Computational protocol: Seasonal Expression of Oxytocin and Oxytocin Receptor in the Scented Gland of Male Muskrat (Ondatra zibethicus)

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Protocol publication

[…] The miRNA sequencing and analysis were previously described in detail,. Briefly, the small RNA (sRNA) libraries for the scented gland of muskrat from the breeding season (named: SGB1) and the non-breeding season (named: SGNB2) were constructed from total RNAs using the Illumina Truseq Small RNA Preparation kit (RS-930-1012, Illumina Inc., USA), and were sequenced on the Illumina GAIIx platform following the vendor’s recommended protocol at Beijing Yuanquanyike Biological Technology Co., Ltd (Beijing, China). A proprietary pipeline script, ACGT101-miR v4.2 (LC Sciences, Houston, TX, USA), was utilized to analyze the sequencing data. The sRNAs were annotated by comparison with the deposited sequences in the NCBI GenBank ( and the Rfam11.0 databases ( The remaining sequences were used to BLAST search against miRBase (version 20, to identify known miRNAs. Potential novel miRNAs candidates were predicted by Mireap (version 0.2, Possible target genes regulated by miRNAs were predicted using the miRanda (version 3.3a, and Target Scan Human (version 7.0, R software was utilized to analyze the correlation between differential expression profile of miRNAs and their targeted genes. […]

Pipeline specifications

Software tools MIREAP, MiRanda, TargetScan
Databases Rfam miRBase
Application sRNA-seq analysis
Chemicals Oxytocin