10.5061/DRYAD.N0QR5
Sharma, Prashant P.
American Museum of Natural History
Fernández, Rosa
Harvard University
Esposito, Lauren A.
University of California, Berkeley
González-Santillán, Edmundo
National Autonomous University of Mexico
Monod, Lionel
Département des Arthropodes et d'Entomologie I, Muséum
d'Histoire Naturelle de la Ville de Genève, Route de Malagnou 1,
Genève 1208, Switzerland
Gonzalez-Santillan, E.
National Autonomous University of Mexico
Fernandez, R.
Harvard University
Data from: Phylogenomic resolution of scorpions reveals multilevel
discordance with morphological phylogenetic signal
Dryad
dataset
2015
Arachnids
Arthropoda
paralogy
Transcriptomics
Bothriuroidea
Chactoidea
Buthida
relict
missing data
2020-06-20T00:00:00Z
en
https://doi.org/10.1098/rspb.2014.2953
183921200 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Scorpions represent an iconic lineage of arthropods, historically renowned
for their unique bauplan, ancient fossil record and venom potency. Yet,
higher level relationships of scorpions, based exclusively on morphology,
remain virtually untested, and no multilocus molecular phylogeny has been
deployed heretofore towards assessing the basal tree topology. We applied
a phylogenomic assessment to resolve scorpion phylogeny, for the first
time, to our knowledge, sampling extensive molecular sequence data from
all superfamilies and examining basal relationships with up to 5025 genes.
Analyses of supermatrices as well as species tree approaches converged
upon a robust basal topology of scorpions that is entirely at odds with
traditional systematics and controverts previous understanding of scorpion
evolutionary history. All analyses unanimously support a single origin of
katoikogenic development, a form of parental investment wherein embryos
are nurtured by direct connections to the parent's digestive system.
Based on the phylogeny obtained herein, we propose the following
systematic emendations: Caraboctonidae is transferred to Chactoidea new
superfamilial assignment; superfamily Bothriuroidea revalidated is
resurrected and Bothriuridae transferred therein; and Chaerilida and
Pseudochactida are synonymized with Buthida new parvordinal synonymies.
Matrix 1Supermatrix of 136 orthologs and 26,337 sites. Occupancy: 93.0%.
Criterion: At least 36 taxa present for every
ortholog.Scor.AL36.phyPartitions file for Matrix 1Partitions file for
Matrix 1.Alignment.AL36.txtMatrix 2Supermatrix of 599 orthologs and
128,842 sites. Occupancy: 86.9%. Criterion: At least 33 taxa present for
every ortholog.Scor.AL33.phyPartitions file for Matrix 2Partitions file
for Matrix 2.AlignmentAL33.txtMatrix 3Supermatrix of 1,557 orthologs and
346,260 sites. Occupancy: 80.1%. Criterion: At least 29 taxa present for
every ortholog.Scor.AL29.phyPartitions file for Matrix 3Partitions file
for Matrix 3.AlignmentAL29.txtMatrix 4Supermatrix of 5,025 orthologs and
1,113,796 sites. Occupancy: 64.2%. Criterion: At least 19 taxa present for
every ortholog.Scor.AL19.phyPartitions file for Matrix 4Partitions file
for Matrix 4.AlignmentAL19.txtMatrix 5Supermatrix of 131 orthologs and
41,615 sites. Occupancy: 81.0%. Criterion: Minimal compositional
heterogeneity.Scor.CH.phyPartitions file for Matrix 5Partitions file for
Matrix 5.AlignmentCH.txtMatrix 6Supermatrix of 453 orthologs and 98,370
sites. Occupancy: 87.1%. Criterion: MAtrix REduction (MARE) of ortholog
set in Matrix 2.Scor.MARE1.phyPartitions file for Matrix 6Partitions file
for Matrix 6.AlignmentMARE1.txtMatrix 7Supermatrix of 2,580 orthologs and
565,648 sites. Occupancy: 72.0%. Criterion: MAtrix REduction (MARE) of
ortholog set in Matrix 4.Scor.MARE2.phyPartitions file for Matrix
7Partitions file for Matrix 7.AlignmentMARE2.txtMatrix 8Supermatrix of 500
orthologs and 118,851 sites. Occupancy: 81.1%. Criterion: Slowest-evolving
(as measured by percent pairwise identity) tertile of ortholog set in
Matrix 3.Scor.Slow.phyPartitions file for Matrix 8Partitions file for
Matrix 8.AlignmentSlow.txtMatrix 9Supermatrix of 500 orthologs and 118,260
sites. Occupancy: 80.1%. Criterion: Middle tertile of evolutionary rate
(as measured by percent pairwise identity) of ortholog set in Matrix
3.Scor.Mid.phyPartitions file for Matrix 9Partitions file for Matrix
9.AlignmentMid.txtMatrix 10Supermatrix of 577 orthologs and 109,149 sites.
Occupancy: 78.5%. Criterion: Fastest-evolving (as measured by percent
pairwise identity) tertile of ortholog set in Matrix
3.Scor.Fast.phyPartitions file for Matrix 10Partitions file for Matrix
10.AlignmentFast.txtMatrix 11Supermatrix of 67 orthologs and 13,540 sites.
Occupancy: 92.7%. Criterion: Intersection of Matrix 1 and BUSCO-Ar data
set.SCO.AL36.phyPartitions file for Matrix 11Partitions file for Matrix
11.Alignment.SCO.AL36.txtMatrix 12Supermatrix of 280 orthologs and 63,274
sites. Occupancy: 86.9%. Criterion: Intersection of Matrix 2 and BUSCO-Ar
data set.SCO.AL33.phyPartitions file for Matrix 12Partitions file for
Matrix 12.Alignment.SCO.AL33.txtMatrix 13Supermatrix of 689 orthologs and
162,067 sites. Occupancy: 80.4%. Criterion: Intersection of Matrix 3 and
BUSCO-Ar data set.SCO.AL29.phyPartitions file for Matrix 13Partitions file
for Matrix 13.Alignment.SCO.AL29.txtMatrix 14Supermatrix of 1,725
orthologs and 421,446 sites. Occupancy: 66.4%. Criterion: Intersection of
Matrix 4 and BUSCO-Ar data set.SCO.AL19.phyPartitions file for Matrix
14Partitions file for Matrix 14.Alignment.SCO.AL19.txt
Global