dc.contributor.author
Gerchen, Jörn F.
dc.contributor.author
Reichert, Samuel J.
dc.contributor.author
Röhr, Johannes T.
dc.contributor.author
Dieterich, Christoph
dc.contributor.author
Kloas, Werner
dc.contributor.author
Stoeck, Matthias
dc.date.accessioned
2018-06-08T03:13:34Z
dc.date.available
2016-07-11T06:35:25.688Z
dc.identifier.uri
https://refubium.fu-berlin.de/handle/fub188/14720
dc.identifier.uri
http://dx.doi.org/10.17169/refubium-18910
dc.description.abstract
Large genome size, including immense repetitive and non-coding fractions,
still present challenges for capacity, bioinformatics and thus affordability
of whole genome sequencing in most amphibians. Here, we test the performance
of a single transcriptome to understand whether it can provide a cost-
efficient resource for species with large unknown genomes. Using RNA from six
different tissues from a single Palearctic green toad (Bufo viridis) specimen
and Hiseq2000, we obtained 22,5 Mio reads and publish >100,000 unigene
sequences. To evaluate efficacy and quality, we first use this data to
identify green toad specific candidate genes, known from other vertebrates for
their role in sex determination and differentiation. Of a list of 37 genes,
the transcriptome yielded 32 (87%), many of which providing the first such
data for this non-model anuran species. However, for many of these genes, only
fragments could be retrieved. In order to allow also applications to
population genetics, we further used the transcriptome for the targeted
development of 21 non-anonymous microsatellites and tested them in genetic
families and backcrosses. Eleven markers were specifically developed to be
located on the B. viridis sex chromosomes; for eight markers we can indeed
demonstrate sex-specific transmission in genetic families. Depending on
phylogenetic distance, several markers, which are sex-linked in green toads,
show high cross-amplification success across the anuran phylogeny, involving
nine systematic anuran families. Our data support the view that single
transcriptome sequencing (based on multiple tissues) provides a reliable
genomic resource and cost-efficient method for non-model amphibian species
with large genome size and, despite limitations, should be considered as long
as genome sequencing remains unaffordable for most species.
en
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.subject.ddc
500 Naturwissenschaften und Mathematik::570 Biowissenschaften; Biologie
dc.title
A Single Transcriptome of a Green Toad (Bufo viridis) Yields Candidate Genes
for Sex Determination and -Differentiation and Non-Anonymous Population
Genetic Markers
dc.type
Wissenschaftlicher Artikel
dcterms.bibliographicCitation
PLoS ONE. - 11 (2016), 5, Artikel Nr. e0156419
dcterms.bibliographicCitation.doi
10.1371/journal.pone.0156419
dcterms.bibliographicCitation.url
http://dx.doi.org/10.1371/journal.pone.0156419
refubium.affiliation
Mathematik und Informatik
de
refubium.mycore.fudocsId
FUDOCS_document_000000024967
refubium.note.author
Der Artikel wurde in einer Open-Access-Zeitschrift publiziert.
refubium.resourceType.isindependentpub
no
refubium.mycore.derivateId
FUDOCS_derivate_000000006742
dcterms.accessRights.openaire
open access