Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ...
Background Baleen whales are a clade of gigantic and highly specialized marine mammals. Their genomes have been used to investigate their complex evolutionary history and to decipher the molecular mechanisms that allowed them to reach these dimensions. However, many unanswered questions remain, espe...
Main Authors: | , , , , , |
---|---|
Format: | Dataset |
Language: | English |
Published: |
Dryad
2022
|
Subjects: | |
Online Access: | https://dx.doi.org/10.5061/dryad.9zw3r22j0 https://datadryad.org/stash/dataset/doi:10.5061/dryad.9zw3r22j0 |
id |
ftdatacite:10.5061/dryad.9zw3r22j0 |
---|---|
record_format |
openpolar |
spelling |
ftdatacite:10.5061/dryad.9zw3r22j0 2024-02-04T09:59:08+01:00 Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... Wolf, Magnus Zapf, Konstantin Gupta, Deepak Kumar Hiller, Michael Árnason, Ulfur Janke, Axel 2022 https://dx.doi.org/10.5061/dryad.9zw3r22j0 https://datadryad.org/stash/dataset/doi:10.5061/dryad.9zw3r22j0 en eng Dryad https://github.com/mag-wolf/GEMOMA-to-Phylogeny https://github.com/mag-wolf/GEMOMA-to-Phylogeny https://dx.doi.org/10.1186/s12915-023-01579-1 https://dx.doi.org/10.5281/zenodo.7740016 Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 FOS Biological sciences Pygmy right whale Caperea marginata whole genome sequencing Phylogenomics rorquals positive selection Cancer resistance Peto's paradox genome assembly de novo genome baleen whale whale Mysticeti Introgression Cell biology Developmental biology Plant science General Agricultural and Biological Sciences General Biochemistry, Genetics and Molecular Biology Physiology Ecology, Evolution, Behavior and Systematics structural biology Biotechnology Dataset dataset 2022 ftdatacite https://doi.org/10.5061/dryad.9zw3r22j010.1186/s12915-023-01579-110.5281/zenodo.7740016 2024-01-05T04:39:59Z Background Baleen whales are a clade of gigantic and highly specialized marine mammals. Their genomes have been used to investigate their complex evolutionary history and to decipher the molecular mechanisms that allowed them to reach these dimensions. However, many unanswered questions remain, especially about the early radiation of rorquals and how cancer resistance interplays with their huge number of cells. The pygmy right whale is the smallest and most elusive among the baleen whales. It reaches only a fraction of the body length compared to its relatives and it is the only living member of an otherwise extinct family. This placement makes the pygmy right whale genome an interesting target to update the complex phylogenetic past of baleen whales, because it splits up an otherwise long branch that leads to the radiation of rorquals. Apart from that, genomic data of this species might help to investigate cancer resistance in large whales, since these mechanisms are not as important for the pygmy right ... : Author for correspondence: Magnus Wolf (Magnus.Wolf@senckenberg.de) The here deposited data is the result of a whole genome sequencing project of the pygmy right whale (Caperea marginata, Gray 1846). Apart of the genome construction, this project includes a phylogenomic revision of the rorqual clade and a positive selection analysis to find genes related to body size and hence cancer resistance in baleen whales. This deposition is composed of: Code to create phylogenomic trees: 1.) A zip file including the main script written in UNIX bash as well as the necessary subscripts and an extensive README file containing necessary instructions. (filename: GEMOMA-to-Phylogeny.zip) Genome data (Cmar): 1.) A raw whole genome assembly without changes made by NCBI in fasta format. (filename: Cmar_C18_SBIK-F_TBG_v1.fasta.gz) 2.) A homology-based genome annotation of the newly constructed genome, including a gff table and an amino acid fasta file. (filename gff: Cmar_C18_SBIK-F_TBG_v1_annotation.gff.gz; filename fasta: ... Dataset baleen whale baleen whales DataCite Metadata Store (German National Library of Science and Technology) Rorqual ENVELOPE(-62.311,-62.311,-65.648,-65.648) |
institution |
Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
FOS Biological sciences Pygmy right whale Caperea marginata whole genome sequencing Phylogenomics rorquals positive selection Cancer resistance Peto's paradox genome assembly de novo genome baleen whale whale Mysticeti Introgression Cell biology Developmental biology Plant science General Agricultural and Biological Sciences General Biochemistry, Genetics and Molecular Biology Physiology Ecology, Evolution, Behavior and Systematics structural biology Biotechnology |
spellingShingle |
FOS Biological sciences Pygmy right whale Caperea marginata whole genome sequencing Phylogenomics rorquals positive selection Cancer resistance Peto's paradox genome assembly de novo genome baleen whale whale Mysticeti Introgression Cell biology Developmental biology Plant science General Agricultural and Biological Sciences General Biochemistry, Genetics and Molecular Biology Physiology Ecology, Evolution, Behavior and Systematics structural biology Biotechnology Wolf, Magnus Zapf, Konstantin Gupta, Deepak Kumar Hiller, Michael Árnason, Ulfur Janke, Axel Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
topic_facet |
FOS Biological sciences Pygmy right whale Caperea marginata whole genome sequencing Phylogenomics rorquals positive selection Cancer resistance Peto's paradox genome assembly de novo genome baleen whale whale Mysticeti Introgression Cell biology Developmental biology Plant science General Agricultural and Biological Sciences General Biochemistry, Genetics and Molecular Biology Physiology Ecology, Evolution, Behavior and Systematics structural biology Biotechnology |
description |
Background Baleen whales are a clade of gigantic and highly specialized marine mammals. Their genomes have been used to investigate their complex evolutionary history and to decipher the molecular mechanisms that allowed them to reach these dimensions. However, many unanswered questions remain, especially about the early radiation of rorquals and how cancer resistance interplays with their huge number of cells. The pygmy right whale is the smallest and most elusive among the baleen whales. It reaches only a fraction of the body length compared to its relatives and it is the only living member of an otherwise extinct family. This placement makes the pygmy right whale genome an interesting target to update the complex phylogenetic past of baleen whales, because it splits up an otherwise long branch that leads to the radiation of rorquals. Apart from that, genomic data of this species might help to investigate cancer resistance in large whales, since these mechanisms are not as important for the pygmy right ... : Author for correspondence: Magnus Wolf (Magnus.Wolf@senckenberg.de) The here deposited data is the result of a whole genome sequencing project of the pygmy right whale (Caperea marginata, Gray 1846). Apart of the genome construction, this project includes a phylogenomic revision of the rorqual clade and a positive selection analysis to find genes related to body size and hence cancer resistance in baleen whales. This deposition is composed of: Code to create phylogenomic trees: 1.) A zip file including the main script written in UNIX bash as well as the necessary subscripts and an extensive README file containing necessary instructions. (filename: GEMOMA-to-Phylogeny.zip) Genome data (Cmar): 1.) A raw whole genome assembly without changes made by NCBI in fasta format. (filename: Cmar_C18_SBIK-F_TBG_v1.fasta.gz) 2.) A homology-based genome annotation of the newly constructed genome, including a gff table and an amino acid fasta file. (filename gff: Cmar_C18_SBIK-F_TBG_v1_annotation.gff.gz; filename fasta: ... |
format |
Dataset |
author |
Wolf, Magnus Zapf, Konstantin Gupta, Deepak Kumar Hiller, Michael Árnason, Ulfur Janke, Axel |
author_facet |
Wolf, Magnus Zapf, Konstantin Gupta, Deepak Kumar Hiller, Michael Árnason, Ulfur Janke, Axel |
author_sort |
Wolf, Magnus |
title |
Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
title_short |
Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
title_full |
Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
title_fullStr |
Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
title_full_unstemmed |
Supporting Data for: The genome of the pygmy right whale illuminates the evolution of rorquals ... |
title_sort |
supporting data for: the genome of the pygmy right whale illuminates the evolution of rorquals ... |
publisher |
Dryad |
publishDate |
2022 |
url |
https://dx.doi.org/10.5061/dryad.9zw3r22j0 https://datadryad.org/stash/dataset/doi:10.5061/dryad.9zw3r22j0 |
long_lat |
ENVELOPE(-62.311,-62.311,-65.648,-65.648) |
geographic |
Rorqual |
geographic_facet |
Rorqual |
genre |
baleen whale baleen whales |
genre_facet |
baleen whale baleen whales |
op_relation |
https://github.com/mag-wolf/GEMOMA-to-Phylogeny https://github.com/mag-wolf/GEMOMA-to-Phylogeny https://dx.doi.org/10.1186/s12915-023-01579-1 https://dx.doi.org/10.5281/zenodo.7740016 |
op_rights |
Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 |
op_doi |
https://doi.org/10.5061/dryad.9zw3r22j010.1186/s12915-023-01579-110.5281/zenodo.7740016 |
_version_ |
1789963782028525568 |