利用 RNA-Seq 比较牛胚胎的转录组图谱。
Comparison of transcriptomic landscapes of bovine embryos using RNA-Seq.
机构信息
Department of Dairy Science, University of Wisconsin, Madison, WI 53706, USA.
出版信息
BMC Genomics. 2010 Dec 17;11:711. doi: 10.1186/1471-2164-11-711.
BACKGROUND
Advances in sequencing technologies have opened a new era of high throughput investigations. Although RNA-seq has been demonstrated in many organisms, no study has provided a comprehensive investigation of the bovine transcriptome using RNA-seq.
RESULTS
In this study, we provide a deep survey of the bovine embryonic transcriptomes, the first application of RNA-seq in cattle. Embryos cultured in vitro were used as models to study early embryonic development in cattle. RNA amplified from limited amounts of starting total RNA were sequenced and mapped to the reference genome to obtain digital gene expression at single base resolution. In particular, gene expression estimates from more than 1.6 million unannotated bases in 1785 novel transcribed units were obtained. We compared the transcriptomes of embryos showing distinct developmental statuses and found genes that showed differential overall expression as well as alternative splicing.
CONCLUSION
Our study demonstrates the power of RNA-seq and provides further understanding of bovine preimplantation embryonic development at a fine scale.
背景
测序技术的进步开创了高通量研究的新时代。尽管 RNA-seq 在许多生物中都得到了证实，但还没有研究利用 RNA-seq 对牛转录组进行全面的研究。
结果
在这项研究中，我们对牛胚胎转录组进行了深入调查，这是 RNA-seq 在牛中的首次应用。体外培养的胚胎被用作研究牛早期胚胎发育的模型。从有限数量的起始总 RNA 扩增的 RNA 被测序并映射到参考基因组上，以获得单碱基分辨率的数字基因表达。特别是，从 1785 个新转录单元的 160 多万个未注释碱基中获得了基因表达估计值。我们比较了显示不同发育状态的胚胎的转录组，发现了具有差异整体表达和可变剪接的基因。
结论
我们的研究证明了 RNA-seq 的强大功能，并进一步深入了解了牛植入前胚胎发育的精细情况。
Zotero 插件