Characterization of microRNAs from goat (Capra hircus) by Solexa deep-sequencing technology

Abstract

ABSTRACT. MicroRNAs (miRNAs) are an important class of small noncoding RNAs that are highly conserved in plants and animals. Many miRNAs are known to mediate a myriad of cell processes, including proliferation and differentiation, via the regulation of some transcription and signaling factors, which are closely related to muscle development and disease. In this study, small RNA cDNA libraries of Boer goats were constructed. In addition, we obtained the goat muscle miRNAs by using Solexa deep-sequencing technology and analyzed these miRNA characteristics by combining it with the bioinformatics technology. Based on Solexa sequencing and bioinformatics analysis, 562 speciesconserved and 5 goat genome-specific miRNAs were identified, 322 of which exceeded 100 in the expression levels. The results of realtime quantitative polymerase chain reaction from 8 randomly selected miRNAs showed that the 8 miRNAs were expressed in goat muscle, and the expression patterns were consistent with the Solexa sequencing results. The identification and characterization of miRNAs in goat muscle provide important information on the role of miRNA regulation in muscle growth and development. These data will help to facilitate studies on the regulatory roles played by miRNAs during goat growth and development.

Identification and Profiling of microRNAs and Their Target Genes from Developing Caprine Skeletal Muscle

“…Most of the sequences are 22nt in length, and majority of the small RNAs are 21–23nt in length, which is the typical size range of Dicer-derived products. The results are consistent with the small RNA distribution of Boer goat [53], sheep [54] and cattle [52], [55]. The most abundant miRNAs identified in our study were highly consisted with study on Boer goat, which reported that miR-133, miR-1, miR-378 and miR-206 families were the top 20 miRNAs in 6 month old Boer goat longissimus tissue [53], indicating the importance of these miRNAs on skeletal muscle development and growth.…”

“…The results are consistent with the small RNA distribution of Boer goat [53], sheep [54] and cattle [52], [55]. The most abundant miRNAs identified in our study were highly consisted with study on Boer goat, which reported that miR-133, miR-1, miR-378 and miR-206 families were the top 20 miRNAs in 6 month old Boer goat longissimus tissue [53], indicating the importance of these miRNAs on skeletal muscle development and growth. Interestingly, the most abundant miRNAs in our libraries were also highly consisted with that in bovine muscle libraries [52].…”

Identification and characterization of microRNAs in the ovaries of multiple and uniparous goats (Capra hircus) during follicular phase

“…MiRNAs regulation have been implicated in varied physiological processes including cell proliferation [3], differentiation [4], apoptosis [5], tumorigenesis [6], hormone secretion [7], metabolism [8] and reproduction control [9]. On goat’s miRNA study, researchers have focused their interest on mammary gland of dairy goat [10], hair follicle of cashmere goat [11] and muscle or reproduction of meat goat [12, 13]. A recent study showed that over-expression of miR-103 in goat’s mammary gland epithelial cells increased transcription of genes associated with milk fat synthesis, resulted in an up-regulation of fat droplet formation, triglyceride accumulation, and the proportion of unsaturated fatty acids [14].…”

The Properties of Binding Sites of miR-619-5p, miR-5095, miR-5096, and miR-5585-3p in the mRNAs of Human Genes

“…The study of the properties of miRNAs and their influences on the expression of the genes that participate in all key cellular processes of cells was established in the last 20 years. The actions of miRNAs on the cell cycle [3], apoptosis [4], differentiation [5], and growth and development in plants [6] and animals [7] have been shown. Connections between miRNA expression and the development of various diseases have been established.…”