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Limited restoration of T cell subset distribution and immune function in older people living with HIV-1 receiving HAART.
Immun Ageing
January 2025
State Key Laboratory of Genetic Evolution & Animal Models, Key Laboratory of Bioactive Peptides of Yunnan Province, KIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, Yunnan, China.
Background: Older people living with HIV-1 (PLWH) experience a dual burden from the combined effects of aging and HIV-1 infection, resulting in significant immune dysfunction. Despite receiving HAART, immune reconstitution is not fully optimized. The objective of this study was to investigate the impact of aging and HAART on T cell subsets and function in PLWH across different age groups, thereby providing novel insights into the prognosis of older PLWH.
View Article and Find Full Text PDFInsights into Treponema pallidum genomics from modern and ancient genomes using a novel mapping strategy.
BMC Biol
January 2025
Department of Environmental Sciences, University of Basel, Basel, Switzerland.
Background: Treponemal diseases are a significant global health risk, presenting challenges to public health and severe consequences to individuals if left untreated. Despite numerous genomic studies on Treponema pallidum and the known possible biases introduced by the choice of the reference genome used for mapping, few investigations have addressed how these biases affect phylogenetic and evolutionary analysis of these bacteria. In this study, we ascertain the importance of selecting an appropriate genomic reference on phylogenetic and evolutionary analyses of T.
View Article and Find Full Text PDFGenomic characterization of Escherichia coli with a polyketide synthase (pks) island isolated from ulcerative colitis patients.
BMC Genomics
January 2025
Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, NY, USA.
The E. coli strains harboring the polyketide synthase (pks) island encode the genotoxin colibactin, a secondary metabolite reported to have severe implications for human health and for the progression of colorectal cancer. The present study involves whole-genome-wide comparison and phylogenetic analysis of pks harboring E.
View Article and Find Full Text PDFRapid diversification of St-genome-sharing species in wheat grasses (Triticeae: Poaceae) accompanied by diversifying selection of chloroplast genes.
BMC Plant Biol
January 2025
Triticeae Research Institute, Sichuan Agricultural University, Chengdu, Sichuan, 611130, China.
Background: The St-genome-sharing taxa are highly complex group of the species with the St nuclear genome and monophyletic origin in maternal lineages within the Triticeae, which contains more than half of polyploid species that distributed in a wide range of ecological habitats. While high level of genetic heterogeneity in plastome DNA due to a reticulate evolutionary event has been considered to link with the richness of the St-genome-sharing taxa, the relationship between the dynamics of diversification and molecular evolution is lack of understanding.
Results: Here, integrating 106 previously and 12 newly sequenced plastomes representing almost all previously recognized genomic types and genus of the Triticeae, this study applies phylogenetic reconstruction methods in combination with lineage diversification analyses, estimate of sequence evolution, and gene expression to investigate the dynamics of diversification in the tribe.
Phylogeny-based comparative analysis of gene expression modulation upon drought stress across three cotton diploids.
BMC Plant Biol
January 2025
College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou, 310018, China.
Background: Drought stress is a significant global challenge that negatively impacts cotton fiber yield and quality. Although many drought-stress responsive genes have been identified in cotton species (Gossypium spp.), the diversity of drought response mechanisms across cotton species remains largely unexplored.
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