SNW1, a Novel Transcriptional Regulator of the NF-<i>κ</i>B Pathway

Verma, Suneer; Chanda, Sumit K.; Verma, Inder M.

doi:10.1128/mcb.00415-18

Cited by 19 publications

(17 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Curiously, PAXX was dispensable for physiologic NHEJ including class switch recombination and V(D)J recombination in wild-type mice and human cells but thought instead to ensure genomic integrity under conditions of stress [46]. The fifth, SNW1, is involved in splicing and transcriptional regulation including transcription of HIV Tat and transcriptional activation by EBV EBNA2 [47–52].…”

Section: Discussionmentioning

confidence: 99%

Novel replisome-associated proteins at cellular replication forks in EBV-transformed B lymphocytes

Pérez

Frey

et al. 2019

PLoS Pathog

View full text Add to dashboard Cite

Epstein-Barr virus (EBV) is an oncogenic herpesvirus and WHO class 1 carcinogen that resides in B lymphocytes of nearly all humans. While silent in most, EBV can cause endemic Burkitt lymphoma in children and post-transplant lymphoproliferative disorders/lymphomas in immunocompromised hosts. The pathogenesis of such lymphomas is multifactorial but to a large extent depends on EBV’s ability to aggressively drive cellular DNA replication and B cell proliferation despite cell-intrinsic barriers to replication. One such barrier is oncogenic replication stress which hinders the progression of DNA replication forks. To understand how EBV successfully overcomes replication stress, we examined cellular replication forks in EBV-transformed B cells using iPOND (isolation of Proteins on Nascent DNA)-mass spectrometry and identified several cellular proteins that had not previously been linked to DNA replication. Of eight candidate replisome-associated proteins that we validated at forks in EBV-transformed cells and Burkitt lymphoma-derived cells, three zinc finger proteins (ZFPs) were upregulated early in B cells newly-infected with EBV in culture as well as expressed at high levels in EBV-infected B blasts in the blood of immunocompromised transplant recipients. Expressed highly in S- and G2-phase cells, knockdown of each ZFP resulted in stalling of proliferating cells in the S-phase, cleavage of caspase 3, and cell death. These proteins, newly-identified at replication forks of EBV-transformed and Burkitt lymphoma cells therefore contribute to cell survival and cell cycle progression, and represent novel targets for intervention of EBV-lymphomas while simultaneously offering a window into how the replication machinery may be similarly modified in other cancers.

show abstract

Section: Discussionmentioning

confidence: 99%

Novel replisome-associated proteins at cellular replication forks in EBV-transformed B lymphocytes

Pérez

Frey

et al. 2019

PLoS Pathog

View full text Add to dashboard Cite

show abstract

“…More interestingly, a recent study has described the critical role of SNW1 in the NF-κB pathway and reports SNW1 as a novel transcriptional regulator of the NF-κB pathway. They also demonstrate that SNW1 is indispensable for the transcriptional elongation of NF-κB target genes like interleukin 8 and tumor necrosis factor genes (Verma et al, 2019). Hence, SNW1 ’s role in RA can be considered as a novel finding which may act as potential biomarker or drug target for RA as they are found together with other key genes of RA.…”

Section: Discussionmentioning

confidence: 99%

“…The top 20 known NF-κB pathway regulators controlling the immune response to independent TNF-α and lipopolysaccharide (LPS) antigenic treatments were identified from a large-scale secondary RNAi screening on differentiated human THP-1 monocyte cell lines (Verma et al, 2019). These top 40 NF-κB regulators were chosen based on the significant reductions in luciferase activity of their siRNAs upon both TNF-α and LPS treatments and did not cause significant loss of cell viability in vitro .…”

Section: Methodsmentioning

confidence: 99%

“…In innate immunity, activation of the NF-κB pathway upregulates the expression of defensins, pro-inflammatory proteins like cytokines (IL-1, IL-6, and TNF-α), and proteins involved in leukocyte migration (VCAM1 and ICAM1). In adaptive immunity, NF-κB is involved in the proliferation of B- and T-cells as well as in the maturation of dendritic cells (Verma et al, 2019). Although NF-κB is ubiquitous and rigorously studied, some questions about this pathway including transcription machinery, stimulus-specific gene expression, and cell types are yet to be explored.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Dissecting the Role of NF-κb Protein Family and Its Regulators in Rheumatoid Arthritis Using Weighted Gene Co-Expression Network

et al. 2019

View full text Add to dashboard Cite

Rheumatoid arthritis (RA) is a chronic synovial autoinflammatory disease that destructs the cartilage and bone, leading to disability. The functional regulation of major immunity-related pathways like nuclear factor kappa B (NF-κB), which is involved in the chronic inflammatory reactions underlying the development of RA, remains to be explored. Therefore, this study has adopted statistical and knowledge-based systemic investigations (like gene correlation, semantic similarity, and topological parameters based on graph theory) to study the gene expression status of NF-κB protein family (NKPF) and its regulators in synovial tissues to trace the molecular pathways through which these regulators contribute to RA. A complex protein–protein interaction map (PPIM) of 2,742 genes and 37,032 interactions was constructed from differentially expressed genes (p ≤ 0.05). PPIM was further decomposed into a Regulator Allied Protein Interaction Network (RAPIN) based on the interaction between genes (5 NKPF, 31 seeds, 131 hubs, and 652 bottlenecks). Pathway network analysis has shown the RA-specific disturbances in the functional connectivity between seed genes (RIPK1, ATG7, TLR4, TNFRSF1A, KPNA1, CFLAR, SNW1, FOSB, PARVA, CX3CL1, and TRPC6) and NKPF members (RELA, RELB, NFKB2, and REL). Interestingly, these genes are known for their involvement in inflammation and immune system (signaling by interleukins, cytokine signaling in immune system, NOD-like receptor signaling, MAPK signaling, Toll-like receptor signaling, and TNF signaling) pathways connected to RA. This study, for the first time, reports that SNW1, along with other NK regulatory genes, plays an important role in RA pathogenesis and might act as potential biomarker for RA. Additionally, these genes might play important roles in RA pathogenesis, as well as facilitate the development of effective targeted therapies. Our integrative data analysis and network-based methods could accelerate the identification of novel drug targets for RA from high-throughput genomic data.

show abstract

“…Selection acting on GCH1 in goose is likely to be related to their adaption to high-altitude or migratory habitats. SNW1 (SNW1 domain containing 1) is involved in the nuclear factor κB pathway and is associated with oculopharyngeal muscular dystrophy disease [ 52 , 53 ]. The depletion of this gene in breast cells leads to the induction of apoptosis, while the overexpression of this gene impedes neural crest development [ 54 ].…”

Section: Data Descriptionmentioning

confidence: 99%

Pacific Biosciences assembly with Hi-C mapping generates an improved, chromosome-level goose genome

Gao

Lin

et al. 2020

GigaScience

View full text Add to dashboard Cite

Background The domestic goose is an economically important and scientifically valuable waterfowl; however, a lack of high-quality genomic data has hindered research concerning its genome, genetics, and breeding. As domestic geese breeds derive from both the swan goose (Anser cygnoides) and the graylag goose (Anser anser), we selected a female Tianfu goose for genome sequencing. We generated a chromosome-level goose genome assembly by adopting a hybrid de novo assembly approach that combined Pacific Biosciences single-molecule real-time sequencing, high-throughput chromatin conformation capture mapping, and Illumina short-read sequencing. Findings We generated a 1.11-Gb goose genome with contig and scaffold N50 values of 1.85 and 33.12 Mb, respectively. The assembly contains 39 pseudo-chromosomes (2n = 78) accounting for ∼88.36% of the goose genome. Compared with previous goose assemblies, our assembly has more continuity, completeness, and accuracy; the annotation of core eukaryotic genes and universal single-copy orthologs has also been improved. We have identified 17,568 protein-coding genes and a repeat content of 8.67% (96.57 Mb) in this genome assembly. We also explored the spatial organization of chromatin and gene expression in the goose liver tissues, in terms of inter-pseudo-chromosomal interaction patterns, compartments, topologically associating domains, and promoter-enhancer interactions. Conclusions We present the first chromosome-level assembly of the goose genome. This will be a valuable resource for future genetic and genomic studies on geese.

show abstract

SNW1, a Novel Transcriptional Regulator of the NF-κB Pathway

Cited by 19 publications

References 36 publications

Novel replisome-associated proteins at cellular replication forks in EBV-transformed B lymphocytes

Novel replisome-associated proteins at cellular replication forks in EBV-transformed B lymphocytes

Dissecting the Role of NF-κb Protein Family and Its Regulators in Rheumatoid Arthritis Using Weighted Gene Co-Expression Network

Pacific Biosciences assembly with Hi-C mapping generates an improved, chromosome-level goose genome

Contact Info

Product

Resources

About