Welcome to the UPF Digital Repository

The genome sequence of the eastern woodchuck (Marmota monax) - A preclinical animal model for chronic hepatitis B

Show simple item record

dc.contributor.author Alioto, Tyler
dc.contributor.author Cruz, Fernando
dc.contributor.author Gómez Garrido, Jèssica
dc.contributor.author Triyatni, Miriam
dc.contributor.author Gut, Marta
dc.contributor.author Frias, Leonor
dc.contributor.author Esteve-Codina, Anna
dc.contributor.author Menne, Stephan
dc.contributor.author Kiialainen, Anna
dc.contributor.author Kumpesa, Nadine
dc.contributor.author Birzele, Fabian
dc.contributor.author Schmucki, Roland
dc.contributor.author Gut, Ivo Glynne
dc.contributor.author Spleiss, Olivia
dc.date.accessioned 2020-03-25T07:35:58Z
dc.date.available 2020-03-25T07:35:58Z
dc.date.issued 2019
dc.identifier.citation Alioto TS, Cruz F, Gómez-Garrido J, Triyatni M, Gut M, Frias L, Esteve-Codina A, Menne S, Kiialainen A, Kumpesa N, Birzele F, Schmucki R, Gut IG, Spleiss O. The genome sequence of the eastern woodchuck (Marmota monax) - A preclinical animal model for chronic hepatitis B. G3 (Bethesda). 2019; 9(12):3943-52. DOI: 10.1534/g3.119.400413
dc.identifier.issn 2160-1836
dc.identifier.uri http://hdl.handle.net/10230/44016
dc.description.abstract The Eastern woodchuck (Marmota monax) has been extensively used in research of chronic hepatitis B and liver cancer because its infection with the woodchuck hepatitis virus closely resembles a human hepatitis B virus infection. Development of novel immunotherapeutic approaches requires genetic information on immune pathway genes in this animal model. The woodchuck genome was assembled with a combination of high-coverage whole-genome shotgun sequencing of Illumina paired-end, mate-pair libraries and fosmid pool sequencing. The result is a 2.63 Gigabase (Gb) assembly with a contig N50 of 74.5 kilobases (kb), scaffold N50 of 892 kb, and genome completeness of 99.2%. RNA sequencing (RNA-seq) from seven different tissues aided in the annotation of 30,873 protein-coding genes, which in turn encode 41,826 unique protein products. More than 90% of the genes have been functionally annotated, with 82% of them containing open reading frames. This genome sequence and its annotation will enable further research in chronic hepatitis B and hepatocellular carcinoma and contribute to the understanding of immunological responses in the woodchuck.
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher Genetics Society of America
dc.relation.ispartof G3 (Bethesda). 2019; 9(12):3943-52
dc.rights © 2019 Alioto et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.rights.uri http://creativecommons.org/licenses/by/4.0/
dc.title The genome sequence of the eastern woodchuck (Marmota monax) - A preclinical animal model for chronic hepatitis B
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1534/g3.119.400413
dc.subject.keyword Chronic hepatitis B
dc.subject.keyword Eastern woodchuck
dc.subject.keyword Genome assembly
dc.subject.keyword Hepatocellular carcinoma
dc.subject.keyword Immune response
dc.subject.keyword Marmota monax
dc.subject.keyword Whole genome sequencing
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

This item appears in the following Collection(s)

Show simple item record

Search DSpace

Advanced Search


My Account


Compliant to Partaking