Article
Plant Sciences
Jiangna Liu, Teame Gereziher Mehari, Yanchao Xu, Muhammad Jawad Umer, Yuqing Hou, Yuhong Wang, Renhai Peng, Kunbo Wang, Xiaoyan Cai, Zhongli Zhou, Fang Liu
Summary: The study demonstrates that the GhGLK1 gene plays a key role in the drought and cold stress response in cotton, with its overexpression improving plant adaptability. Wild cotton shows greater potential in coping with various stresses.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Biodiversity Conservation
Danping Xu, Jiayong Li, Tianhui Zhu, Hongjun Yang, Zhihang Zhuo
Summary: The study focused on transcriptomic analysis of Salix cupularis under drought stress, identifying numerous differentially expressed genes (DEGs) between control and stressed seedlings. Through various analytical methods, the study obtained valuable genetic information related to DEGs, laying a theoretical foundation for future research.
GLOBAL ECOLOGY AND CONSERVATION
(2021)
Article
Plant Sciences
Anil Kumar, Nasreen Bano, Mohd Akram Ansari, Varun Kumar, Sumit K. Bag, Indraneel Sanyal
Summary: This study investigated the drought tolerance of transgenic Arabidopsis over-expressing the chickpea glutaredoxin gene, CaGrx. Transcriptomic studies revealed that the CaGrx gene up-regulated genes involved in the plant defense system, leading to improved drought tolerance. The findings suggest that CaGrx plays a crucial role in enhancing the plant's adaptive response to drought stress.
ACTA PHYSIOLOGIAE PLANTARUM
(2023)
Article
Plant Sciences
Ning Ding, Ying Zhao, Weixiang Wang, Xuyang Liu, Wentong Shi, Dengfeng Zhang, Jiajie Chen, Shuo Ma, Qingpeng Sun, Tianyu Wang, Min Lu
Summary: The ZmNAP, ZmNAC19, ZmNAC4, ZmJUB1, and ZmNAC87 genes in maize NAC gene family were found to be significantly upregulated under drought stress, and their overexpression in Arabidopsis can significantly improve its drought tolerance. These findings indicate that these genes play important roles in plant responses to drought stress and have potential for use in bioengineering breeding and drought tolerance improvement.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Immunology
Jun Yan, Zhijun Yang, Jing Xie
Summary: This study conducted a comparative transcriptome analysis to investigate the gene expression differences between the biofilm formed by S. putrefaciens under refrigerating and optimal temperatures. The results showed that the biofilm formed under low temperature had a larger biomass and tighter structure. Several metabolic pathways were regulated under cold stress, promoting the biofilm formation of S. putrefaciens.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Plant Sciences
Maria Isabel Fuentes-Merlos, Masaru Bamba, Shusei Sato, Atsushi Higashitani
Summary: Grafting can enhance drought tolerance in tomatoes by inducing changes in gene expression related to plant hormones, stress response, and cell proliferation. Transcriptomic analysis revealed differential gene expression between grafted and non-grafted plants under drought stress conditions.
Article
Biology
Yaser Biniaz, Ahmad Tahmasebi, Aminallah Tahmasebi, Benedicte Riber Albrectsen, Peter Poczai, Alireza Afsharifar
Summary: Meta-analysis and systems-biology analysis were used to reveal molecular plant defense responses in Arabidopsis thaliana when attacked by pathogens. Differentially expressed genes involved in various metabolic pathways and transcription factors were highlighted. The research provides insights into the activation of different transcriptome responses in plants under pathogen infection and the importance of common genes in regulating plant responses to pathogens.
Article
Biotechnology & Applied Microbiology
Fei Li, Qian Hu, Fadi Chen, Jia Fu Jiang
Summary: The study demonstrates that vernalization and cold acclimation are two independent processes, with Arabidopsis plants showing three major networks related to ethylene and jasmonic acid response, cold acclimation, and chromatin modification after prolonged cold exposure.
Review
Plant Sciences
Susana Garcia-Sanchez, Michal Gala, Gabriel Zoldak
Summary: Transcriptomics studies show that nanomaterials have potential toxicity in plants, affecting stress-responsive genes, but overall impact on the transcriptome is minimal. Environmental challenges like pathogens, salinity, or drought induce stronger transcriptional responses compared to nanoparticles. Plants lack specific gene regulation for novel nanomaterials, using common regulatory circuits with other stress responses such as inhibition of genes for root development and pathogen response. Other reviewed works also support these findings.
Article
Multidisciplinary Sciences
Karolina M. Czajka, Kabwe Nkongolo
Summary: This study investigated the gene expression dynamics of Trembling Aspen under nickel stress to elucidate the resistance mechanisms. RNA sequencing revealed upregulation of ribosomal and translation activities, as well as downregulation of signal transduction and cellular protein process genes in the resistant genotypes. Additionally, a metal transport protein was among the highly upregulated genes in resistant plants.
Article
Plant Sciences
Paolo Korwin Krukowski, Ivan Visentin, Giulia Russo, Daniela Minerdi, Abdelhafid Bendahmane, Andrea Schubert, Francesca Cardinale
Summary: This study reveals that Strigolactones (SLs) are the master regulators of transcriptional memory upon drought in Arabidopsis, and this role is partially mediated by the BES1 transcription factor. SLs play a crucial role in achieving the complete after-effect of drought by modulating the transcription patterns of a large subset of genes, especially those related to abscisic acid metabolism and signaling. Promoter-enrichment analysis identified potential cis- and trans-acting factors involved in the SL-dependent and SL-independent regulation of genes during drought and recovery.
PLANT AND CELL PHYSIOLOGY
(2023)
Article
Multidisciplinary Sciences
Rio Nakayama, Mohammad Taheb Safi, Waisuddin Ahmadzai, Kazuhiro Sato, Kanako Kawaura
Summary: This study investigates the molecular mechanisms of salt tolerance in common wheat and synthetic hexaploid (SH) wheat through RNA sequencing and QTL analysis. The findings reveal that salt tolerance in common wheat is mainly regulated by transporters, while SH wheat enhances salt tolerance through the activation of reactive oxygen species signaling pathway and ERF transcription factors.
SCIENTIFIC REPORTS
(2022)
Article
Plant Sciences
Maya Giridhar, Bastian Meier, Jafargholi Imani, Karl-Heinz Kogel, Edgar Peiter, Ute C. Vothknecht, Fatima Chigri
Summary: This study introduces the Ca2+ reporter-encoding gene APOAEQUORIN into the crop species barley and explores tissue-specific Ca2+ signals and stimulus-specific kinetics. The findings suggest notable differences between barley and Arabidopsis in stress response mechanisms and highlight the importance of understanding Ca2+ signaling in crop species.
Article
Plant Sciences
Tianyuan Qin, Chao Sun, Ali Kazim, Song Cui, Yihao Wang, Dormatey Richard, Panfeng Yao, Zhenzhen Bi, Yuhui Liu, Jiangping Bai
Summary: The selection and breeding of deep rooting and drought-tolerant varieties can improve the yield and adaptability of potato in arid and semiarid areas. This study identified root-development-related genes and drought tolerance signaling pathways in potato by comparing genotypes with different levels of drought tolerance. Functional enrichment analysis revealed genotype-specific biological processes involved in drought stress tolerance.
Article
Plant Sciences
Armando Pacheco-Valenciana, Carlos Lopez-Ortiz, Purushothaman Natarajan, Thangasamy Saminathan, Padma Nimmakayala, Umesh K. Reddy
Summary: This study investigated the molecular mechanisms for BTEX stress response in two Arabidopsis thaliana ecotypes with contrasting BTEX tolerance. Through transcriptomic and physiological analysis, the researchers identified DEGs associated with pathways such as glutathione transferase activity, photosynthesis light harvesting, cellular response to ethylene, and biosynthesis of secondary metabolites. They also identified two candidate genes, BZIP60 and a hypothetical protein, showing higher BTEX sensitivity in T-DNA knockout mutants.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2022)
Review
Environmental Sciences
Ashutosh Kumar Singh, Xiai Zhu, Chunfeng Chen, Junen Wu, Bin Yang, Sissou Zakari, Xiao Jin Jiang, Nandita Singh, Wenjie Liu
Summary: There is a direct link between increasing human population and soil degradation, necessitating soil amelioration to address food security concerns. Glomalin, a substance produced by arbuscular mycorrhizal fungi (AMF), plays a crucial role in mitigating soil degradation by improving soil properties, carbon sequestration, nutrient contents, and microbial activities.
CRITICAL REVIEWS IN ENVIRONMENTAL SCIENCE AND TECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Juhi Khurana, Ashish Shrivastava, Ashutosh Singh, Ashish Gupta
Summary: This study evaluated the potential of PfRUVBLs (AAA family member proteins) as novel anti-malarial drug targets using computational approaches. Virtual screening and docking led to the identification of compounds that showed affinity for the active region of PfRUVBL1 protein. These compounds have the potential to be potent inhibitors of PfRUVBL1 protein and can be further tested for anti-malarial activity.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Agronomy
Junen Wu, Huanhuan Zeng, Fan Zhao, Chunfeng Chen, Ashutosh Kumar Singh, Xiaojin Jiang, Bin Yang, Wenjie Liu
Summary: This study used stable isotope approach to investigate the temporal dynamics of plant hydrological niches and found that resource partitioning among plant species becomes increasingly uniform and stable with an increase in species richness. Furthermore, the study showed that higher species diversity and smaller resource use advantages among species make it easier for competitive reversals to occur.
AGRICULTURAL AND FOREST METEOROLOGY
(2022)
Article
Plant Sciences
Mallana Gowdra Mallikarjuna, Rinku Sharma, Palanisamy Veeraya, Akshita Tyagi, Atmakuri Ramakrishna Rao, Lohithaswa Hirenallur Chandappa, Viswanathan Chinnusamy
Summary: This study investigated maize GPXs using evolutionary and functional analyses, identifying seven GPX genes with splice variants and examining their role in stress tolerance.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Review
Engineering, Chemical
Saikat Sinha Ray, Rohit Kumar Verma, Ashutosh Singh, Mahesh Ganesapillai, Young-Nam Kwon
Summary: In recent years, deep learning and machine learning have emerged as potential technologies widely applied in the fields of science, engineering, and technology, specifically in the optimization of seawater desalination and water treatment processes. Artificial intelligence has played a key role in addressing issues such as monitoring, management, and labor costs. This article thoroughly reviews the application of AI in the water treatment and seawater desalination sectors, compares conventional modeling approaches with artificial neural network modeling, and discusses challenges, shortcomings, and future prospects. The use of AI mechanisms in data processing, optimization, modeling, prediction, and decision-making during water treatment and seawater desalination processes are emphasized, along with innovative trends in these areas.
Article
Biochemistry & Molecular Biology
Rachana S. S. Bhimanwar, Kiran Bharat Lokhande, Ashish Shrivastava, Ashutosh Singh, Sohan S. S. Chitlange, Amit Mittal
Summary: Cell surface bile acid receptor TGR5, expressed in various tissues, plays a major role in maintaining blood sugar levels and increasing energy expenditure. It has the potential to be a treatment for type 2 diabetes, obesity, and other metabolic disorders. By using structure-based virtual screening and molecular docking, designed coumarin derivatives were found to have promising activity as TGR5 agonists.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Soil Science
Chunfeng Chen, Ashutosh Kumar Singh, Bin Yang, Haofei Wang, Wenjie Liu
Summary: This study investigated the impact of termite nesting on soil microbial communities and their nutrient cycling functions in the humid tropical region of Southwest China. The results showed that termite mounds shaped microbial communities and influenced soil physicochemical properties. Furthermore, termites reduced microbial processes associated with nutrient cycling in the mounds.
Article
Biochemistry & Molecular Biology
Lynne Rosenberg, Cuining Liu, Rinku Sharma, Cheyret Wood, Carrie A. A. Vyhlidal, Roger Gaedigk, Alvin T. T. Kho, John P. P. Ziniti, Juan C. C. Celedon, Kelan G. G. Tantisira, Scott T. T. Weiss, Michael J. J. McGeachie, Katerina Kechris, Sunita Sharma
Summary: Intrauterine smoke exposure during early childhood may have a negative impact on lung function and asthma susceptibility. This study aimed to investigate the effects of intrauterine smoke exposure on miRNA expression during human lung development and its association with future asthma and allergy risk. The findings suggest that certain miRNAs are dysregulated by intrauterine smoke exposure and may be relevant for subsequent allergy and asthma risk. This study provides important insight into the developmental origins of asthma and allergic disorders.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Kiran Bharat Lokhande, Ashish Shrivastava, Ashutosh Singh
Summary: Monkeypox virus (MPXV) outbreak outside endemic areas poses a global public health emergency. Lack of effective treatment for this zoonotic infection necessitates urgent discovery of new medications. This study uses advanced computational techniques to identify potential lead compounds targeting key MPXV proteins. The findings provide valuable insights for drug development and treatment of human MPXV infection.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Biochemistry & Molecular Biology
Kiran Bharat Lokhande, Sarika Vishnu Pawar, Smriti Madkaiker, Ashish Shrivastava, Swamy K. Venkateswara, Neelu Nawani, Minal Wani, Payel Ghosh, Ashutosh Singh
Summary: The nosocomial infection outbreak caused by Pseudomonas aeruginosa is a major public health concern due to the spread of multi-drug resistant strains. MurG glycotransferase, which plays a crucial role in bacterial cell wall synthesis, is a potential target for treating P. aeruginosa infection. The crystal structure of P. aeruginosa MurG was analyzed computationally to identify potential inhibitors. Theobromine, demethoxycurcumin, 2-alpha-hydroxycostic acid, aurantiamide, and petasiphenol were identified as potential inhibitors.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Biochemistry & Molecular Biology
Pallavi More-Adate, Kiran Bharat Lokhande, Ashish Shrivastava, Sayali Doiphode, Shuchi Nagar, Ashutosh Singh, Akshay Baheti
Summary: In this study, certain compounds in the plant extracts of Bauhinia variegata were found to have high binding ability to tumor suppressor protein p53, with excellent pharmacokinetic features. These druggable phytochemicals could potentially serve as lead candidates for the treatment of triple negative breast cancer.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Ecology
Bin Yang, Gbadamassi G. O. Dossa, Yue-Hua Hu, Lu-Lu Liu, Xian-Jing Meng, Yi-Yuan Du, Jia-Yuan Li, Xi-Ai Zhu, Yong-Jiang Zhang, Ashutosh K. Singh, Xia Yuan, Jun-En Wu, Sissou Zakari, Wen-Jie Liu, Liang Song
Summary: The successful use of stable isotopes (δH-2 and δO-18) in ecohydrological studies depends on the accurate extraction of unfractionated water from different soil samples. Cryogenic vacuum distillation (CVD) is a commonly used technique for soil water extraction; however, its reliability in reflecting soil water isotopic values is still a concern.
METHODS IN ECOLOGY AND EVOLUTION
(2023)
Article
Cell Biology
Rinku Sharma, Anshul Tiwari, Alvin T. Kho, Juan C. Celedon, Scott T. Weiss, Kelan G. Tantisira, Michael J. McGeachie
Summary: This study aimed to identify associations between circulating miRNAs and inhaled corticosteroid (ICS) response in children with asthma. The results showed that miR-28-5p, miR-339-3p, and miR-432-5p were positively associated with ICS response, and miR-339-3p may be involved in immune dysregulation leading to poor response to ICS treatment.
Article
Biochemistry & Molecular Biology
Binayak Kumar, Peeyush Prasad, Ragini Singh, Ram Krishna Sahu, Ashutosh Singh, Srikrishna Jayadev Magani, Suresh Hedau
Summary: Resistance to Ab and Pb drugs was developed in breast cancer cells, showing increased drug tolerance and enhanced growth potential. Changes in gene expression and protein profiling revealed potential molecular signature and new drug targets for overcoming drug resistance in breast cancer.