The Full-Length Transcriptome Provides New Insights Into the Transcript Complexity of Abdominal Adipose and Subcutaneous Adipose in Pekin Ducks.
The Full-Length Transcriptome Provides New Insights Into the Transcript Complexity of Abdominal Adipose and Subcutaneous Adipose in Pekin Ducks.
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DOI：
10.3389/fphys.2021.767739
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发表时间：
2021
影响因子：
4
通讯作者：
Hou Z
中科院分区：
文献类型：
--
作者：
Sun D;Li X;Yin Z;Hou Z
脂肪组织在生物体中具有核心作用，脂肪含量是家禽的重要经济性状。北京鸭具有较高的脂肪合成和沉积能力，是研究腹部和皮下脂肪沉积机理的理想模型。选择性剪接有助于腹部和皮下脂肪的功能多样性。然而，目前还没有系统的分析北京鸭腹部和皮下脂肪的差异选择性剪接的动力学。本研究应用PacBio Iso-Seq技术对北京鸭腹部和皮下脂肪的转录复杂性进行了研究。总共从41.78 GB原始数据中分别获得了腹部和皮下脂肪细胞的143，931和111，337个全长非嵌合转录组序列。这些数据使我们鉴定出19，212个长非编码RNA（lncRNA）和74，571个可变剪接事件。此外，结合新一代测序技术，我们将结构和功能注释与腹部和皮下脂肪转录本的差异表达谱相关联。本研究发现了许多与脂肪合成相关的新的选择性剪接事件和转录因子的主要转录本。STAT 3是一个重要的脂肪形成基因，我们发现STAT 3 -1在北京鸭脂肪形成过程中起重要作用。本研究对北京鸭腹部和皮下脂肪的基因模式、基因组注释、基因组结构以及脂肪组织的复杂性和多样性有了更深入的了解。这些数据提供了对可变剪接事件的调节的见解，可变剪接事件形成家禽脂肪形成过程中转录物多样性的重要部分。本研究的结果为研究选择性剪接和组织特异性表达提供了宝贵的资源。
Adipose tissues have a central role in organisms, and adipose content is a crucial economic trait of poultry. Pekin duck is an ideal model to study the mechanism of abdominal and subcutaneous adipose deposition for its high ability of adipose synthesis and deposition. Alternative splicing contributes to functional diversity in abdominal and subcutaneous adipose. However, there has been no systematic analysis of the dynamics of differential alternative splicing of abdominal and subcutaneous adipose in Pekin duck. In our study, the Pacific Biosciences (PacBio) Iso-Seq technology was applied to explore the transcriptional complexity of abdominal and subcutaneous adipose in Pekin ducks. In total, 143,931 and 111,337 full-length non-chimeric transcriptome sequences of abdominal and subcutaneous adipocytes were obtained from 41.78 GB raw data, respectively. These data led us to identify 19,212 long non-coding RNAs (lncRNAs) and 74,571 alternative splicing events. In addition, combined with the next-generation sequencing technology, we correlated the structure and function annotation with the differential expression profiles of abdominal and subcutaneous adipose transcripts. This study identified lots of novel alternative splicing events and major transcripts of transcription factors related to adipose synthesis. STAT3 was reported as a vital gene for adipogenesis, and we found that its major transcript is STAT3-1, which may play a considerable role in the process of adipose synthesis in Pekin duck. This study greatly increases our understanding of the gene models, genome annotations, genome structures, and the complexity and diversity of abdominal and subcutaneous adipose in Pekin duck. These data provide insights into the regulation of alternative splicing events, which form an essential part of transcript diversity during adipogenesis in poultry. The results of this study provide an invaluable resource for studying alternative splicing and tissue-specific expression.
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