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Circumpolar dataset of sequenced specimens of Promachocrinus kerguelensis (Echinodermata, Crinoidea).

Hemery LG, Améziane N, Eléaume M - Zookeys (2013)

Bottom Line: The aim of Hemery et al. (2012) paper was to use phylogeographic and phylogenetic tools to assess the genetic diversity, demographic history and evolutionary relationships of this very common and abundant comatulid, in the context of the glacial history of the Antarctic and Sub-Antarctic shelves (Thatje et al. 2005, 2008).Over one thousand three hundred specimens (1307) used in this study were collected during seventeen cruises from 1996 to 2010, in eight regions of the Southern Ocean: Kerguelen Plateau, Davis Sea, Dumont d'Urville Sea, Ross Sea, Amundsen Sea, West Antarctic Peninsula, East Weddell Sea and Scotia Arc including the tip of the Antarctic Peninsula and the Bransfield Strait.We give here the metadata of this dataset, which lists sampling sources (cruise ID, ship name, sampling date, sampling gear), sampling sites (station, geographic coordinates, depth) and genetic data (phylogroup, haplotype, sequence ID) for each of the 1307 specimens.

View Article: PubMed Central - PubMed

Affiliation: Muséum national d'Histoire naturelle, Département des Milieux et Peuplements Aquatiques, UMR 7208-MNHN, UPMC, CNRS, IRD-207, CP26, 57 rue Cuvier, 75231 Paris Cedex 05, Paris, France.

ABSTRACT
This circumpolar dataset of the comatulid (Echinodermata: Crinoidea) Promachocrinus kerguelensis (Carpenter, 1888) from the Southern Ocean, documents biodiversity associated with the specimens sequenced in Hemery et al. (2012). The aim of Hemery et al. (2012) paper was to use phylogeographic and phylogenetic tools to assess the genetic diversity, demographic history and evolutionary relationships of this very common and abundant comatulid, in the context of the glacial history of the Antarctic and Sub-Antarctic shelves (Thatje et al. 2005, 2008). Over one thousand three hundred specimens (1307) used in this study were collected during seventeen cruises from 1996 to 2010, in eight regions of the Southern Ocean: Kerguelen Plateau, Davis Sea, Dumont d'Urville Sea, Ross Sea, Amundsen Sea, West Antarctic Peninsula, East Weddell Sea and Scotia Arc including the tip of the Antarctic Peninsula and the Bransfield Strait. We give here the metadata of this dataset, which lists sampling sources (cruise ID, ship name, sampling date, sampling gear), sampling sites (station, geographic coordinates, depth) and genetic data (phylogroup, haplotype, sequence ID) for each of the 1307 specimens. The identification of the specimens was controlled by an expert taxonomist specialist of crinoids (Marc Eléaume, Muséum national d'Histoire naturelle, Paris) and all the COI sequences were matched against those available on the Barcode of Life Data System (BOLD: http://www.boldsystems.org/index.php/IDS_OpenIdEngine). This dataset can be used by studies dealing with, among other interests, Antarctic and/or crinoid diversity (species richness, distribution patterns), biogeography or habitat / ecological niche modeling. This dataset is accessible through the GBIF network at http://ipt.biodiversity.aq/resource.do?r=proke.

No MeSH data available.


Related in: MedlinePlus

Synoptic of the procedure used to generate the dataset. Yellow exclamatory marks show where the data quality has been checked.
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Figure 1: Synoptic of the procedure used to generate the dataset. Yellow exclamatory marks show where the data quality has been checked.

Mentions: Design description: This dataset was gathered to conduct a circumpolar phylogeographic study of the crinoid species Promachocrinus kerguelensis (Hemery et al. 2012) and designed to spatially improve the sampling of Wilson et al. (2007), which was limited to the Atlantic sector of the Southern Ocean. The aim of Hemery et al. (2012) was to test the circumpolarity of the genetic lineages of Wilson et al. (2007), and to test whether these lineages represented an under-sampling artifact of a large and genetically diverse metapopulation or whether they were truly representative of the Southern Ocean. The authors used a sampling strategy designed to cover the broadest possible genetic variation and to explore the evolutionary relationships among the seven lineages, in order to be able to conduct population analyses (Meyer and Paulay 2005). They also wanted to understand the distributional limits of each phylogroup in Promachocrinus kerguelensis to assess the connectivity displayed throughout their range, and to test the “multiple refugia” theory by studying the demographic history of each phylogroup. For this purpose, more than two thousand specimens, sampled during the most recent Antarctic cruises focused on benthic biodiversity and fixed and preserved in a way allowing for DNA extraction and amplification (fixed in ethanol or frozen), were provided by several taxonomists and benthologists from different institutions. Specimen identifications during the sampling cruises were conducted to a higher level allowed by the taxonomic skills of the collectors then checked principally at the Muséum national d’Histoire naturelle, Paris by taxonomists trained to deal with Antarctic crinoids. The Cytochrome c Oxydase subunit I (COI) was successfully sequenced for 1307 of these specimens. Both collection data and produced sequences were digitized in appropriate databases, used or ready to be used for publishing purpose (Figure 1).


Circumpolar dataset of sequenced specimens of Promachocrinus kerguelensis (Echinodermata, Crinoidea).

Hemery LG, Améziane N, Eléaume M - Zookeys (2013)

Synoptic of the procedure used to generate the dataset. Yellow exclamatory marks show where the data quality has been checked.
© Copyright Policy - creative-commons-attribution
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3713352&req=5

Figure 1: Synoptic of the procedure used to generate the dataset. Yellow exclamatory marks show where the data quality has been checked.
Mentions: Design description: This dataset was gathered to conduct a circumpolar phylogeographic study of the crinoid species Promachocrinus kerguelensis (Hemery et al. 2012) and designed to spatially improve the sampling of Wilson et al. (2007), which was limited to the Atlantic sector of the Southern Ocean. The aim of Hemery et al. (2012) was to test the circumpolarity of the genetic lineages of Wilson et al. (2007), and to test whether these lineages represented an under-sampling artifact of a large and genetically diverse metapopulation or whether they were truly representative of the Southern Ocean. The authors used a sampling strategy designed to cover the broadest possible genetic variation and to explore the evolutionary relationships among the seven lineages, in order to be able to conduct population analyses (Meyer and Paulay 2005). They also wanted to understand the distributional limits of each phylogroup in Promachocrinus kerguelensis to assess the connectivity displayed throughout their range, and to test the “multiple refugia” theory by studying the demographic history of each phylogroup. For this purpose, more than two thousand specimens, sampled during the most recent Antarctic cruises focused on benthic biodiversity and fixed and preserved in a way allowing for DNA extraction and amplification (fixed in ethanol or frozen), were provided by several taxonomists and benthologists from different institutions. Specimen identifications during the sampling cruises were conducted to a higher level allowed by the taxonomic skills of the collectors then checked principally at the Muséum national d’Histoire naturelle, Paris by taxonomists trained to deal with Antarctic crinoids. The Cytochrome c Oxydase subunit I (COI) was successfully sequenced for 1307 of these specimens. Both collection data and produced sequences were digitized in appropriate databases, used or ready to be used for publishing purpose (Figure 1).

Bottom Line: The aim of Hemery et al. (2012) paper was to use phylogeographic and phylogenetic tools to assess the genetic diversity, demographic history and evolutionary relationships of this very common and abundant comatulid, in the context of the glacial history of the Antarctic and Sub-Antarctic shelves (Thatje et al. 2005, 2008).Over one thousand three hundred specimens (1307) used in this study were collected during seventeen cruises from 1996 to 2010, in eight regions of the Southern Ocean: Kerguelen Plateau, Davis Sea, Dumont d'Urville Sea, Ross Sea, Amundsen Sea, West Antarctic Peninsula, East Weddell Sea and Scotia Arc including the tip of the Antarctic Peninsula and the Bransfield Strait.We give here the metadata of this dataset, which lists sampling sources (cruise ID, ship name, sampling date, sampling gear), sampling sites (station, geographic coordinates, depth) and genetic data (phylogroup, haplotype, sequence ID) for each of the 1307 specimens.

View Article: PubMed Central - PubMed

Affiliation: Muséum national d'Histoire naturelle, Département des Milieux et Peuplements Aquatiques, UMR 7208-MNHN, UPMC, CNRS, IRD-207, CP26, 57 rue Cuvier, 75231 Paris Cedex 05, Paris, France.

ABSTRACT
This circumpolar dataset of the comatulid (Echinodermata: Crinoidea) Promachocrinus kerguelensis (Carpenter, 1888) from the Southern Ocean, documents biodiversity associated with the specimens sequenced in Hemery et al. (2012). The aim of Hemery et al. (2012) paper was to use phylogeographic and phylogenetic tools to assess the genetic diversity, demographic history and evolutionary relationships of this very common and abundant comatulid, in the context of the glacial history of the Antarctic and Sub-Antarctic shelves (Thatje et al. 2005, 2008). Over one thousand three hundred specimens (1307) used in this study were collected during seventeen cruises from 1996 to 2010, in eight regions of the Southern Ocean: Kerguelen Plateau, Davis Sea, Dumont d'Urville Sea, Ross Sea, Amundsen Sea, West Antarctic Peninsula, East Weddell Sea and Scotia Arc including the tip of the Antarctic Peninsula and the Bransfield Strait. We give here the metadata of this dataset, which lists sampling sources (cruise ID, ship name, sampling date, sampling gear), sampling sites (station, geographic coordinates, depth) and genetic data (phylogroup, haplotype, sequence ID) for each of the 1307 specimens. The identification of the specimens was controlled by an expert taxonomist specialist of crinoids (Marc Eléaume, Muséum national d'Histoire naturelle, Paris) and all the COI sequences were matched against those available on the Barcode of Life Data System (BOLD: http://www.boldsystems.org/index.php/IDS_OpenIdEngine). This dataset can be used by studies dealing with, among other interests, Antarctic and/or crinoid diversity (species richness, distribution patterns), biogeography or habitat / ecological niche modeling. This dataset is accessible through the GBIF network at http://ipt.biodiversity.aq/resource.do?r=proke.

No MeSH data available.


Related in: MedlinePlus