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Chromosome-level genome assembly of Pontederia cordata L. provides insights into its rapid adaptation and variation of flower colors.
DNA Res
January 2025
School of Traditional Chinese Pharmacy, China Pharmaceutical University, Nanjing 211198, China.
Pontederia cordata L. is an aquatic ornamental plant native to the Americas, but has been widely distributed in South Asia, Australia, and Europe. The genetic mechanisms behind its rapid adaptation and spread have not yet been well understood.
View Article and Find Full Text PDFA chromosome-level, haplotype-resolved genome assembly and annotation for the Eurasian minnow (Leuciscidae: Phoxinus phoxinus) provide evidence of haplotype diversity.
Gigascience
January 2025
Leibniz Institute for the Analysis of Biodiversity Change, Museum Koenig Bonn, 53113 Bonn, Germany.
Background: In this study, we present an in-depth analysis of the Eurasian minnow (Phoxinus phoxinus) genome, highlighting its genetic diversity, structural variations, and evolutionary adaptations. We generated an annotated haplotype-phased, chromosome-level genome assembly (2n = 50) by integrating high-fidelity (HiFi) long reads and chromosome conformation capture data (Hi-C).
Results: We achieved a haploid size of 940 megabase pairs (Mbp) for haplome 1 and 929 Mbp for haplome 2 with high scaffold N50 values of 36.
Causal association between matrix metalloproteinases and diabetic neuropathy: a two-sample Mendelian randomization study.
Front Endocrinol (Lausanne)
January 2025
School of Public Health, Xinjiang Medical University, Urumqi, Xinjiang, China.
Objective: Diabetic neuropathy (DN), a common and debilitating complication of diabetes, significantly impairs the quality of life of affected individuals. While multiple studies have indicated changes in the expression of specific matrix metalloproteinases (MMPs) in patients with DN, and basic research has reported the impact of MMPs on DN, there is a lack of systematic research and the causal relationship remains unclear. The objective of this research is to investigate the casual relationship between MMPs and DN through two-sample Mendelian randomization (MR).
View Article and Find Full Text PDFGenetic association analysis of lipid-lowering drug target genes in chronic kidney disease.
Front Endocrinol (Lausanne)
January 2025
Department of Urology, The First Affiliated Hospital of Jinzhou Medical University, Jinzhou Medical University, Jinzhou, Liaoning, China.
Objective: The impact of lipid-lowering medications on chronic kidney disease (CKD) remains a subject of debate. This Mendelian randomization (MR) study aims to elucidate the potential effects of lipid-lowering drug targets on CKD development.
Methods: We extracted 11 genetic variants encoding targets of lipid-lowering drugs from published genome-wide association study (GWAS) summary statistics, encompassing LDLR, HMGCR, PCSK9, NPC1L1, APOB, ABCG5/ABCG8, LPL, APOC3, ANGPTL3, and PPARA.
Internal transcribed spacer metagenomics data unravelling the core fungal community structure residing the wheat and maize rhizosphere.
Data Brief
February 2025
Department of Biology, Allama Iqbal Open University, Islamabad, Pakistan.
Plants are colonized by a vast array of microorganisms that outstrip plant cell densities and genes, thus referred to as plant's second genome or extended genome. The microbial communities exert a significant influence on the vigor, growth, development and productivity of plants by supporting nutrient acquisition, organic matter decomposition and tolerance against biotic and abiotic stresses such as heat, high salt, drought and disease, by regulating plant defense responses. The rhizosphere is a complex micro-ecological zone in the direct vicinity of plant roots and is considered a hotspot of microbial diversity.
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