Diverse Roles of DEAD/DEAH-Box Helicases in Innate Immunity and Diseases

Perčulija, Vanja; Ouyang, Songying

doi:10.1016/b978-0-12-814685-9.00009-9

Cited by 13 publications

(9 citation statements)

References 188 publications

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“…Therefore, it is consistent that TM4SF4 , which is involved in thiamine (vitamin B1) metabolism, displayed higher levels of expression in the proximal cecum. The DEAD/DEAD-Box Helicase-60 is involved in innate immunity ( Perčulija and Ouyang, 2019 ). The mucosal-associated lymphoid tissue (MALT) in the proximal cecum is the secondary lymphoid organ of the chicken, and the cecum houses microbiota that regulates metabolism ( Polansky et al, 2016 ).…”

Section: Discussionmentioning

confidence: 99%

Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues

Overbey

Catini

et al. 2021

Front. Genet.

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While the chicken (Gallus gallus) is the most consumed agricultural animal worldwide, the chicken transcriptome remains understudied. We have characterized the transcriptome of 10 cell and tissue types from the chicken using RNA-seq, spanning intestinal tissues (ileum, jejunum, proximal cecum), immune cells (B cells, bursa, macrophages, monocytes, spleen T cells, thymus), and reproductive tissue (ovary). We detected 17,872 genes and 24,812 transcripts across all cell and tissue types, representing 73% and 63% of the current gene annotation, respectively. Further quantification of RNA transcript biotypes revealed protein-coding and lncRNAs specific to an individual cell/tissue type. Each cell/tissue type also has an average of around 1.2 isoforms per gene, however, they all have at least one gene with at least 11 isoforms. Differential expression analysis revealed a large number of differentially expressed genes between tissues of the same category (immune and intestinal). Many of these differentially expressed genes in immune cells were involved in cellular processes relating to differentiation and cell metabolism as well as basic functions of immune cells such as cell adhesion and signal transduction. The differential expressed genes of the different segments of the chicken intestine (jejunum, ileum, proximal cecum) correlated to the metabolic processes in nutrient digestion and absorption. These data should provide a valuable resource in understanding the chicken genome.

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Section: Discussionmentioning

confidence: 99%

Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues

Overbey

Catini

et al. 2021

Front. Genet.

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“…diseases, dysregulation of innate immune responses and cancers [8][9][10]. Small molecule inhibitors have been successfully developed to target the DEAD-box RNA helicases eIF4a, DDX3 and DDX41 [11][12][13][14], with the DDX3 inhibitor RK-33 now in clinical trials for lung cancer patients.…”

Section: Accepted Articlementioning

confidence: 99%

“…RNA helicases are categorized into six superfamilies, of which DEAD‐box helicases are the largest group and are characterized by nine conserved motifs for ATP binding, hydrolysis, intramolecular rearrangements, and RNA interactions [8,9]. DEAD‐box helicases are multifunctional, being involved in gene transcription, pre‐mRNA splicing, microRNA processing, and RNA metabolism, while aberrant expression of these critical regulators is linked to neurodegenerative diseases, dysregulation of innate immune responses, and cancers [8–10]. Small molecule inhibitors have been successfully developed to target the DEAD‐box RNA helicases eukaryotic initiation factor‐4A, DEAD‐box RNA helicase 3 (DDX3), and DDX41 [11–14], with the DDX3 inhibitor RK‐33 now in clinical trials for lung cancer patients.…”

Section: Introductionmentioning

confidence: 99%

The RNA‐helicase DDX21 upregulates CEP55 expression and promotes neuroblastoma

et al. 2021

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Approximately 25% of human neuroblastoma is caused by amplification of the MYCN oncogene, which leads to overexpression of N‐Myc oncoprotein. The survival rate for this patient subtype is <50%. Here, we show that N‐Myc protein bound to the DEAD‐box RNA helicase DDX21 gene promoter and upregulated DDX21 mRNA and protein expression. Genome‐wide differential gene expression studies identified centrosomal protein CEP55 as one of the genes most dramatically downregulated after DDX21 knockdown in MYCN‐amplified neuroblastoma cells. Knocking down DDX21 or CEP55 reduced neuroblastoma cell cytoskeleton stability and cell proliferation and all but abolished clonogenic capacity. Importantly, DDX21 knockdown initially induced tumor regression in neuroblastoma‐bearing mice and suppressed tumor progression. In human neuroblastoma tissues, a high level of DDX21 expression correlated with a high level of N‐Myc expression and with CEP55 expression, and independently predicted poor patient prognosis. Taken together, our data show that DDX21 induces CEP55 expression, MYCN‐amplified neuroblastoma cell proliferation, and tumorigenesis, and that DDX21 and CEP55 are valid therapeutic targets for the treatment of MYCN‐amplified neuroblastoma.

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“…A superfamily II, ATP-dependent helicase, predicted in all three phages, may belong to the family of DEAD/DEAH-box containing helicases (BLASTp search result). DEAD/DEAH-box containing helicases participate in RNA metabolism in many, essential ways, such as by regulating gene expression and signalling 69 . These functions could explain why it is likely for DEAD/DEAH-box containing helicase genes to be found within a phage genome.…”

Section: Phage Isolate Open Reading Frames With Assigned Function/allmentioning

confidence: 99%

Isolation and characterisation of novel phages infecting Lactobacillus plantarum and proposal of a new genus, “Silenusvirus”

Kyrkou

Carstens

Ellegaard-Jensen

et al. 2020

Sci Rep

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Bacteria of Lactobacillus sp. are very useful to humans. However, the biology and genomic diversity of their (bacterio)phage enemies remains understudied. Knowledge on Lactobacillus phage diversity should broaden to develop efficient phage control strategies. To this end, organic waste samples were screened for phages against two wine-related Lactobacillus plantarum strains. isolates were shotgun sequenced and compared against the phage database and each other by phylogenetics and comparative genomics. the new isolates had only three distant relatives from the database, but displayed a high overall degree of genomic similarity amongst them. the latter allowed for the use of one isolate as a representative to conduct transmission electron microscopy and structural protein sequencing, and to study phage adsorption and growth kinetics. the microscopy and proteomics tests confirmed the observed diversity of the new isolates and supported their classification to the family Siphoviridae and the proposal of the new phage genus "Silenusvirus".

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Diverse Roles of DEAD/DEAH-Box Helicases in Innate Immunity and Diseases

Cited by 13 publications

References 188 publications

Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues

Transcriptomes of an Array of Chicken Ovary, Intestinal, and Immune Cells and Tissues

The RNA‐helicase DDX21 upregulates CEP55 expression and promotes neuroblastoma

Isolation and characterisation of novel phages infecting Lactobacillus plantarum and proposal of a new genus, “Silenusvirus”

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