Search: onr:"swepub:oai:gup.ub.gu.se/203449" >
Species and gene di...
-
Panova, Marina,1973Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap, Tjärnö marinbiologiska laboratorium,Department of Biological and Environmental Sciences, Tjärnö Marine Biological Laboratory
(author)
Species and gene divergence in Littorina snails detected by array comparative genomic hybridization
- Article/chapterEnglish2014
Publisher, publication year, extent ...
-
Springer Science and Business Media LLC,2014
Numbers
-
LIBRIS-ID:oai:gup.ub.gu.se/203449
-
https://gup.ub.gu.se/publication/203449URI
-
https://doi.org/10.1186/1471-2164-15-687DOI
-
https://lup.lub.lu.se/record/4649031URI
Supplementary language notes
Part of subdatabase
Classification
-
Subject category:ref swepub-contenttype
-
Subject category:art swepub-publicationtype
Notes
-
© 2014 Panova et al.; licensee BioMed Central Ltd. Background: Array comparative genomic hybridization (aCGH) is commonly used to screen different types of genetic variation in humans and model species. Here, we performed aCGH using an oligonucleotide gene-expression array for a non-model species, the intertidal snail Littorina saxatilis. First, we tested what types of genetic variation can be detected by this method using direct re-sequencing and comparison to the Littorina genome draft. Secondly, we performed a genome-wide comparison of four closely related Littorina species: L. fabalis, L. compressa, L. arcana and L. saxatilis and of populations of L. saxatilis found in Spain, Britain and Sweden. Finally, we tested whether we could identify genetic variation underlying " Crab" and " Wave" ecotypes of L. saxatilis.Results: We could reliably detect copy number variations, deletions and high sequence divergence (i.e. above 3%), but not single nucleotide polymorphisms. The overall hybridization pattern and number of significantly diverged genes were in close agreement with earlier phylogenetic reconstructions based on single genes. The trichotomy of L. arcana, L. compressa and L. saxatilis could not be resolved and we argue that these divergence events have occurred recently and very close in time. We found evidence for high levels of segmental duplication in the Littorina genome (10% of the transcripts represented on the array and up to 23% of the analyzed genomic fragments); duplicated genes and regions were mostly the same in all analyzed species. Finally, this method discriminated geographically distant populations of L. saxatilis, but we did not detect any significant genome divergence associated with ecotypes of L. saxatilis.Conclusions: The present study provides new information on the sensitivity and the potential use of oligonucleotide arrays for genotyping of non-model organisms. Applying this method to Littorina species yields insights into genome evolution following the recent species radiation and supports earlier single-gene based phylogenies. Genetic differentiation of L. saxatilis ecotypes was not detected in this study, despite pronounced innate phenotypic differences. The reason may be that these differences are due to single-nucleotide polymorphisms.
Subject headings and genre
Added entries (persons, corporate bodies, meetings, titles ...)
-
Johansson, TomasLund University,Lunds universitet,MEMEG,Biologiska institutionen,Naturvetenskapliga fakulteten,Department of Biology,Faculty of Science(Swepub:lu)mbek-tjn
(author)
-
Canbäck, BjörnLund University,Lunds universitet,MEMEG,Biologiska institutionen,Naturvetenskapliga fakulteten,Department of Biology,Faculty of Science(Swepub:lu)mbio-bca
(author)
-
Bentzer, JohanLund University,Lunds universitet,MEMEG,Biologiska institutionen,Naturvetenskapliga fakulteten,Department of Biology,Faculty of Science(Swepub:lu)biol-jbz
(author)
-
Alm Rosenblad, Magnus,1957Gothenburg University,Göteborgs universitet,Institutionen för kemi och molekylärbiologi,Department of Chemistry and Molecular Biology(Swepub:gu)xalmma
(author)
-
Johannesson, Kerstin,1955Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap, Tjärnö marinbiologiska laboratorium,Department of Biological and Environmental Sciences, Tjärnö Marine Biological Laboratory(Swepub:gu)xjoker
(author)
-
Tunlid, AndersLund University,Lunds universitet,MEMEG,Biologiska institutionen,Naturvetenskapliga fakulteten,Department of Biology,Faculty of Science(Swepub:lu)mbek-atu
(author)
-
André, Carl,1958Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap, Tjärnö marinbiologiska laboratorium,Department of Biological and Environmental Sciences, Tjärnö Marine Biological Laboratory(Swepub:gu)xacaru
(author)
-
Göteborgs universitetInstitutionen för biologi och miljövetenskap, Tjärnö marinbiologiska laboratorium
(creator_code:org_t)
Related titles
-
In:BMC Genomics: Springer Science and Business Media LLC151471-2164
Internet link
Find in a library
To the university's database
- By the author/editor
-
Panova, Marina, ...
-
Johansson, Tomas
-
Canbäck, Björn
-
Bentzer, Johan
-
Alm Rosenblad, M ...
-
Johannesson, Ker ...
-
show more...
-
Tunlid, Anders
-
André, Carl, 195 ...
-
show less...
- About the subject
-
- NATURAL SCIENCES
-
NATURAL SCIENCES
-
and Biological Scien ...
-
and Ecology
-
- NATURAL SCIENCES
-
NATURAL SCIENCES
-
and Biological Scien ...
-
and Genetics
- Articles in the publication
-
BMC Genomics
- By the university
-
University of Gothenburg
-
Lund University