Maf-family bZIP transcription factor NRL interacts with RNA-binding proteins and R-loops in retinal photoreceptors DOI Open Access

Ximena Corso‐Díaz,

Xulong Liang,

Kiam Preston

et al.

Published: Nov. 15, 2024

RNA-binding proteins (RBPs) perform diverse functions including the regulation of chromatin dynamics and coupling transcription with RNA processing. However, our understanding their actions in mammalian neurons remains limited. Using affinity purification, yeast-two-hybrid proximity ligation assays, we identified interactions multiple RBPs NRL, a Maf-family bZIP factor critical for retinal rod photoreceptor development function. In addition to splicing, many NRL-interacting are associated R-loops, which form during increase maturation. Focusing on DHX9 helicase, demonstrate that its expression is modulated by NRL NRL-DHX9 interaction positively influenced R-loops. ssDRIP-Seq analysis reveals both stranded unstranded R-loops at distinct genomic elements, characterized active inactive epigenetic signatures enriched neuronal genes. binds types suggesting an epigenetically independent Our findings suggest additional highlight complex among factors, RBPs, regulating gene retina.

Language: Английский

Complete Genomic Assembly of Mauritian Cynomolgus Macaque Killer Ig-like Receptor and Natural Killer Group 2 Haplotypes DOI Creative Commons
Trent M. Prall, Julie A. Karl, Joshua M. Varghese

et al.

The Journal of Immunology, Journal Year: 2024, Volume and Issue: 212(11), P. 1754 - 1765

Published: April 19, 2024

Mauritian-origin cynomolgus macaques (MCMs) serve as a powerful nonhuman primate model in biomedical research due to their unique genetic homogeneity, which simplifies experimental designs. Despite extensive use, comprehensive understanding of crucial immune-regulating gene families, particularly killer Ig-like receptors (KIR) and NK group 2 (NKG2), has been hindered by the lack detailed genomic reference assemblies. In this study, we employ advanced long-read sequencing techniques completely assemble eight KIR seven NKG2 haplotypes, providing an insight into structural allelic diversity these immunoregulatory clusters. Leveraging resources, prototype strategy for genotyping using short-read, whole-exome capture data, illustrating potential cost-effective multilocus at colony scale. These results mark significant enhancement MCMs underscore feasibility broad-scale investigations.

Language: Английский

Citations

1
Uncovering the Multifaceted Roles of DDX21: Bridging Biological Insights and Medical Applications DOI Creative Commons
Jinze Shen,

Ruixiu Chen,

Kailin Guo

et al.

Journal of Bio-X Research, Journal Year: 2024, Volume and Issue: 7

Published: Jan. 1, 2024

DDX21 belongs to the DEAD-box (DDX) family of helicases but deviates from characteristic sequence Asp–Glu–Ala–Asp (DEAD) Asp–Glu–Val–Asp. In addition typical helicase activity associated with family, also possesses foldase and adenosine triphosphatase activities. It plays crucial roles in various molecular processes, including regulation transcription, ribosomal RNA processing, modification, unwinding spatial structures. is subject intricate by multiple upstream factors, expression control posttranslational modification. numerous cancer types, abnormal has been observed influence cell behaviors, such as cycle, proliferation, invasion, migration, apoptosis. addition, modulates innate immunity following viral infection a dual role process. This review comprehensively explores protein structure, regulatory mechanisms, pathophysiological functions DDX21. Consequently, this study not only offers potential avenues for future research sparks novel ideas targeted treatments both infections.

Language: Английский

Citations

0
<i>Drosophila melanogaster</i> MLE Helicase functions beyond dosage compensation: molecular nature and pleiotropic effect of <i>mle[9]</i> DOI
German A. Ashniev, Pavel Georgiev, J. V. Nikolenko

et al.

Генетика, Journal Year: 2024, Volume and Issue: 60(4), P. 34 - 46

Published: Sept. 11, 2024

Language: Английский

Citations

0
Maf-family bZIP transcription factor NRL interacts with RNA-binding proteins and R-loops in retinal photoreceptors DOI Creative Commons

Ximena Corso‐Díaz,

Xulong Liang,

Kiam Preston

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 19, 2024

Abstract RNA-binding proteins (RBPs) perform diverse functions including the regulation of chromatin dynamics and coupling transcription with RNA processing. However, our understanding their actions in mammalian neurons remains limited. Using affinity purification, yeast-two-hybrid proximity ligation assays, we identified interactions multiple RBPs NRL, a Maf-family bZIP factor critical for retinal rod photoreceptor development function. In addition to splicing, many NRL-interacting are associated R-loops, which form during increase maturation. Focusing on DHX9 helicase, demonstrate that its expression is modulated by NRL NRL-DHX9 interaction positively influenced R-loops. ssDRIP-Seq analysis reveals both stranded unstranded R-loops at distinct genomic elements, characterized active inactive epigenetic signatures enriched neuronal genes. binds types suggesting an epigenetically independent Our findings suggest additional highlight complex among factors, RBPs, regulating gene retina.

Language: Английский

Citations

0
Maf-family bZIP transcription factor NRL interacts with RNA-binding proteins and R-loops in retinal photoreceptors DOI Open Access

Ximena Corso‐Díaz,

Xulong Liang,

Kiam Preston

et al.

Published: Nov. 15, 2024

RNA-binding proteins (RBPs) perform diverse functions including the regulation of chromatin dynamics and coupling transcription with RNA processing. However, our understanding their actions in mammalian neurons remains limited. Using affinity purification, yeast-two-hybrid proximity ligation assays, we identified interactions multiple RBPs NRL, a Maf-family bZIP factor critical for retinal rod photoreceptor development function. In addition to splicing, many NRL-interacting are associated R-loops, which form during increase maturation. Focusing on DHX9 helicase, demonstrate that its expression is modulated by NRL NRL-DHX9 interaction positively influenced R-loops. ssDRIP-Seq analysis reveals both stranded unstranded R-loops at distinct genomic elements, characterized active inactive epigenetic signatures enriched neuronal genes. binds types suggesting an epigenetically independent Our findings suggest additional highlight complex among factors, RBPs, regulating gene retina.

Language: Английский

Citations

0