Article
Plant Sciences
Tao Yan, Meng Sun, Rui Su, Xiaozhong Wang, Xuedan Lu, Yunhua Xiao, Huabing Deng, Xiong Liu, Wenbang Tang, Guilian Zhang
Summary: Cold stress has a significant impact on the growth and development of rice, particularly the susceptible indica cultivar. This study identified genes and transcription factors associated with cold responsiveness in indica rice and revealed the molecular mechanisms underlying cold responses, providing important insights for enhancing cold tolerance in susceptible varieties.
Article
Biochemistry & Molecular Biology
Soraya Mousavi, Roberto Mariotti, Maria Cristina Valeri, Luca Regni, Emanuele Lilli, Emidio Albertini, Primo Proietti, Daniela Businelli, Luciana Baldoni
Summary: This study evaluated the salt tolerance of four olive cultivars and identified key genes involved in salt stress response. The results showed that Koroneiki was the most salt-tolerant cultivar, while Fadak86 and Picual were the most susceptible ones. The expression analysis of candidate genes suggested the important roles of OeNHX7, OeP5CS, OeRD19A, and OePetD in activating a salt tolerance mechanism.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Jingwen Shi, Ying Huang
Summary: By using bioinformatics analysis, this study explored the potential genetic targets of adenomyosis. The results suggest that genes involved in tight junction may play a key role in the development of adenomyosis and could be a potential treatment strategy.
Article
Biochemistry & Molecular Biology
Stanislav Kotlyarov
Summary: Atherosclerosis is a serious medical condition that develops over many years and involves multiple cells and factors of clinical interest. This study investigated the gene ontology of differentially expressed genes in endothelial cells under the influence of atherogenic factors such as smoking, oscillatory shear, and oxidized low-density lipoproteins. The results showed that these genes were mainly involved in cytokine-mediated signaling pathway, innate immune response, lipid biosynthetic process, and nitric-oxide synthase activity.
Article
Plant Sciences
Maria Jurado, Ana Campa, Juan Jose Ferreira
Summary: This study identified differentially expressed genes (DEGs) related to response to anthracnose in common bean crops. The resistant genotype exhibited enriched GO terms associated with stimulus response, hormone signaling, cellular component organization, phosphorylation activities, and transcriptional regulation. The region containing the Co-2 cluster, a resistance gene, was identified and found to contain 23 DEGs, including 8 typical R genes. The structural changes observed in this region were used to design potential DNA markers for breeding purposes.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Endocrinology & Metabolism
Luis Dias Ferreira Soares, Gerda Cristal Villalba Silva, Francyne Kubaski, Roberto Giugliani, Ursula Matte
Summary: This study developed a database containing differentially expressed genes from different public MPS data. Users can search for genes by species, MPS type, or tissue type, and view heatmaps and dot plots for top genes and ontologies.
MOLECULAR GENETICS AND METABOLISM
(2021)
Article
Multidisciplinary Sciences
Hai-Bo Zhang, Xiao-Bao Ding, Jie Jin, Wen-Ping Guo, Qiao-Lei Yang, Peng-Cheng Chen, Heng Yao, Li Ruan, Yu-Tian Tao, Xin Chen
Summary: The house mouse is a valuable mammalian model for genetic research, offering insights into human diseases. To facilitate molecular mechanism studies in mice, researchers have developed the Mouse Interactome Database and a gene set linkage analysis web tool.
Article
Biotechnology & Applied Microbiology
Yong Liu, Jing Huang, Rajan Pandey, Pengyuan Liu, Bhavika Therani, Qiongzi Qiu, Sridhar Rao, Aron M. Geurts, Allen W. Cowley Jr, Andrew S. Greene, Mingyu Liang
Summary: This study found that in order to accurately identify differentially expressed genes (DEGs) with various characteristics in single-cell clusters, there need to be at least 2000 cells. However, for the majority of DEGs with extremely small p values or transcript abundance greater than a few hundred transcripts per million in bulk RNA-seq analysis, clusters with as few as 50-100 cells may be sufficient.
Article
Biochemistry & Molecular Biology
Ningning Wang, Fan Qi, Fu Wang, Yujie Lin, Chunxiao Xiaoyang, Zhanwu Peng, Bi Zhang, Xin Qi, Michael K. Deyholos, Jian Zhang
Summary: Drought stress significantly affects flax plants, causing wilting of leaves and increasing lignin content in fiber flax. The study highlights the rapid responses of flax to drought stress, including morphological, physiological, biochemical, and gene expression changes. These findings provide important evidence for understanding the mechanisms underlying plant response to drought stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Genetics & Heredity
Monika Reissmann, Abirami Rajavel, Zaur A. Kokov, Armin O. Schmitt
Summary: RNA sequencing was used to analyze the gene expression profiles in the blood of Kabardian horses after endurance runs. Differentially expressed genes involved in stress response and metabolism were identified, which can be potential candidates for monitoring and evaluating horse performance and determining their suitability for endurance races.
Article
Biochemistry & Molecular Biology
Leisheng Shi, Yan Wang, Chong Li, Kunlin Zhang, Quansheng Du, Mei Zhao
Summary: AddictGene is a resource that integrates multidimensional data related to commonly abused substances, including gene expression, gene-gene interaction, gene-drug interaction, and epigenetic regulatory information. This database provides detailed information about differentially expressed genes, offering a valuable resource for studying the molecular mechanisms underlying addiction.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Svetlana Shikhevich, Irina Chadaeva, Bato Khandaev, Rimma Kozhemyakina, Karina Zolotareva, Anna Kazachek, Dmitry Oshchepkov, Anton Bogomolov, Natalya V. Klimova, Vladimir A. Ivanisenko, Pavel Demenkov, Zakhar Mustafin, Arcady Markel, Ludmila Savinkova, Nikolay A. Kolchanov, Vladimir Kozlov, Mikhail Ponomarenko
Summary: Mainstream transcriptome profiling of susceptibility versus resistance to age-related diseases (ARDs) focuses on differentially expressed genes (DEGs) specific to gender, age, and pathogeneses. In this study, the periaqueductal gray (PAG) transcriptome of tame versus aggressive rats was sequenced and compared with known ARD-linked DEGs in animals. The analysis revealed significant correlations between behavior-related DEGs and ARD-susceptibility-related DEGs. With human ARD susceptibility and resistance DEGs as controls, a common molecular marker for ARDs was identified: excess expression of Fc gamma receptor IIb suppressing immune cell hyperactivation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biology
Bokang Ko, Jeremy M. Van Raamsdonk
Summary: Gene expression studies provide valuable insights into biological processes, such as aging. This study shows that pooling individual RNA samples before sequencing can yield similar results as sequencing them individually, reducing the cost of experiments. Analysis of gene expression changes across the genome is a powerful and unbiased tool for understanding molecular mechanisms.
Article
Medicine, General & Internal
Hailong Zhou, Jianmin Jiang, Xiaohua Chen, Zhiwei Zhang
Summary: This study investigated the genes, miRNAs, pathways, and miRNA-gene interaction pairs involved in female osteoporosis. The results revealed the important roles of miRNAs and genes in the pathogenesis of osteoporosis, and identified several pathways related to the disease.
Article
Cell Biology
Xue-Min Cao, Sheng-Long Li, Yu-Qi Cao, Ye-Hua Lv, Ya-Xian Wang, Bin Yu, Chun Yao
Summary: The initial mechanical damage of a spinal cord injury triggers a complex secondary injury cascade involving multiple systems and cells. This study analyzed the differences in gene expression between rostral and caudal regions after injury and identified distinct biological process alterations in these two segments, providing new insights into the pathology of SCI.
NEURAL REGENERATION RESEARCH
(2022)
Review
Food Science & Technology
Pavan Kumar, Nitin Mehta, Ahmed Abubakar Abubakar, Akhilesh Kumar Verma, Ubedullah Kaka, Neelesh Sharma, Awis Qurni Sazili, Mirian Pateiro, Manoj Kumar, Jose M. Lorenzo
Summary: With the increasing global population, meeting the demand for animal protein through conventional methods is impossible. To ensure sustainable supply, a holistic approach involving plant-based meat analogs, in vitro meat, insects, and single-cell proteins is required. However, there are challenges in technology, food safety, and regulation.
FOOD REVIEWS INTERNATIONAL
(2023)
Article
Medicine, Research & Experimental
Yunji Heo, Mangeun Kim, Godagama Gamaarachchige Dinesh Suminda, Yunhui Min, Yaping Zhao, Mrinmoy Ghosh, Young-Ok Son
Summary: Holistic healthcare practitioners are exploring the use of Ganoderma lucidum (GL) mushroom, which has been used in traditional Chinese medicine for centuries, to treat rheumatoid arthritis (RA). A study found that GL spores (GLS) oil, rich in oleic and linoleic acids, significantly reduced clinical scores and inflammation in a RA mouse model. GLS oil also suppressed neutrophil infiltration and IL-6 expression, suggesting its potential use in the development of RA drugs. However, further clinical research is needed to support these findings.
BIOMEDICINE & PHARMACOTHERAPY
(2023)
Article
Genetics & Heredity
Rakesh Kumar Panda, Saumya Darshana Patra, Nirmal Kumar Mohakud, Bikash Ranjan Sahu, Mrinmoy Ghosh, Namrata Misra, Mrutyunjay Suar
Summary: This study examined an MDR Salmonella strain isolated from gastroenteritis patients in Odisha, India and investigated its genomic architecture, distribution of pathogenic island regions, and virulence factor diversity. Whole-genome sequencing was performed using the Illumina HiSeq X sequencer system. The research results may contribute to the accurate diagnosis and monitoring of MDR Salmonella strains.
Review
Cell & Tissue Engineering
Paramjeet Sharma, Neelesh Sharma, Shanti Choudhary, Priyanka Luhach, Ratan K. Choudhary
Summary: The utility of animal stem cells extends to enhancing milk, meat, and fiber production as well as serving as animal models for human diseases. Stem cells play important roles in tissue development, growth, repair, and regenerative therapy. Goat embryonic stem cells, induced pluripotent stem cells, mammary stem cells, mesenchymal stem cells, spermatogonial stem cells, and others have great potential in both increasing goat production potential and serving as a model for studying human diseases. This review provides an overview of research on caprine stem cells and highlights their potential applications in caprine regenerative medicine and as a model animal for understanding human diseases.
CURRENT STEM CELL RESEARCH & THERAPY
(2023)
Review
Biochemistry & Molecular Biology
Yunhui Min, Godagama Gamaarachchige Dinesh Suminda, Yunji Heo, Mangeun Kim, Mrinmoy Ghosh, Young-Ok Son
Summary: Emerging nanoscience allows us to apply advanced techniques to solve environmental and biological problems. However, the potential risks of nanotechnology are still uncertain. The field of nanotoxicology is focused on analyzing data from in vitro and in vivo investigations to understand the effects of metal-based nanoparticles on live beings. Factors such as size, shape, and chemical composition determine the degree of oxidative stress and health consequences caused by material nanoparticles.
Review
Food Science & Technology
Syahira Izyana Mohd Azmi, Pavan Kumar, Neelesh Sharma, Awis Qurni Sazili, Sung-Jin Lee, Mohammad Rashedi Ismail-Fitry
Summary: Papain, bromelain, and ficin are commonly used plant proteases for meat tenderization. Other plant proteases, such as actinidin, zingibain, and cucumin, have also been explored. The use of plant crude extracts or powders with higher levels of compounds that have tenderizing effects is gaining popularity due to their lower cost and additional benefits, such as antioxidants and antimicrobial effects.
Article
Environmental Sciences
Ze-Min Zhao, Su Mei, Qi-Yue Zheng, Jiao Wang, Yi-Ru Yin, Jiao-Jiao Zhang, Xian-Zhong Wang
Summary: This study shows that lead acetate exposure can impair reproductive function in male mice, including reducing sperm quality and inducing inflammatory damage. Oxidative stress and inflammatory response are key mechanisms underlying these adverse effects of lead acetate. Melatonin and vitamin C can serve as effective measures to counteract the toxic effects of lead acetate.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Review
Biochemistry & Molecular Biology
Yuhan Yang, Yuan Wang, Shang Wei, Xianzhong Wang, Jiaojiao Zhang
Summary: Non-thermal plasma (NTP) is an ionized gas composed of reactive species, electric fields, and ultraviolet radiation. It can affect animal health by mediating reactive oxygen species (ROS) levels and has a wide range of potential applications.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Engineering, Chemical
Vancha Harish, M. M. Ansari, Devesh Tewari, Awadh Bihari Yadav, Neelesh Sharma, Sweta Bawarig, Maria-Luisa Garcia-Betancourt, Ali Karatutlu, Mikhael Bechelany, Ahmed Barhoum
Summary: This comprehensive review explores the cutting-edge advancements in tailoring the size, shape, and functionality of nanoparticles and nanostructures. It covers a wide array of advanced mechanical, physical, chemical, and biological approaches utilized in their production. The review encompasses an extensive range of synthesis methods, including mechanical milling, high-pressure homogenization, physical vapor deposition, and many others.
JOURNAL OF THE TAIWAN INSTITUTE OF CHEMICAL ENGINEERS
(2023)
Article
Agriculture, Dairy & Animal Science
Cristina Simoes Cortinhas, Carlos Eduardo Fidelis, Neelesh Sharma, Marcos Veiga dos Santos
Summary: This study aimed to investigate the association between bulk tank somatic cell count (SCC) and dairy farmers' knowledge about milk quality, mastitis control, and their socioeconomic characteristics. The results showed significant associations between SCC and parameters such as the economic impact of mastitis, milking procedures, methods for subclinical mastitis detection, and awareness of legal requirements for SCC and total bacterial count (TBC). These findings highlight the importance of knowledge and socioeconomic profiles in maintaining and enhancing milk quality in dairy herds.
Review
Veterinary Sciences
Savleen Kour, Neelesh Sharma, N. Balaji, Pavan Kumar, Jasvinder Singh Soodan, Marcos Veiga dos Santos, Young-Ok Son
Summary: This article discusses the clinical relevance, causative pathogens, economic factors, diagnostic techniques, and alternative therapeutic protocols of mastitis. The challenges of traditional antibiotic-based therapies require the application of novel therapeutic technologies. Mastitis causes significant economic losses and affects the quality and quantity of milk.
VETERINARY SCIENCES
(2023)
Article
Agriculture, Dairy & Animal Science
Pavan Kumar, Neelesh Sharma, Lokesh Kumar Narnoliya, Akhilesh Kumar Verma, Nitin Mehta, Prakrutik Prafulchandra Bhavsar, Arvind Kumar, Sun-Jin Lee, Awis Qurni Sazili
Summary: In-vitro meat production is transitioning from the conceptual-laboratory phase to pilot-commercial scale production. The main challenge lies in the high cost, mainly due to expensive cell culture media, growth regulators, and skilled manpower. The development of serum-free and animal-free culture media using recombinant technology and media recycling is crucial for scaling up production and reducing costs. Researchers are currently focusing on designing specific bioreactors, automating processes, utilizing natural and edible scaffolds, and co-culturing different cells to mimic conventional meat. However, limited availability of industry protocols hinders further research.
ANNALS OF ANIMAL SCIENCE
(2023)
Review
Biochemistry & Molecular Biology
Yijiao Wu, Shiyu Yu, Xiyin Zhang, Xianzhong Wang, Jiaojiao Zhang
Summary: Cold plasma, as an innovative technology, has a wide range of applications in oral treatment, tissue regeneration, wound healing, and cancer therapy. It regulates cell activity through the production of reactive oxygen species (ROS), promoting proliferation in skin-related cells and angiogenesis for wound healing but inhibiting cell proliferation in high levels. Cold plasma also has potential applications in animal husbandry, such as improving chicken growth and reproductive capacity and killing microorganisms on animal food surfaces. However, the molecular mechanism of cold plasma on cell activity and its applications in animal husbandry require further research.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Engineering, Environmental
Godagama Gamaarachchige Dinesh Suminda, Yunhui Min, Min Woo Ha, Mrinmoy Ghosh, Dong-Sun Lee, Young-Ok Son
Summary: The study explores the role of arsenic (As) in the development of osteoarthritis (OA) in mice. Through chemical inhibition and inductively coupled plasma mass spectrometry analyses, the researchers identified the effects of As on chondrocytes and its accumulation in organs after oral administration. The findings show that As leads to heightened cartilage destruction and influences crucial cellular functions, activating specific pathways that disrupt articular cartilage homeostasis.
JOURNAL OF HAZARDOUS MATERIALS
(2024)
Article
Chemistry, Multidisciplinary
Tian Gao, Shengnan Guo, Jiaojiao Zhang, Jintao Chen, Shiru Yin, Na Peng, Qun Cai, Huan Xu, Yi Liu
Summary: The synthesis of low-cost and high-efficiency multicolour emitting graphene quantum dots (GQDs) from lignin has been successfully achieved in this study. The high crystallization and single-layered structure of the synthesized GQDs were confirmed using HRTEM. By analyzing XPS and FT-IR spectra, the formation mechanism of GQDs derived from lignin at the molecular level was investigated. Furthermore, the application of multicolour-emitting GQDs derived from lignin in LEDs was demonstrated, offering a new path for converting sustainable biomass into high-value nanomaterials.