Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation
The perciform suborder Notothenoidei provides a compelling opportunity to study the adaptive radiation of a marine species-flock in the cold Southern Ocean that surrounds Antarctica. To facilitate genome-level studies of the diversification of these fishes, we present estimates of the genome sizes o...
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fthighwire:oai:open-archive.highwire.org:icbiol:50/6/1009 2023-05-15T14:02:57+02:00 Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation Detrich, H. W. Amemiya, Chris T. 2010-12-01 00:00:00.0 text/html http://icb.oxfordjournals.org/cgi/content/short/50/6/1009 https://doi.org/10.1093/icb/icq071 en eng Oxford University Press http://icb.oxfordjournals.org/cgi/content/short/50/6/1009 http://dx.doi.org/10.1093/icb/icq071 Copyright (C) 2010, The Society for Integrative and Comparative Biology Advances in Antarctic Marine Biology TEXT 2010 fthighwire https://doi.org/10.1093/icb/icq071 2010-11-20T21:17:19Z The perciform suborder Notothenoidei provides a compelling opportunity to study the adaptive radiation of a marine species-flock in the cold Southern Ocean that surrounds Antarctica. To facilitate genome-level studies of the diversification of these fishes, we present estimates of the genome sizes of 11 Antarctic species and describe the production of high-quality bacterial artificial chromosome (BAC) libraries for two, the red-blooded notothen Notothenia coriiceps and the white-blooded icefish Chaenocephalus aceratus . Our results indicate that evolution of phylogenetically derived notothenioid families (e.g., the crown group Channichthyidae [icefishes]), was accompanied by genome expansion. Six species from the basal family Nototheniidae had C -values between 0.98 and 1.20 pg, a range that is consistent with the genome sizes of proposed outgroups (e.g., percids) of the notothenioid suborder. In contrast, four icefishes had C -values in the range 1.66–1.83 pg. The BAC libraries VMRC-19 ( N. coriiceps ) and VMRC-21 ( C. aceratus ) comprise 12× and 10× coverage of the respective genomes and have average insert sizes of 138 and 168 kb. Paired BAC-end reads representing ∼0.1% of each genome showed that the repetitive element landscapes of the two genomes (13.4% of the N. coriiceps genome and 14.5% for C. aceratus ) were similar. The availability of these high-quality and well-characterized BAC libraries sets the stage for targeted genomic analyses of the unusual anatomical and physiological adaptations of the notothenioids, some of which mimic human diseases. Here we consider the evolution of secondary pelagicism by various taxa of the group and illustrate the utility of Antarctic icefishes as an evolutionary-mutant model of human osteopenia (low-mineral density of bones). Text Antarc* Antarctic Antarctica Icefish Southern Ocean HighWire Press (Stanford University) Antarctic Southern Ocean Integrative and Comparative Biology 50 6 1009 1017 |
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Open Polar |
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HighWire Press (Stanford University) |
op_collection_id |
fthighwire |
language |
English |
topic |
Advances in Antarctic Marine Biology |
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Advances in Antarctic Marine Biology Detrich, H. W. Amemiya, Chris T. Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
topic_facet |
Advances in Antarctic Marine Biology |
description |
The perciform suborder Notothenoidei provides a compelling opportunity to study the adaptive radiation of a marine species-flock in the cold Southern Ocean that surrounds Antarctica. To facilitate genome-level studies of the diversification of these fishes, we present estimates of the genome sizes of 11 Antarctic species and describe the production of high-quality bacterial artificial chromosome (BAC) libraries for two, the red-blooded notothen Notothenia coriiceps and the white-blooded icefish Chaenocephalus aceratus . Our results indicate that evolution of phylogenetically derived notothenioid families (e.g., the crown group Channichthyidae [icefishes]), was accompanied by genome expansion. Six species from the basal family Nototheniidae had C -values between 0.98 and 1.20 pg, a range that is consistent with the genome sizes of proposed outgroups (e.g., percids) of the notothenioid suborder. In contrast, four icefishes had C -values in the range 1.66–1.83 pg. The BAC libraries VMRC-19 ( N. coriiceps ) and VMRC-21 ( C. aceratus ) comprise 12× and 10× coverage of the respective genomes and have average insert sizes of 138 and 168 kb. Paired BAC-end reads representing ∼0.1% of each genome showed that the repetitive element landscapes of the two genomes (13.4% of the N. coriiceps genome and 14.5% for C. aceratus ) were similar. The availability of these high-quality and well-characterized BAC libraries sets the stage for targeted genomic analyses of the unusual anatomical and physiological adaptations of the notothenioids, some of which mimic human diseases. Here we consider the evolution of secondary pelagicism by various taxa of the group and illustrate the utility of Antarctic icefishes as an evolutionary-mutant model of human osteopenia (low-mineral density of bones). |
format |
Text |
author |
Detrich, H. W. Amemiya, Chris T. |
author_facet |
Detrich, H. W. Amemiya, Chris T. |
author_sort |
Detrich, H. W. |
title |
Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
title_short |
Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
title_full |
Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
title_fullStr |
Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
title_full_unstemmed |
Antarctic Notothenioid Fishes: Genomic Resources and Strategies for Analyzing an Adaptive Radiation |
title_sort |
antarctic notothenioid fishes: genomic resources and strategies for analyzing an adaptive radiation |
publisher |
Oxford University Press |
publishDate |
2010 |
url |
http://icb.oxfordjournals.org/cgi/content/short/50/6/1009 https://doi.org/10.1093/icb/icq071 |
geographic |
Antarctic Southern Ocean |
geographic_facet |
Antarctic Southern Ocean |
genre |
Antarc* Antarctic Antarctica Icefish Southern Ocean |
genre_facet |
Antarc* Antarctic Antarctica Icefish Southern Ocean |
op_relation |
http://icb.oxfordjournals.org/cgi/content/short/50/6/1009 http://dx.doi.org/10.1093/icb/icq071 |
op_rights |
Copyright (C) 2010, The Society for Integrative and Comparative Biology |
op_doi |
https://doi.org/10.1093/icb/icq071 |
container_title |
Integrative and Comparative Biology |
container_volume |
50 |
container_issue |
6 |
container_start_page |
1009 |
op_container_end_page |
1017 |
_version_ |
1766273409196490752 |