nm159492  (Biosynth Carbosynth)

Journal: Nature Communications

Article Title: ALKBH8-mediated codon-specific translation promotes colorectal tumorigenesis

doi: 10.1038/s41467-025-64144-0

Figure Lengend Snippet: a Mass spectrometry analysis of cm5U, mcm5U and mcm5s2U levels in tRNAs from CTL, A8-KO and A8-OE HCT116 cells, 3 biological replicates. b OP-Puro labeling of global translation levels in CTL and A8-KO HCT116 cells, 3 biological replicates. c Schematic of RNA-seq (up) and Ribo-seq (bottom) experiments. d Fold change of ribosome density in A site for each codon after ALKBH8 depletion. 2 independent sequencing experiments, P values were calculated using Wald test with Benjamini–Hochberg correction. e –g Cumulative distributions of ribosome density change ( e ), mRNA change ( f ), and relative ribosome density change (TE) ( g ) for codon-rich, codon-poor, and total transcripts. All the genes were divided into codon-rich genes (top 20%) and codon-poor genes (bottom 20%) based on the content of 5A-ending codons (including AAA, CAA, GAA, AGA, and GGA). 2 independent sequencing experiments, Two-sided Mann–Whitney test. h –j Cumulative distributions of ribosome density change ( h ), mRNA change ( i ), and relative ribosome density change ( j ) for codon-rich, codon-poor, and total transcripts. All the genes were divided into codon-rich genes (top 20%) and codon-poor genes (bottom 20%) based on the content of 5G-ending codons (including AAG, CAG, GAG, AGG, and GGG). 2 independent sequencing experiments, Two-sided Mann–Whitney test. Source data are provided as a Source Data file.

Article Snippet: Quantification was performed in comparison with standard mcm5U (NM45525, Biosynth), cm5U (NC159474, Biosynth), and mcm5s2U (NM159492, Biosynth) from the same batch of samples.

Techniques: Mass Spectrometry, Labeling, RNA Sequencing, Sequencing, MANN-WHITNEY

Journal: Nature Communications

Article Title: ALKBH8-mediated codon-specific translation promotes colorectal tumorigenesis

doi: 10.1038/s41467-025-64144-0

Figure Lengend Snippet: a Schematic of ALKBH8 domain structure and its key amino acids. b Mass spectrometry analysis of cm5U, mcm5U, and mcm5s2U levels in tRNAs from CTL and A8-KO HCT116 cells, 3 biological replicates. c OP-Puro labeling analysis of global translation levels, 3 biological replicates. d Immunoblot analysis of CTL cells, A8-KO cells reconstituted with wild-type A8 or MT-mutant. e Proliferation analysis of CTL cells, A8-KO cells reconstituted with wild-type A8 or MT-mutant. Mean ± SEM, 3 biological replicates, one-way ANOVA with Tukey’s multiple comparisons test. f Colony formation assay of CTL cells, A8-KO cells reconstituted with wild-type A8 or MT-mutant. Mean ± SEM, 3 biological replicates, one-way ANOVA with Tukey’s multiple comparisons test. Source data are provided as a Source Data file.

Article Snippet: Quantification was performed in comparison with standard mcm5U (NM45525, Biosynth), cm5U (NC159474, Biosynth), and mcm5s2U (NM159492, Biosynth) from the same batch of samples.

Techniques: Mass Spectrometry, Labeling, Western Blot, Mutagenesis, Colony Assay