Data on global expression of non-coding RNome in mice gastrocnemius muscle exposed to jararhagin, snake venom metalloproteinase

Clissa, Patrı́cia Bianca; Pessôa, Rodrigo; Ferraz, Karla Fernanda; Souza, Daniela Raguer Valadão de; Sanabani, Sabri Saeed

doi:10.1016/j.dib.2016.09.052

Cited by 10 publications

(9 citation statements)

References 1 publication

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“…For each sample in each group, sRNA libraries were prepared with the Small RNA v1.5 sample preparation kit, as per the manufacturer's instructions (Illumina, Inc.) and a previous protocol ( 47 ). In brief, 5 µl purified total RNA was ligated with 1 µl RNA 3′ adapter and then with a 5′ RNA adapter (both Illumina, Inc.).…”

Section: Methodsmentioning

confidence: 99%

Small RNA profiles of HTLV‑1 asymptomatic carriers with monoclonal and polyclonal rearrangement of the T‑cell antigen receptor γ‑chain using massively parallel sequencing: A pilot study

et al. 2020

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In the present pilot study, massively parallel sequencing (MPS) technology was used to investigate cellular small RNA (sRNA) levels in the peripheral blood mononuclear cells (PBMCs) of human T-lymphotropic virus type I (HTLV-I) infected asymptomatic carriers with monoclonal (ASM) and polyclonal (ASP) T cell receptor (TCR) γ gene. Blood samples from 15 HTLV-I asymptomatic carriers (seven ASM and eight ASP) were tested for the clonal TCR-γ gene and submitted for sRNA library construction together with blood samples of five healthy controls (HCs) using Illumina sequencing platform. The sRNA-sequencing reads were aligned, annotated and profiled using various bioinformatics tools. Based on these results, possible markers were validated in the study samples by performing reverse transcription-quantitative (RT-q)PCR analysis. A total of 76 known sRNAs and 52 putative novel sRNAs were identified. Among them, 44 known and 34 potential novel sRNAs were differentially expressed in the ASM and ASP libraries compared with HCs. In addition, 10 known sRNAs were exclusively dysregulated in the ASM group and one (transfer RNA 65) was significantly upregulated in the ASP group. Homo sapiens (hsa) microRNA (miRNA/mir)-23a-3p,-28-5p, hsa-let-7e-5p and hsa-mir-28-3p and-361-5p were the most abundantly upregulated mature miRNAs and hsa-mir-363-3p,-532-5p,-106a-5p,-25-3p and-30e-5p were significantly downregulated miRNAs (P<0.05) with a >2-fold difference between the ASM and ASP groups compared with HCs. Based on these results, hsa-mir-23a-3p and-363-3p were selected for additional validation. However, the quantification of these two miRNAs using RT-qPCR did not provide any significant differences. While the present study failed to identify predictive sRNA markers to distinguish between ASM and ASP, the MPS results revealed differential sRNA expression profiles in the PBMCs of HTLV-1 asymptomatic carriers (ASM and ASP) compared with HCs.

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Section: Methodsmentioning

confidence: 99%

Small RNA profiles of HTLV‑1 asymptomatic carriers with monoclonal and polyclonal rearrangement of the T‑cell antigen receptor γ‑chain using massively parallel sequencing: A pilot study

et al. 2020

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“…For each sample in both groups, sRNA libraries were prepared with the TruSeq Small RNA Sample Preparation Kit (Illumina, San Diego, CA, USA) per the manufacturer’s instructions and a previously published protocol [ 49 , 50 ]. A total library pool of 4 nM was prepared using a MiSeq Reagent Kit v3 150 cycle followed by sequencing on a MiSeq system (Illumina, San Diego, CA, USA).…”

Section: Methodsmentioning

confidence: 99%

Altered RNome expression in Murine Gastrocnemius Muscle following Exposure to Jararhagin, a Metalloproteinase from Bothrops jararaca Venom

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Zychar

Pessôa

et al. 2022

Toxins

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Small RNAs (sRNAs) and microRNAs (miRNAs) are small endogenous noncoding single-stranded RNAs that regulate gene expression in eukaryotes. Experiments in mice and humans have revealed that a typical small RNA can affect the expression of a wide range of genes, implying that small RNAs function as global regulators. Here, we used small RNA deep sequencing to investigate how jararhagin, a metalloproteinase toxin produced from the venom of Bothrops jararaca, affected mmu-miRNAs expression in mice 2 hours (Jar 2hrs) and 24 hours (Jar 24hrs) after injection compared to PBS control. The findings revealed that seven mmu-miRNAs were substantially differentially expressed (p value (p (Corr) cut-off 0.05, fold change ≥ 2) at 2 hrs after jararhagin exposure and that the majority of them were upregulated when compared to PBS. In contrast to these findings, a comparison of Jar 24hrs vs. PBS 24hrs demonstrated that the majority of identified mmu-miRNAs were downregulated. Furthermore, the studies demonstrated that mmu-miRNAs can target the expression of several genes involved in the MAPK signaling pathway. The steady antithetical regulation of mmu-miRNAs may correlate with the expression of genes that trigger apoptosis via MAPK in the early stages, and this effect intensifies with time. The findings expand our understanding of the effects of jararhagin on local tissue lesions at the molecular level.

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“…For each sample in both groups, sRNA libraries were prepared with the Small RNA v1.5 sample preparation kit as per the manufacturer’s instructions (Illumina, San Diego, CA) and a previously published protocol [ 41 ]. Briefly, 5 μl of purified total RNAs were ligated with 1 μl RNA 3′ Adapter and then with a 5′ RNA adapter (Illumina, San Diego, CA).…”

Section: Methodsmentioning

confidence: 99%

Global expression of noncoding RNome reveals dysregulation of small RNAs in patients with HTLV-1–associated adult T-cell leukemia: a pilot study

Nascimento

Souza

Pessôa

et al. 2021

Infect Agents Cancer

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Background Adult T cell lymphoma/leukemia (ATLL) is a peripheral T-cell neoplasm caused by human T-cell lymphotropic virus-1 (HTLV-1). Small RNAs (sRNAs), including microRNAs (miRNAs), play a pivotal role in the initiation and development of hematological malignancies and may represent potential therapeutic target molecules. However, little is known about how these molecules impact the pathogenesis of ATLL. In this study, we aimed to identify sRNA expression signatures associated with ATLL and to investigate their potential implication in the pathophysiology of the disease. Methods Small-RNAseq analysis was performed in peripheral blood mononuclear cells from HTLV-1- associated ATLL (n = 10) in comparison to asymptomatic carriers (n = 8) and healthy controls (n = 5). Sequencing was carried out using the Illumina MiSeq platform, and the deregulation of selected miRNAs was validated by real-time PCR. Pathway analyses of most deregulated miRNA were performed and their global profiling was combined with transcriptome data in ATLL. Results The sequencing identified specific sRNAs signatures associated with ATLL patients that target pathways relevant in ATLL, such as the transforming growth factor-(βTGF-β), Wnt, p53, apoptosis, and mitogen-activated protein kinase (MAPK) signaling cascades. Network analysis revealed several miRNAs regulating highly connected genes within the ATLL transcriptome. miR-451-3p was the most downregulated miRNA in active patients. Conclusions Our findings shed light on the expression of specific sRNAs in HTLV-1 associated ATLL, which may represent promising candidates as biomarkers that help monitor the disease activity.

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Data on global expression of non-coding RNome in mice gastrocnemius muscle exposed to jararhagin, snake venom metalloproteinase

Cited by 10 publications

References 1 publication

Small RNA profiles of HTLV‑1 asymptomatic carriers with monoclonal and polyclonal rearrangement of the T‑cell antigen receptor γ‑chain using massively parallel sequencing: A pilot study

Small RNA profiles of HTLV‑1 asymptomatic carriers with monoclonal and polyclonal rearrangement of the T‑cell antigen receptor γ‑chain using massively parallel sequencing: A pilot study

Altered RNome expression in Murine Gastrocnemius Muscle following Exposure to Jararhagin, a Metalloproteinase from Bothrops jararaca Venom

Global expression of noncoding RNome reveals dysregulation of small RNAs in patients with HTLV-1–associated adult T-cell leukemia: a pilot study

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