Decoding G-Quadruplexes Sequence in Vitis vinifera: Regulatory Region Enrichment, Drought Stress Adaptation, and Sugar–Acid Metabolism Modulation

Plants, Год журнала: 2025, Номер 14(8), С. 1180 - 1180

Опубликована: Апрель 10, 2025

G-quadruplexes play a crucial role in transcription, translation, and DNA replication plant genomes. Here, we comprehensively examined the prevalence functions of Vitis vinifera. A total 467,813 were identified grapevine genome, with enrichment promoter (0.54/kbp) near transcription start sites (TSSs, 1.00/kbp), showed conservative strand preference. The G-quadruplex density centromeres exhibited heterogeneity. differentially expressed genes (DEGs) under two-day drought stress manifested high TSS regions. upregulated DEGs template strand-biased enrichment, while downregulated displayed coding dominance linked to metal ion homeostasis sugar–acid metabolism pathways, respectively. enriched key genes, including pyruvate kinase sucrose synthase. number transferase VINV was higher than that CWINV NINV genes. This study revealed as regulatory elements response berry development, providing abundant genetic targets for precision breeding quality improvement grapevines.

Язык: Английский

Identification of intramolecular conserved G-quadruplex motifs in the genome of the bovine foamy virus

Journal for Veterinary Medicine Biotechnology and Biosafety, Год журнала: 2024, Номер 10(2), С. 13 - 19

Опубликована: Июнь 27, 2024

G-quadruplexes (G4s) are guanine-rich DNA structures, which play an essential regulatory role in key steps of the viral life cycle (replication, transcription regulation, translation). Currently, there is no relevant information about putative G4s bovine foamy virus (BFV) genome. The goal present study was determination such conservative non-B-DNA structures as G-quadruplexes, can be formed by two and three G-quartets mRNA, sense, antisense strands proviral DNA. Bioinformatic analysis used to search motifs intramolecular BFV mRNA determine G-score (a parameter that characterizes stability G-quadruplex relative units). Based on multiple alignments 27 isolates 26 from were found sense strand with 30 36. 32 a 36 2 53. These direct repeats localized U5 5'LTR 3'-LTR. density 2.1/kbp 2.8/kbp strand. A localization map potential stable conserved G-tetrads genome created. Conservative unevenly distributed throughout distinctive feature genomic organization fact characterized significantly higher compared one strands. QGRS Mapper software detects number (34 DNA) G4Hunter (7 G4s)

Язык: Английский