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TurboCas: A method for locus-specific labeling of genomic regions and isolating their associated protein interactome.
Mol Cell
December 2024
Simpson Querrey Institute for Epigenetics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA; Department of Biochemistry and Molecular Genetics, Northwestern University Feinberg School of Medicine, 303 E. Superior St., Chicago, IL 60611, USA; Robert H. Lurie NCI Comprehensive Cancer Center, Northwestern University Feinberg School of Medicine, 303 E. Superior St., Chicago, IL 60611, USA. Electronic address:
Regulation of gene expression during development and stress response requires the concerted action of transcription factors and chromatin-binding proteins. Because this process is cell-type specific and varies with cellular conditions, mapping of chromatin factors at individual regulatory loci is crucial for understanding cis-regulatory control. Previous methods only characterize static protein binding.
View Article and Find Full Text PDFA core microbiome signature as an indicator of health.
Cell
November 2024
State Key Laboratory of Microbial Metabolism and Ministry of Education Key Laboratory of Systems Biomedicine, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China; Department of Biochemistry and Microbiology, School of Environmental and Biological Sciences and Center for Microbiome, Nutrition, and Health, New Jersey Institute for Food, Nutrition, and Health, Rutgers, The State University of New Jersey, New Brunswick, NJ 08901, USA; Rutgers-Jiaotong Joint Laboratory for Microbiome and Human Health, New Brunswick, NJ, USA. Electronic address:
Article Synopsis
- - The gut microbiota acts like a vital organ for human health and consists of core microbes that maintain stable relationships, crucial for understanding their role in various diseases.
- - By analyzing data from dietary interventions and various diseases, researchers identified patterns of correlated bacterial genomes, creating a model of "two competing guilds": one group that thrives on fiber and produces beneficial compounds and another that is associated with disease traits like antibiotic resistance.
- - Using advanced modeling techniques, the study successfully differentiated between healthy and affected individuals based on these gut microbiome signatures, suggesting potential applications for improving health and tailoring treatments such as immunotherapy.
Chromosome-specific painting reveals the Y genome origin and chromosome rearrangements of the St genome in Triticeae.
Plant Physiol
October 2024
State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University, Chengdu 611130, Sichuan, China.
Article Synopsis
- * Researchers created chromosome painting probes for the St genome of Pseudoroegneria, enabling identification of its chromosomes and revealing the conservation of St chromosomes across several plant genera.
- * Findings indicate that the Y genome originated from the St genome, suggesting evolutionary links among Roegneria and Campeiostachys species and highlighting the morphological differences and similarities among awnless and awned species.
Discovery and genome-wide characterization of a novel miniature inverted repeat transposable element reveal genome-specific distribution in Glycine.
Genes Genomics
November 2024
Department of Agricultural Genetic Engineering, Ayhan Şahenk Faculty of Agricultural Sciences and Technologies, Niğde Ömer Halisdemir University, 51240, Niğde, Turkey.
Background: Miniature inverted repeat transposable elements (MITEs) are a dynamic component responsible for genome evolution. Tourist MITEs are derived from and mobilized by elements from the harbinger superfamily.
Objective: In this study, a novel family of Tourist-like MITE was characterized in wild soybean species Glycine falcata.
Unlabelled: To unravel the plastid genome diversity among the cultivated groups of the pigeonpea germplasm, we characterized the SNP occurrence and distribution of 142 pigeonpea mini-core collections based on their reference-based assembly of the chloroplast genome. A total of 8921 SNPs were found, which were again filtered and finally 3871 non-synonymous SNPs were detected and used for diversity estimates. These 3871 SNPs were classified into 12 groups and were present in only 44 of the 125 genes, demonstrating the presence of a precise mechanism for maintaining the whole chloroplast genome throughout evolution.
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