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Statements

Subject Item
n2:RIV%2F60076658%3A12310%2F12%3A43883616%21RIV13-MSM-12310___
rdf:type
skos:Concept n6:Vysledek
dcterms:description
The enormous cytochrome oxidase subunit I (COI) sequence database being assembled from the various DNA barcoding projects as well as from independent phylogenetic studies constitutes an almost unprecedented amount of data for molecular systematics, in addition to its role in species identification and discovery. As part of a study of the potential of this gene fragment to improve the accuracy of phylogenetic reconstructions, and in particular, exploring the effects of dense taxon sampling, we have assembled a data set for the hyperdiverse, cosmopolitan parasitic wasp superfamily Ichneumonoidea, including the release of 1793 unpublished sequences. Of approximately 84 currently recognized Ichneumonoidea subfamilies, 2500 genera and 41 000 described species, barcoding 5'-COI data were assembled for 4168 putative species-level terminals (many undescribed), representing 671 genera and all but ten of the currently recognized subfamilies. After the removal of identical and near-identical sequences, the 4174 initial sequences were reduced to 3278. We show that when subjected to phylogenetic analysis using both maximum likelihood and parsimony, there is a broad correlation between taxonomic congruence and number of included sequences. We additionally present a new measure of taxonomic congruence based upon the Simpson diversity index, the Simpson dominance index, which gives greater weight to morphologically recognized taxonomic groups (subfamilies) recovered with most representatives in one or a few contiguous groups or subclusters. The enormous cytochrome oxidase subunit I (COI) sequence database being assembled from the various DNA barcoding projects as well as from independent phylogenetic studies constitutes an almost unprecedented amount of data for molecular systematics, in addition to its role in species identification and discovery. As part of a study of the potential of this gene fragment to improve the accuracy of phylogenetic reconstructions, and in particular, exploring the effects of dense taxon sampling, we have assembled a data set for the hyperdiverse, cosmopolitan parasitic wasp superfamily Ichneumonoidea, including the release of 1793 unpublished sequences. Of approximately 84 currently recognized Ichneumonoidea subfamilies, 2500 genera and 41 000 described species, barcoding 5'-COI data were assembled for 4168 putative species-level terminals (many undescribed), representing 671 genera and all but ten of the currently recognized subfamilies. After the removal of identical and near-identical sequences, the 4174 initial sequences were reduced to 3278. We show that when subjected to phylogenetic analysis using both maximum likelihood and parsimony, there is a broad correlation between taxonomic congruence and number of included sequences. We additionally present a new measure of taxonomic congruence based upon the Simpson diversity index, the Simpson dominance index, which gives greater weight to morphologically recognized taxonomic groups (subfamilies) recovered with most representatives in one or a few contiguous groups or subclusters.
dcterms:title
Utility of the DNA barcoding gene fragment for parasitic wasp phylogeny (Hymenoptera: Ichneumonoidea): data release and new measure of taxonomic congruence Utility of the DNA barcoding gene fragment for parasitic wasp phylogeny (Hymenoptera: Ichneumonoidea): data release and new measure of taxonomic congruence
skos:prefLabel
Utility of the DNA barcoding gene fragment for parasitic wasp phylogeny (Hymenoptera: Ichneumonoidea): data release and new measure of taxonomic congruence Utility of the DNA barcoding gene fragment for parasitic wasp phylogeny (Hymenoptera: Ichneumonoidea): data release and new measure of taxonomic congruence
skos:notation
RIV/60076658:12310/12:43883616!RIV13-MSM-12310___
n6:predkladatel
n7:orjk%3A12310
n3:aktivita
n11:I n11:P n11:V n11:Z
n3:aktivity
I, P(GA206/09/0115), V, Z(AV0Z50070508)
n3:cisloPeriodika
4
n3:dodaniDat
n16:2013
n3:domaciTvurceVysledku
n14:6057624
n3:druhVysledku
n10:J
n3:duvernostUdaju
n15:S
n3:entitaPredkladatele
n20:predkladatel
n3:idSjednocenehoVysledku
176640
n3:idVysledku
RIV/60076658:12310/12:43883616
n3:jazykVysledku
n9:eng
n3:klicovaSlova
Simpson dominance index; sampling density; Ichneumonidae; cytochrome oxidase 1; Braconidae; ORIGIN; ALIGNMENT; SEQUENCES; SUBFAMILIES; INSECTA; 28S GENES; RIBOSOMAL-RNA; MOLECULAR PHYLOGENY; BRACONIDAE HYMENOPTERA; PARTIAL 16S RDNA
n3:klicoveSlovo
n4:Simpson%20dominance%20index n4:SEQUENCES n4:PARTIAL%2016S%20RDNA n4:cytochrome%20oxidase%201 n4:ORIGIN n4:RIBOSOMAL-RNA n4:MOLECULAR%20PHYLOGENY n4:sampling%20density n4:28S%20GENES n4:SUBFAMILIES n4:INSECTA n4:BRACONIDAE%20HYMENOPTERA n4:ALIGNMENT n4:Ichneumonidae n4:Braconidae
n3:kodStatuVydavatele
US - Spojené státy americké
n3:kontrolniKodProRIV
[F5CE16BE0CB1]
n3:nazevZdroje
Molecular Ecology Resourses
n3:obor
n12:EB
n3:pocetDomacichTvurcuVysledku
1
n3:pocetTvurcuVysledku
22
n3:projekt
n17:GA206%2F09%2F0115
n3:rokUplatneniVysledku
n16:2012
n3:svazekPeriodika
12
n3:tvurceVysledku
Smith, M. Alex Janzen, Daniel H. Shaw, Scott R. Broad, Gavin R. Rodriguez, Josephine J. Shaw, Mark R. Laurenne, Nina M. Sharanowski, Barbara J. Sharkey, Michael J. Gauld, Ian D. Vogler, Alfried P. Chesters, Douglas Hebert, Paul D. N. Hallwachs, Winnie Jussila, Reijo Hrček, Jan Klopfstein, Seraina Zaldivar-Riveron, Alejandro Quicke, Donald L. J. Whitfield, James B. Fernandez-Triana, Jose Miller, Scott E.
n3:wos
000305070300013
n3:zamer
n13:AV0Z50070508
s:issn
1755-098X
s:numberOfPages
10
n19:doi
10.1111/j.1755-0998.2012.03143.x
n21:organizacniJednotka
12310