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De novo transcriptome assembly and genome annotation of the fat-tailed dunnart (Sminthopsis crassicaudata)
Ibeh, Neke Feigin, Charles Y. Frankenberg, Stephen R. McCarthy, Davis J. Pask, Andrew J. Gallego Romero, Irene
Ibeh, Neke
Feigin, Charles Y.
Frankenberg, Stephen R.
McCarthy, Davis J.
Pask, Andrew J.
Gallego Romero, Irene
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 (Sminthopsis crassicaudata), a mouse-like marsupial that, due to its ease of husbandry and ex-utero development, is emerging as a laboratory model. We constructed a highly representative multi-tissue de novo 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 ab initio 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.
Keywords
genetics and genomics, bioinformatics, evolutionary biology
Date
2024
Type
Journal article
Journal
Book
Volume
2024
Issue
Page Range
1-16
Article Number
ACU Department
Marketing and Communications
Research Office
Research Office
Collections
Relation URI
Source URL
Event URL
Open Access Status
Published as ‘gold’ (paid) open access
License
CC BY 4.0
File Access
Open
Notes
Copyright © The Author(s) 2024. Published by GigaScience Press.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.