Sminthopsis_crassicaudata_1.gtf

Marsupials exhibit highly specialized patterns of reproduction and development, making them uniquely valuable for comparative genomics studies with their sister lineage, eutherian (also known as placental) mammals. However, marsupial genomic resources still lag far behind those of eutherian mammals, limiting our insight into mammalian diversity. Here, we present a series of novel genomic resources for the fat-tailed dunnart (Sminthopsis crassicaudata), a mouse-like marsupial that, due to its ease of husbandry and ex-utero development, is emerging as a laboratory model. To enable wider use, we have generated a multi-tissue de novo transcriptome assembly of dunnart RNA-seq reads spanning 15 tissues. This highly representative transcriptome is comprised of 2,093,982 assembled transcripts, with a mean transcript length of 830 bp. The transcriptome mammalian BUSCO completeness score of 93% is the highest amongst all other published marsupial transcriptomes. Additionally, we report an improved fat-tailed dunnart genome assembly which is 3.23 Gb long, organized into 1,848 scaffolds, with a scaffold N50 of 72.64 Mb. The genome annotation, supported by assembled transcripts and ab initio predictions, revealed 21,622 protein-coding genes. Altogether, these resources will contribute greatly towards characterizing marsupial biology and mammalian genome evolution.Marsupials exhibit highly specialized patterns of reproduction and development, making them uniquely valuable for comparative genomics studies with their sister lineage, eutherian (also known as placental) mammals. However, marsupial genomic resources still lag far behind those of eutherian mammals, limiting our insight into mammalian diversity. Here, we present a series of novel genomic resources for the fat-tailed dunnart (\textit{Sminthopsis crassicaudata}), a mouse-like marsupial that, due to its ease of husbandry and \textit{ex-utero} development, is emerging as a laboratory model. To enable wider use, we have generated a multi-tissue \textit{de novo} transcriptome assembly of dunnart RNA-seq reads spanning [\hl{15?}] tissues. This highly representative transcriptome is comprised of 2,093,982 assembled transcripts, with a mean transcript length of 830 bp. The transcriptome mammalian BUSCO completeness score of 93\% is the highest amongst all other published marsupial transcriptomes. Additionally, we report an improved fat-tailed dunnart genome assembly which is 3.23 Gb long, organized into 1,848 scaffolds, with a scaffold N50 of 72.64 Mb. The genome annotation, supported by assembled transcripts and \textit{ab initio} predictions, revealed 21,622 protein-coding genes. Altogether, these resources will contribute greatly towards characterizing marsupial biology and mammalian genome evolution.有袋类动物展现出高度专业化的繁殖与发育模式，这使得它们在与姐妹谱系——真兽亚纲（亦称有袋类哺乳动物）的比较基因组学研究中具有独特的价值。然而，有袋类动物的基因组资源仍远远落后于有袋类哺乳动物，这限制了我们对哺乳动物多样性的认识。在本研究中，我们针对肥尾袋貂（Sminthopsis crassicaudata）这一易于饲养和离体发育的类似鼠类的有袋类动物，提供了一系列新颖的基因组资源。为了促进其更广泛的应用，我们对跨越15种组织的袋貂RNA测序读数进行了多组织从头转录组组装。这一高度代表性的转录组由2,093,982个组装转录本组成，平均转录本长度为830碱基对。转录组哺乳动物BUSCO完整性评分达到93%，在所有已发表的袋貂转录组中位居首位。此外，我们还报告了改进的肥尾袋貂基因组组装，其长度为3.23 Gb，由1,848个条带组成，条带N50为72.64 Mb。基因组注释在组装转录本和从头预测的支持下，揭示了21,622个编码蛋白基因。总之，这些资源将极大地有助于描绘有袋类动物生物学特征和哺乳动物基因组进化的演化历程。