Fast phylogenetic DNA barcoding
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Fast phylogenetic DNA barcoding. / Terkelsen, Kasper Munch; Boomsma, Wouter Krogh; Willerslev, Eske; Nielsen, Rasmus.
In: Philosophical Transactions of the Royal Society of London. Biological Sciences, Vol. 363, No. 1512, 2008, p. 3997-4002.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Fast phylogenetic DNA barcoding
AU - Terkelsen, Kasper Munch
AU - Boomsma, Wouter Krogh
AU - Willerslev, Eske
AU - Nielsen, Rasmus
N1 - KEYWORDS: assignment, barcoding, phylogenetics, neighbour joining
PY - 2008
Y1 - 2008
N2 - We present a heuristic approach to the DNA assignment problem based on phylogenetic inferences using constrained neighbour joining and non-parametric bootstrapping. We show that this method performs as well as the more computationally intensive full Bayesian approach in an analysis of 500 insect DNA sequences obtained from GenBank. We also analyse a previously published dataset of environmental DNA sequences from soil from New Zealand and Siberia, and use these data to illustrate the fact that statistical approaches to the DNA assignment problem allow for more appropriate criteria for determining the taxonomic level at which a particular DNA sequence can be assigned.
AB - We present a heuristic approach to the DNA assignment problem based on phylogenetic inferences using constrained neighbour joining and non-parametric bootstrapping. We show that this method performs as well as the more computationally intensive full Bayesian approach in an analysis of 500 insect DNA sequences obtained from GenBank. We also analyse a previously published dataset of environmental DNA sequences from soil from New Zealand and Siberia, and use these data to illustrate the fact that statistical approaches to the DNA assignment problem allow for more appropriate criteria for determining the taxonomic level at which a particular DNA sequence can be assigned.
U2 - 10.1098/rstb.2008.0169
DO - 10.1098/rstb.2008.0169
M3 - Journal article
C2 - 18852104
VL - 363
SP - 3997
EP - 4002
JO - Philosophical Transactions of the Royal Society B: Biological Sciences
JF - Philosophical Transactions of the Royal Society B: Biological Sciences
SN - 0962-8436
IS - 1512
ER -
ID: 9541977