Expression analysis of box C/D snoRNAs with SNPs between C57BL/6 and MSM/Ms strains in male mouse

MSM/Ms mouse derived from the Japanese wild mouse has unique characteristics compared to the widely used C57BL/6 mouse. To examine the usefulness of the MSM/Ms mouse for the comparative genomic analysis, expression of small RNAs were analyzed by the large-scale sequence analysis for two strains of m...

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Bibliographic Details
Published in:PloS one 2023-07, Vol.18 (7), p.e0288362-e0288362
Main Authors: Saito, Rumiko, Otsu, Maina, Kiyosawa, Hidenori, Kawai, Gota
Format: Article
Language:English
Subjects:
Analysis
Animals
Base Sequence
Biology and life sciences
Biotechnology industry
Brain
Comparative analysis
Gene expression
Gene mutations
Genes
Genetic aspects
Genomes
Genomic analysis
Genomics
Health aspects
Homosexuality, Male
Humans
Male
Mice
Mice, Inbred C57BL
MicroRNAs
Mutation
Nucleotides
Polymorphism, Single Nucleotide
Research and analysis methods
RNA, Small Nucleolar - genetics
Sequence analysis
Sexual and Gender Minorities
Single nucleotide polymorphisms
Single-nucleotide polymorphism
snoRNA
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Summary:MSM/Ms mouse derived from the Japanese wild mouse has unique characteristics compared to the widely used C57BL/6 mouse. To examine the usefulness of the MSM/Ms mouse for the comparative genomic analysis, expression of small RNAs were analyzed by the large-scale sequence analysis for two strains of mouse, C57BL/6 and MSM/Ms. As a trial, expression of box C/D snoRNAs, which are the most abundant small RNAs in the cell, were analyzed. By the comparison of the read number for each fragment, 11 snoRNAs with single nucleotide polymorphisms (SNPs) were detected. One of the snoRNAs, SNORD53, shows the expression only for MSM/Ms and this snoRNA has a mutation in the box sequence in C57BL/6. Thus, it was demonstrated that the proposed experimental system using SNPs can give new insight for the gene expression regulation.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0288362