Review
Plant Sciences
Asem Mipeshwaree Devi, Khomdram Khedashwori Devi, Pukhrambam Premi Devi, Moirangthem Lakshmipriyari Devi, Sudripta Das
Summary: Plants produce secondary metabolites that are important for their primary functions. Some of these metabolites have benefits for human health. The CRISPR/Cas9-mediated system has been widely used for genome editing and functional genomics, but it also faces challenges in plant applications.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Oncology
Enrico Moiso, Paolo Provero
Summary: This study systematically investigates the associations between metabolic alterations and other tumor features using a comprehensive collection of data. The results provide a guide for formulating specific mechanistic hypotheses and contribute to our understanding of the role of metabolic alterations in cancer and the development of precision therapeutic strategies.
Review
Biotechnology & Applied Microbiology
Sunita, Yogendra Singh, Gillian Beamer, Xingmin Sun, Pratyoosh Shukla
Summary: Tuberculosis is a prevalent global disease, and current vaccines are not sufficient in protection. Despite many vaccines being evaluated in clinical trials, none have proven significantly successful yet. Therefore, new strategies are urgently needed to design more effective TB vaccines, and the emergence of new technologies will accelerate this process.
CRITICAL REVIEWS IN BIOTECHNOLOGY
(2022)
Editorial Material
Multidisciplinary Sciences
Anthony J. Hannan
Summary: The study found a link between tandem repeats in DNA and autism spectrum disorder, which could provide insights into other human disorders. Bioinformatic analysis was used to study tandem repeat mutations in autism.
Article
Biochemistry & Molecular Biology
Charles Hawkins, Daniel Ginzburg, Kangmei Zhao, William Dwyer, Bo Xue, Angela Xu, Selena Rice, Benjamin Cole, Suzanne Paley, Peter Karp, Seung Y. Rhee
Summary: The research team created metabolic pathway databases of 126 plant and algal genomes, improving quality through a semi-automated validation process. They compared metabolic content across organisms, identifying distinct metabolic groups, and demonstrated the utility of the resource in plant biology research.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Max G. Schubert, Daniel B. Goodman, Timothy M. Wannier, Divjot Kaur, Fahim Farzadfard, Timothy K. Lu, Seth L. Shipman, George M. Church
Summary: RLR is a high-throughput method for genetic variant screening, utilizing retrons' reverse transcription activity to produce ssDNA for editing, introducing multiple genomic variants with barcoding for targeted deep sequencing, and suitable for natural variation screening.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Multidisciplinary Sciences
Xinmiao Zhang, Jiajia Feng, Ruolin Zhao, Hailiang Cheng, Javaria Ashraf, Qiaolian Wang, Limin Lv, Youping Zhang, Guoli Song, Dongyun Zuo
Summary: The GhNRT2.1e gene in G. hirsutum was found to be up-regulated under low nitrate conditions, contributing to increased nitrate uptake and transport, and thereby improving nitrogen use efficiency in cotton.
Editorial Material
Multidisciplinary Sciences
Amber Dance
Summary: Methods that combine imaging with sequencing are revealing the organizational principles of the genome and its impact on cell fates.
Article
Multidisciplinary Sciences
Xiaoxin Zhai, Jiaoqi Gao, Yunxia Li, Martin Grininger, Yongjin J. Zhou
Summary: Methanol is an ideal feedstock for chemical and biological manufacturing. Constructing an efficient cell factory is essential for producing complex compounds through methanol biotransformation. This study demonstrates that compartmentalizing fatty alcohol biosynthesis and methanol utilization in peroxisomes significantly improves fatty alcohol production in methylotrophic yeast.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Editorial Material
Multidisciplinary Sciences
Minervo Perez, Jordan L. Meier
Summary: The discovery of a new binding partner of lactate sheds light on the connection between nutrient metabolism and cell division.
Article
Biochemistry & Molecular Biology
Robert J. Hall, Jonathan O'Loughlin, Charlotte K. Billington, Dhruma Thakker, Ian P. Hall, Ian Sayers
Summary: GPR126 is an adhesion G protein-coupled receptor associated with lung function and COPD, with identified SNPs affecting its function/expression. Activation of GPR126 in airway cells leads to downstream gene/pathway alterations, suggesting a role in airway remodeling. Further research is warranted to elucidate the exact mechanisms involved.
Review
Nutrition & Dietetics
Diego A. Bonilla, Richard B. Kreider, Jeffrey R. Stout, Diego A. Forero, Chad M. Kerksick, Michael D. Roberts, Eric S. Rawson
Summary: Creatine is a vital molecule synthesized mainly in the liver, kidneys, and pancreas, with its transportation and metabolism playing a crucial role in cellular bioenergetics. The CK/PCr system, essential for cell survival and growth, acts as a dynamic biosensor based on chemo-mechanical energy transduction, impacting various tissues and contributing to a wide range of diseases through dysregulation in Cr metabolism.
Review
Plant Sciences
Sydney Everhart, Nikita Gambhir, Remco Stam
Summary: This article provides a brief overview of topics relevant to the study of population genomics of filamentous plant pathogens, including different research question types, sampling strategies, sequencing strategies, data processing options, and population genomic data analysis tools. It highlights some of the hurdles along the population genomic workflow, offers cautionary warnings relative to assumptions and technical challenges, and presents future perspectives of the field.
Article
Cell Biology
Duncan Wei, Xiaopu Chen, Jing Xu, Wenzhen He
Summary: The immune system is known to play a crucial role in the development of ischaemic stroke, but the exact immune-related mechanism remains unclear. Gene expression data of ischaemic stroke patients and healthy controls were analyzed to identify differentially expressed genes (DEGs). Immune-related genes (IRGs) data was also utilized for further analysis. Based on IRGs and weighted co-expression network analysis (WGCNA), two molecular subtypes of ischaemic stroke were identified. Nine hub genes, including IL7R, ITK, SOD1, CD3D, LEF1, FBL, MAF, DNMT1, and SLAMF1, were found to potentially distinguish between the two subtypes and be associated with immune regulation.
IET SYSTEMS BIOLOGY
(2023)
Review
Plant Sciences
Mutsumi Watanabe, Takayuki Tohge
Summary: Functional genomics approaches have successfully detected key metabolic polymorphisms in plant specialized metabolism through comparative omics analyses of wild-accessions and cultivars/wild species, as well as comparative genomic analyses in plant species focusing on gene clusters. In recent decades, intra-species specific metabolic polymorphisms, new functionalization of tandem duplicated genes, and metabolic gene clusters have been found as the main factors creating metabolic diversity of specialized metabolites in plants. However, strategic approaches depending on the target metabolic pathways are required for gene identification in plant specialized metabolism. The increasing availability of plant genome sequences and transcriptome data has facilitated inter-specific comparative analyses, including genomic analysis and gene co-expression network analysis. Here, we introduce functional genomics approaches with the integration of inter-/intra-species comparative metabolomics, their key roles in providing genomic signatures of metabolic evolution, and discuss future prospects of functional genomics on plant specialized metabolism.
CURRENT OPINION IN PLANT BIOLOGY
(2023)
