Journal: Marine Biotechnology (New York, N.y.)

Article Title: Implications of Endogenous Small Regulatory RNAs Survey in Mollusks on Gene Silencing Approaches

doi: 10.1007/s10126-025-10519-9

Figure Lengend Snippet: Small RNA species in mollusks. Size distribution of small RNA and piRNA processing signatures in small RNA alignments found in A C. virginica (~ 5800 sRNA-producing loci), B M. gigas (~ 5400 loci), C M. yessoensis (~ 3800 loci), D O. bimaculoides (~ 5700 loci), E L. stagnalis (~ 5900 loci), F R. venosa (~ 4800 loci), G D. melanogaster (~ 7800 loci), and H the outgroup L. variegatus (~ 3500 loci). Each bar graph shows bulk reads across all the species’ libraries. Each heatmap (row normalized) shows the sRNA size distribution per loci. Ping Pong signature shows 10 nt overlap expression. Phasing signature is based on the distance of 1U reads to an upstream alignment. Positions 1 to 9 from the upstream alignment are shown. Order of loci in each heatmap are preserved from clustering of size distribution.

Article Snippet: Total RNA samples were sent to the University of Mississippi Medical Center Genome Core, which prepared libraries using the Illumina small RNA TruSeq library construction kit and using an Illumina NextSeq2000.

Techniques: Expressing

Journal: The Journal of Biological Chemistry

Article Title: The catalytic tetrad of Aedes aegypti argonaute 2 is critical for the antiviral activity of the exogenous siRNA pathway

doi: 10.1016/j.jbc.2025.108332

Figure Lengend Snippet: Mutation in the catalytic tetrad of Ago2 in AF525 cells has a limited effect on the magnitude of 21 nt vsiRNA reads produced in response to SFV infection . Small RNA analysis of AF525 cells stably expressing eGFP, Ago2, and Ago2mut, and infected with SFV (MOI 5 PFU/cell), analyzed at 24 h.p.i. A , histogram of 21 nt vsiRNAs that mapped to the SFV genome (positive) or antigenome (negative) with colors indicating the nt prevalence of the first base for each read length. Shown as mean % mapped reads (Y axis, percentage reads) from three independent experiments. Error bars show the standard error of the mean. B , coverage of SFV-derived 21 nt vsiRNAs over the viral genome, genomic ( magenta ) or antigenomic ( cyan ) sense RNAs are shown (Y axis, vsiRNA reads per million) from three independent experiments. Error bars show the standard error of the mean. C , mean number of 21 nt viral RNAs per million reads mapping to the SFV genome ( magenta , +) and antigenome ( cyan , −) of all treatments. The graph indicates a mean value of three (n = 3) independent repeats with the range of values given. Ordinary one-way ANOVA with Tukey's multiple comparisons test was used to compare groups. Here, ns: insignificant ∗ p ≤ 0.05, and ∗∗∗ p ≤ 0.0001. GenBank ID for SFV: KP699763.

Article Snippet: Small RNA library construction and sequencing were undertaken at BGI (Beijing Genomics Institute) using their Small RNA Library Construction Protocol (DNBSEQ).

Techniques: Mutagenesis, Produced, Infection, Stable Transfection, Expressing, Derivative Assay