Journal: Nature Communications

Article Title: Recoding by N 1 -methylpseudouridine guides rational mRNA vaccine design

doi: 10.1038/s41467-026-77796-3

Figure Lengend Snippet: a Non-slippery synonymous UUCC (or m 1 Ψm 1 ΨCC) sequence prevents base-pairing with tRNA Phe (blue) in the +1 frame. b Synthesis of 0-frame fMAFR (open circles and dotted line) and +1-frame fMAFV (closed circles and solid line) products during translation of UUCC (gray) and m 1 Ψm 1 ΨCC (maroon) at decreasing Arg-tRNA Arg to ribosome ratio. Shown are mean values with error bars representing SE from n = 3 independent biological replicates. Statistical significance by ANOVA test: *** P = 0.0008 (F(1, 4) = 84.08; df = 1); ** P = 0.0020 (F(1, 4) = 50.86; df = 1). c Schematic of the dual-fluorescence mRNA reporter containing synonymous, non-slippery UUCC substitution. d Representative sfGFP/mChy ratio distribution after transfection of HEK293T with mRNA containing only mChy (light blue for unmodified; dark blue for m 1 Ψ-modified), sfGFP in-frame with mChy ( mChy-sfGFP ; light orange for unmodified and dark orange for m 1 Ψ-modified), and mRNA reporters containing the BNT162b2 U 1543 U 1544 C 1545 C 1546 non-slippery variant (gray for unmodified; maroon for m 1 Ψ-modified). e +1 frameshifting on the synonymous non-slippery U 1543 U 1544 C 1545 C 1546 variant after transfection with unmodified (gray) or m 1 Ψ-modified (maroon) mRNA reporters. Shown are values in individual replicates (black circles) and mean values with error bars representing SE from n = 3 biological replicates. ns, P = 0.5012 ( t = 0.7573; df = 3.170), according to two-tailed Welch’s t -test. f Schematic of the dual-fluorescence mRNA reporter carrying nucleotide substitutions (gray) downstream of the slippery codon U 1543 U 1544 U 1545 (purple). g Change in +1 frameshifting on m 1 Ψ-modified, compared to unmodified, mRNA reporters in HEK293T cells, as compared to the dwell time of the ribosome on the respective A-site codon . Shown are mean values with error bars representing SE from n = 3 independent biological replicates. Dashed line shows the mean fold change in +1 frameshifting for codons with first-position C (black) and U (gray). h Mean fold change in +1 frameshifting in m 1 Ψ-modified compared to unmodified mRNA for a downstream codon with first-position C (black) or U (gray). Shown are mean values from n = 3 independent biological replicates (circles) and mean values (solid line) with error bars representing SE. According to a two-tailed Welch’s t -test: *** P = 0.0002 ( t = 4.802; df = 16.71). Exact values are summarized in Supplementary Table . Source data are provided as a Source Data file.

Article Snippet: DNA was amplified by polymerase chain reaction (PCR) and transcribed by addition of T7 RNA polymerase (1.6 unit/μl), nucleotide triphosphates (ATP, NU-1010; GTP, NU-1012; CTP, NU1011; and either UTP, NU-1013, or m 1 ΨTP, NU-890; 3 mM each, Jena Bioscience), RNase inhibitor (0.2 units/μl, moloX GmbH), E. coli pyrophosphatase (0.005 units/μl, New England Biolabs, M0361) in buffer (40 mM Tris-HCl (Sigma-Aldrich, 252859) pH 7.5, 15 mM MgCl 2 (Sigma-Aldrich, M9272), 2 mM spermidine (Sigma-Aldrich, S2501), 10 mM NaCl (Sigma-Aldrich, S7653), 10 mM dithiothreitol (Roth, 6908-4)) and incubated at 37 °C for 3 h. The RNA product was purified by fast protein liquid chromatography in buffer (30 mM BisTris (Roth, 9140.3), pH 6, 1 mM EDTA (Merck, 137004)) using a linear gradient of 0.3–1.5 M NaCl, followed by ethanol precipitation.

Techniques: Sequencing, Fluorescence, Transfection, Modification, Variant Assay, Two Tailed Test

Journal: Data in Brief

Article Title: Complete plastome data of rare Allium microdictyon , an edible and medicinally important wild onion from the Kazakhstan Altay

doi: 10.1016/j.dib.2026.112928

Figure Lengend Snippet: The Maximum Likelihood (A) and Bayesian Inference (B) phylogenetic trees using the whole plastome nucleotide sequences of Allium microdictyon and 18 other Allium accessions, with Aloe maculata and Iris sanguinea as the outgroups. A species sequenced in this study is written in blue. Numbers next to the nodes represent bootstrap values (A) and posterior probabilities (B). Subgenus names given according to Friesen et al. (2006) .

Article Snippet: National Center for Biotechnology Information Nucleotide sequences of the Allium microdictyon plastome (Original data)

Techniques: