Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ...
Noncoding markers have a particular appeal as tools for phylogenomic analysis because, at least in vertebrates, they appear less subject to strong variation in GC content among lineages. Thus far, ultraconserved elements (UCEs) and introns have been the most widely used noncoding markers. Here we an...
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ftdatacite:10.5061/dryad.25f7g 2024-02-04T10:00:17+01:00 Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... Edwards, Scott V. Cloutier, Alison Baker, Allan J. 2017 https://dx.doi.org/10.5061/dryad.25f7g https://datadryad.org/stash/dataset/doi:10.5061/dryad.25f7g en eng Dryad https://dx.doi.org/10.1093/sysbio/syx058 Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 Dromaius novaehollandiae Struthio camelus Gavia stellata Tinamus guttatus Pygoscelis adeliae biased-gene conversion Falco peregrinus Picoides pubescens intron Alligator mississippiensis Taeniopygia guttata Anas platyrhynchos Nothoprocta perdicaria Phoenicopterus ruber Manacus vitellinus Podiceps cristatus conserved element Meleagris gallopavo Gallus gallus Haliaeetus leucocephalus Dataset dataset 2017 ftdatacite https://doi.org/10.5061/dryad.25f7g10.1093/sysbio/syx058 2024-01-05T04:39:59Z Noncoding markers have a particular appeal as tools for phylogenomic analysis because, at least in vertebrates, they appear less subject to strong variation in GC content among lineages. Thus far, ultraconserved elements (UCEs) and introns have been the most widely used noncoding markers. Here we analyze and study the evolutionary properties of a new type of noncoding marker, conserved non-exonic elements (CNEEs), which consists of noncoding elements that are estimated to evolve slower than the neutral rate across a set of species. Although they often include UCEs, CNEEs are distinct from UCEs because they are not ultraconserved, and, most importantly, the core region alone is analyzed, rather than both the core and its flanking regions. Using a data set of 16 birds plus an alligator outgroup, and ∼3600 - ∼3800 loci per marker type, we found that although CNEEs were less variable than bioinformatically-derived UCEs or introns and in some cases exhibited a slower approach to branch resolution as determined by ... : Supplementary_Files_Edwards_CNEEs_2017Supplementary Files S1, S3, S4, S5, and S6.Supplementary File S2Alignment summary measures for all loci.Supplementary_FileS2.xlsxSupplementary File S7Summary of jModelTest output for all loci.Supplementary_FileS7.xlsxSupplementary_Figures_CNEEs_Edwards_2017Supplementary Figures S1-7.Raw_data_alignments_trees_CNEEs_Syst_Biol ... Dataset Falco peregrinus Pygoscelis adeliae DataCite Metadata Store (German National Library of Science and Technology) |
institution |
Open Polar |
collection |
DataCite Metadata Store (German National Library of Science and Technology) |
op_collection_id |
ftdatacite |
language |
English |
topic |
Dromaius novaehollandiae Struthio camelus Gavia stellata Tinamus guttatus Pygoscelis adeliae biased-gene conversion Falco peregrinus Picoides pubescens intron Alligator mississippiensis Taeniopygia guttata Anas platyrhynchos Nothoprocta perdicaria Phoenicopterus ruber Manacus vitellinus Podiceps cristatus conserved element Meleagris gallopavo Gallus gallus Haliaeetus leucocephalus |
spellingShingle |
Dromaius novaehollandiae Struthio camelus Gavia stellata Tinamus guttatus Pygoscelis adeliae biased-gene conversion Falco peregrinus Picoides pubescens intron Alligator mississippiensis Taeniopygia guttata Anas platyrhynchos Nothoprocta perdicaria Phoenicopterus ruber Manacus vitellinus Podiceps cristatus conserved element Meleagris gallopavo Gallus gallus Haliaeetus leucocephalus Edwards, Scott V. Cloutier, Alison Baker, Allan J. Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
topic_facet |
Dromaius novaehollandiae Struthio camelus Gavia stellata Tinamus guttatus Pygoscelis adeliae biased-gene conversion Falco peregrinus Picoides pubescens intron Alligator mississippiensis Taeniopygia guttata Anas platyrhynchos Nothoprocta perdicaria Phoenicopterus ruber Manacus vitellinus Podiceps cristatus conserved element Meleagris gallopavo Gallus gallus Haliaeetus leucocephalus |
description |
Noncoding markers have a particular appeal as tools for phylogenomic analysis because, at least in vertebrates, they appear less subject to strong variation in GC content among lineages. Thus far, ultraconserved elements (UCEs) and introns have been the most widely used noncoding markers. Here we analyze and study the evolutionary properties of a new type of noncoding marker, conserved non-exonic elements (CNEEs), which consists of noncoding elements that are estimated to evolve slower than the neutral rate across a set of species. Although they often include UCEs, CNEEs are distinct from UCEs because they are not ultraconserved, and, most importantly, the core region alone is analyzed, rather than both the core and its flanking regions. Using a data set of 16 birds plus an alligator outgroup, and ∼3600 - ∼3800 loci per marker type, we found that although CNEEs were less variable than bioinformatically-derived UCEs or introns and in some cases exhibited a slower approach to branch resolution as determined by ... : Supplementary_Files_Edwards_CNEEs_2017Supplementary Files S1, S3, S4, S5, and S6.Supplementary File S2Alignment summary measures for all loci.Supplementary_FileS2.xlsxSupplementary File S7Summary of jModelTest output for all loci.Supplementary_FileS7.xlsxSupplementary_Figures_CNEEs_Edwards_2017Supplementary Figures S1-7.Raw_data_alignments_trees_CNEEs_Syst_Biol ... |
format |
Dataset |
author |
Edwards, Scott V. Cloutier, Alison Baker, Allan J. |
author_facet |
Edwards, Scott V. Cloutier, Alison Baker, Allan J. |
author_sort |
Edwards, Scott V. |
title |
Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
title_short |
Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
title_full |
Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
title_fullStr |
Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
title_full_unstemmed |
Data from: Conserved non-exonic elements: a novel class of marker for phylogenomics ... |
title_sort |
data from: conserved non-exonic elements: a novel class of marker for phylogenomics ... |
publisher |
Dryad |
publishDate |
2017 |
url |
https://dx.doi.org/10.5061/dryad.25f7g https://datadryad.org/stash/dataset/doi:10.5061/dryad.25f7g |
genre |
Falco peregrinus Pygoscelis adeliae |
genre_facet |
Falco peregrinus Pygoscelis adeliae |
op_relation |
https://dx.doi.org/10.1093/sysbio/syx058 |
op_rights |
Creative Commons Zero v1.0 Universal https://creativecommons.org/publicdomain/zero/1.0/legalcode cc0-1.0 |
op_doi |
https://doi.org/10.5061/dryad.25f7g10.1093/sysbio/syx058 |
_version_ |
1789965484892880896 |