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肥尾袋鼩的转录组组装与基因组注释

transcriptome assembly and genome annotation of the fat-tailed dunnart ().

作者信息

Ibeh Neke, Feigin Charles Y, Frankenberg Stephen R, McCarthy Davis J, Pask Andrew J, Gallego Romero Irene

机构信息

School of BioSciences, The University of Melbourne, Parkville, VIC, Australia.

Melbourne Integrative Genomics, The University of Melbourne, Parkville, VIC, Australia.

出版信息

GigaByte. 2024 May 2;2024:gigabyte118. doi: 10.46471/gigabyte.118. eCollection 2024.

DOI:10.46471/gigabyte.118
PMID:38746537
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11091235/
Abstract

Marsupials exhibit distinctive modes of reproduction and early development that set them apart from their eutherian counterparts and render them invaluable for comparative studies. However, marsupial genomic resources still lag far behind those of eutherian mammals. We present a series of novel genomic resources for the fat-tailed dunnart (), a mouse-like marsupial that, due to its ease of husbandry and development, is emerging as a laboratory model. We constructed a highly representative multi-tissue transcriptome assembly of dunnart RNA-seq reads spanning 12 tissues. The transcriptome includes 2,093,982 assembled transcripts and has a mammalian transcriptome BUSCO completeness score of 93.3%, the highest amongst currently published marsupial transcriptomes. This global transcriptome, along with predictions, supported annotation of the existing dunnart genome, revealing 21,622 protein-coding genes. Altogether, these resources will enable wider use of the dunnart as a model marsupial and deepen our understanding of mammalian genome evolution.

摘要

有袋类动物表现出独特的繁殖和早期发育模式,这使它们有别于有胎盘类动物,并且使其成为比较研究中非常重要的对象。然而,有袋类动物的基因组资源仍然远远落后于有胎盘类哺乳动物。我们为肥尾袋鼩(一种类似小鼠的有袋类动物)提供了一系列新的基因组资源,由于其易于饲养和发育,它正逐渐成为一种实验室模型。我们构建了一个高度代表性的多组织转录组组装,该组装来自跨越12个组织的袋鼩RNA测序读数。该转录组包括2,093,982个组装转录本,哺乳动物转录组BUSCO完整性评分为93.3%,是目前已发表的有袋类动物转录组中最高的。这个全局转录组以及预测结果支持了对现有袋鼩基因组的注释,揭示了21,622个蛋白质编码基因。总之,这些资源将使袋鼩作为一种有袋类动物模型得到更广泛的应用,并加深我们对哺乳动物基因组进化的理解。

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