhang, Bin Han, Han Hu, Lifeng Meng, Fuyi Wang, Jianke Li
Summary: Royal jelly (RJ), a natural honeybee product, has strong antibacterial activities, with N-glycosylated major royal jelly protein 2 (N-MRJP2) inhibiting the growth of Paenibacillus larvae by disturbing cell wall biosynthesis, increasing membrane permeability, hindering respiration, restraining division, and inducing cell death. This suggests that RJ is critical for the immune defense of small larvae.
Article
Genetics & Heredity
Chuan Ma, Jianke Li
Summary: The complete mitochondrial genome of a high royal jelly-producing honeybee strain selected from Italian bees in China was determined. The genetic content was similar to other A. mellifera subspecies. Phylogenetic analysis indicated a close relationship between this strain and previously sequenced Italian bees.
MITOCHONDRIAL DNA PART B-RESOURCES
(2021)
Article
Genetics & Heredity
Chuan Ma, Ruoyang Hu, Cecilia Costa, Jianke Li
Summary: This study sequenced the mitochondrial genomes of genetically selected high royal jelly-producing bees (RJBs) and unselected Italian bees (ITBs). The results showed that RJBs had lower genetic diversity levels and were mainly influenced by genetic drift and purifying selection.
FRONTIERS IN GENETICS
(2022)
Article
Food Science & Technology
Chuan Ma, Beibei Ma, Jianke Li, Yu Fang
Summary: This study investigated the quality changes of royal jelly produced by migratory honeybees at different floral periods. Metabolomics and proteomics analysis revealed variations in the metabolic and proteomic profiles of royal jelly. Minor sugars and a major royal jelly protein were identified as the main components contributing to the altered profiles. The water content, crude protein, and a specific acid content met the international standards regardless of floral periods. Moreover, changes in antioxidants resulted in significant differences in the antioxidant activity of royal jelly.
FOOD RESEARCH INTERNATIONAL
(2022)
Article
Food Science & Technology
Chuan Ma, Buajiram Ahmat, Jianke Li
Summary: This study investigates the effect of queen cell numbers on the quality of royal jelly produced. It is found that increasing queen cell numbers significantly decrease the quality of royal jelly, primarily through reducing fatty acid levels and the content of 10-hydroxy-2-decenoic acid.
CURRENT RESEARCH IN FOOD SCIENCE
(2022)
Article
Genetics & Heredity
Chuan Ma, Licui Zhang, Jianke Li
MITOCHONDRIAL DNA PART B-RESOURCES
(2019)