Transcriptome profiling of the developing postnatal mouse testis using next-generation sequencing

Gong, Wei; Pan, Li-Long; Lin, Qiang; Zhou, Yuanyuan; Xin, Chengqi; Yu, Xiaomin; Cui, Peng; Hu, Songnian; Yu, Jun

doi:10.1007/s11427-012-4411-y

Cited by 44 publications

(33 citation statements)

References 81 publications

(73 reference statements)

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“…In this method, mRNA is isolated and converted to cDNA; sequencing adapters are added and then a cDNA library is prepared; sequencing of cDNA is performed using an NGS platform. RNA-Seq has been used in studies on sex determination and gonad development (Ayers et al 2015;Gong et al 2013). …”

Section: Microarraymentioning

confidence: 99%

Methods for the Study of Gonadal Development

Piprek

2016

Results and Problems in Cell Differentiation

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Current knowledge on gonadal development and sex determination is the product of many decades of research involving a variety of scientific methods from different biological disciplines such as histology, genetics, biochemistry, and molecular biology. The earliest embryological investigations, followed by the invention of microscopy and staining methods, were based on histological examinations. The most robust development of histological staining techniques occurred in the second half of the nineteenth century and resulted in structural descriptions of gonadogenesis. These first studies on gonadal development were conducted on domesticated animals; however, currently the mouse is the most extensively studied species. The next key point in the study of gonadogenesis was the advancement of methods allowing for the in vitro culture of fetal gonads. For instance, this led to the description of the origin of cell lines forming the gonads. Protein detection using antibodies and immunolabeling methods and the use of reporter genes were also invaluable for developmental studies, enabling the visualization of the formation of gonadal structure. Recently, genetic and molecular biology techniques, especially gene expression analysis, have revolutionized studies on gonadogenesis and have provided insight into the molecular mechanisms that govern this process. The successive invention of new methods is reflected in the progress of research on gonadal development.

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Section: Microarraymentioning

confidence: 99%

Methods for the Study of Gonadal Development

Piprek

2016

Results and Problems in Cell Differentiation

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“…However, the functions of those lncRNAs were completely unknown. With a similar approach, Gong et al (2013) performed RNASeq on testis samples of 6-day-, 4-week-, and 10-week-old mice. Their main emphasis was on global protein-coding genes, revealing that the expressions of many stagespecific marker genes and genes for specific developmental processes, such as self-renewal and differentiation, largely coincided with the RNASeq or microarray results.…”

Section: Rnaseqmentioning

confidence: 99%

Long noncoding RNAs in spermatogenesis: insights from recent high-throughput transcriptome studies

Luk¹,

Chan²,

Rennert³

et al. 2014

Reproduction

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Spermatogenesis is a complex developmental process in which undifferentiated spermatogonia are differentiated into spermatocytes and spermatids through two rounds of meiotic division and finally giving rise to mature spermatozoa (sperm). These processes involve many testis-or male germ cell-specific gene products that undergo strict developmental regulations. As a result, identifying critical, regulatory genes controlling spermatogenesis provide the clues not only to the regulatory mechanism of spermatogenesis at the molecular level, but also to the identification of candidate genes for infertility or contraceptives development. Despite the biological importance in male germ cell development, the underlying mechanisms of stage-specific gene regulation and cellular transition during spermatogenesis remain largely elusive. Previous genomic studies on transcriptome profiling were largely limited to protein-coding genes. Importantly, protein-coding genes only account for a small percentage of transcriptome; the majority are noncoding transcripts that do not translate into proteins. Although small noncoding RNAs (ncRNAs) such as microRNAs, siRNAs, and Piwi-interacting RNAs are extensively investigated in male germ cell development, the role of long ncRNAs (lncRNAs), commonly defined as ncRNAs longer than 200 bp, is relatively unexplored. Herein, we summarize recent transcriptome studies on spermatogenesis and show examples that a subset of noncoding transcript population, known as lncRNAs, constitutes a novel regulatory target in spermatogenesis.

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“…NAD/NADH and NADP/NADPH can regulate respiratory chain and provide energy during silkworm embryonic development [7]. Some researchers believe that the lack of BmCyclin B/B3 was the cause of cell cycle arrest during diapause [8]. As widely known that the continuous division and proliferation of embryonic cells is the key to break silkworm diapause, however,the molecular mechanisms of diapause is unclear.…”

Section: Introductionmentioning

confidence: 99%

Differentially expressed microRNAs in diapausing versus HCl-treated Bombyx embryos

et al. 2017

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Differentially expressed microRNAs were detected to explore the molecular mechanisms of diapause termination. The total small RNA of diapause-destined silkworm eggs and HCl-treated eggs was extracted and then sequenced using HiSeq high-throughput method. 44 novel miRNAs were discovered. Compared to those in the diapause-destined eggs, 61 miRNAs showed significant changes in the acid-treated eggs, with 23 being up-regulated and 38 being down-regulated. The potential target genes of differentially expressed miRNAs were predicted by miRanda. Gene Ontology and KEGG pathway enrichment analysis of these potential target genes revealed that they were mainly located within cells and organelles, involved in cellular and metabolic processes, and participated in protein production, processing and transportation. Two differentially expressed genes, Bombyx mori SDH and Bmo-miR-2761-3p, were further analyzed with qRT-PCR. BmSDH was significantly up-regulated in the HCl-treated eggs, while Bmo-miR-2761-3p was down-regulated. These results suggested that these two genes were well coordinated in silkworm eggs. Dual luciferase reporter assay demonstrated that Bmo-miR-2761-3p inhibited the expression of BmSDH.

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Transcriptome profiling of the developing postnatal mouse testis using next-generation sequencing

Cited by 44 publications

References 81 publications

Methods for the Study of Gonadal Development

Methods for the Study of Gonadal Development

Long noncoding RNAs in spermatogenesis: insights from recent high-throughput transcriptome studies

Differentially expressed microRNAs in diapausing versus HCl-treated Bombyx embryos

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