Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species
Abstract Background Loss of genetic variability due to environmental changes, limitation of gene flow between pools of individuals or putative selective pressure at specific markers, were previously documented for Antarctic notothenioid fish species. However, so far no studies were performed for the...
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ftbiomed:oai:biomedcentral.com:s13104-016-2039-x 2023-05-15T13:39:16+02:00 Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species Papetti, Chiara Harms, Lars Jürgens, Jutta Sandersfeld, Tina Koschnick, Nils Windisch, Heidrun Knust, Rainer Pörtner, Hans-Otto Lucassen, Magnus 2016-04-26 http://www.biomedcentral.com/1756-0500/9/238 en eng BioMed Central Ltd. http://www.biomedcentral.com/1756-0500/9/238 Copyright 2016 Papetti et al. Antarctica Gaudy notothen Lepidonotothen larseni Lepidonotothen squamifrons Nototheniidae Population differentiation Southern ocean Short Report 2016 ftbiomed 2016-05-01T00:00:01Z Abstract Background Loss of genetic variability due to environmental changes, limitation of gene flow between pools of individuals or putative selective pressure at specific markers, were previously documented for Antarctic notothenioid fish species. However, so far no studies were performed for the Gaudy notothen Lepidonotothen nudifrons . Starting from a species-specific spleen transcriptome library, we aimed at isolating polymorphic microsatellites (Type I; i.e. derived from coding sequences) suitable to quantify the genetic variability in this species, and additionally to assess the population genetic structure and demography in nototheniids. Results We selected 43,269 transcripts resulting from a MiSeq sequencer run, out of which we developed 19 primer pairs for sequences containing microsatellite repeats. Sixteen loci were successfully amplified in L. nudifrons . Eleven microsatellites were polymorphic and allele numbers per locus ranged from 2 to 17. In addition, we amplified loci identified from L. nudifrons in two other congeneric species ( L. squamifrons and L. larseni ). Thirteen loci were highly transferable to the two congeneric species. Differences in polymorphism among species were detected. Conclusions Starting from a transcriptome of a non-model organism, we were able to identify promising polymorphic nuclear markers that are easily transferable to other closely related species. These markers can be a key instrument to monitor the genetic structure of the three Lepidonotothen species if genotyped in larger population samples. When compared with anonymous loci isolated in other notothenioids, i.e. Type II (isolated from genomic libraries), they offer the possibility to test how the effects of occurring environmental change influence the population genetic structure in each species and subsequently the composition of the entire ecosystem. Other/Unknown Material Antarc* Antarctic Antarctica Southern Ocean BioMed Central Antarctic Southern Ocean |
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Open Polar |
collection |
BioMed Central |
op_collection_id |
ftbiomed |
language |
English |
topic |
Antarctica Gaudy notothen Lepidonotothen larseni Lepidonotothen squamifrons Nototheniidae Population differentiation Southern ocean |
spellingShingle |
Antarctica Gaudy notothen Lepidonotothen larseni Lepidonotothen squamifrons Nototheniidae Population differentiation Southern ocean Papetti, Chiara Harms, Lars Jürgens, Jutta Sandersfeld, Tina Koschnick, Nils Windisch, Heidrun Knust, Rainer Pörtner, Hans-Otto Lucassen, Magnus Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
topic_facet |
Antarctica Gaudy notothen Lepidonotothen larseni Lepidonotothen squamifrons Nototheniidae Population differentiation Southern ocean |
description |
Abstract Background Loss of genetic variability due to environmental changes, limitation of gene flow between pools of individuals or putative selective pressure at specific markers, were previously documented for Antarctic notothenioid fish species. However, so far no studies were performed for the Gaudy notothen Lepidonotothen nudifrons . Starting from a species-specific spleen transcriptome library, we aimed at isolating polymorphic microsatellites (Type I; i.e. derived from coding sequences) suitable to quantify the genetic variability in this species, and additionally to assess the population genetic structure and demography in nototheniids. Results We selected 43,269 transcripts resulting from a MiSeq sequencer run, out of which we developed 19 primer pairs for sequences containing microsatellite repeats. Sixteen loci were successfully amplified in L. nudifrons . Eleven microsatellites were polymorphic and allele numbers per locus ranged from 2 to 17. In addition, we amplified loci identified from L. nudifrons in two other congeneric species ( L. squamifrons and L. larseni ). Thirteen loci were highly transferable to the two congeneric species. Differences in polymorphism among species were detected. Conclusions Starting from a transcriptome of a non-model organism, we were able to identify promising polymorphic nuclear markers that are easily transferable to other closely related species. These markers can be a key instrument to monitor the genetic structure of the three Lepidonotothen species if genotyped in larger population samples. When compared with anonymous loci isolated in other notothenioids, i.e. Type II (isolated from genomic libraries), they offer the possibility to test how the effects of occurring environmental change influence the population genetic structure in each species and subsequently the composition of the entire ecosystem. |
format |
Other/Unknown Material |
author |
Papetti, Chiara Harms, Lars Jürgens, Jutta Sandersfeld, Tina Koschnick, Nils Windisch, Heidrun Knust, Rainer Pörtner, Hans-Otto Lucassen, Magnus |
author_facet |
Papetti, Chiara Harms, Lars Jürgens, Jutta Sandersfeld, Tina Koschnick, Nils Windisch, Heidrun Knust, Rainer Pörtner, Hans-Otto Lucassen, Magnus |
author_sort |
Papetti, Chiara |
title |
Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
title_short |
Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
title_full |
Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
title_fullStr |
Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
title_full_unstemmed |
Microsatellite markers for the notothenioid fish Lepidonotothen nudifrons and two congeneric species |
title_sort |
microsatellite markers for the notothenioid fish lepidonotothen nudifrons and two congeneric species |
publisher |
BioMed Central Ltd. |
publishDate |
2016 |
url |
http://www.biomedcentral.com/1756-0500/9/238 |
geographic |
Antarctic Southern Ocean |
geographic_facet |
Antarctic Southern Ocean |
genre |
Antarc* Antarctic Antarctica Southern Ocean |
genre_facet |
Antarc* Antarctic Antarctica Southern Ocean |
op_relation |
http://www.biomedcentral.com/1756-0500/9/238 |
op_rights |
Copyright 2016 Papetti et al. |
_version_ |
1766116619546787840 |