Ormation for individual sequences can be retrieved from the Barcode of Life Data System (BOLD) (Ratnasingham and Hebert 2007), but primers are as detailed in Smith et al. (2008). DNA barcoding data and related information for all specimens studied in this paper can be accessed at: dx.doi.org/10.5883/DATASET-ACGAP1. Sequences were considered as “barcode-compliant” when they had 500 or more base pairs and correctly placed the BEZ235 cost species with its conspecifics in an NJ tree, the function of which is simple identification (as well as species discovery). We did not follow the more formal, but less pragmatically useful, definition of also having less than 1 ambiguous characters (Barcode Compliance standards as in http://www.boldsystems. org/index.php/resources/handbook?chapter=6_managingdata.html section=record_ list), though in selecting the holotype we strive to choose a specimen with a “full” and “complete” DNA barcode. The number of sequences available in BOLD for each species that we treat is provided in the “Molecular data” section within the taxonomic treatment of every species and all sequences can be obtained from BOLD. In the taxonomic treatment of species, “Material Examined” presents the specimen’s information in the following format: “Number of females/males, acronym of the storing institution between parenthesis, COUNTRY: State/Province, city, other locality details, coordinates (in Decimal Degrees), date, collector name, biological information on host (starting with “ex”), ACG database codes (in the format “yy-SRNPxxxxxx” for the host or “DHJPARxxxxxxx” for the wasp)”. For Linaprazan price states of the United States and for Canadian provinces/territories, acronyms consisting of two capital letters are used, following Canada Post (http://www.canadapost.ca/tools/pg/manual/ PGaddress-e.asp). For phylogenetic analyses conducted outside of BOLD, DNA barcode sequences from 180 Mesoamerican Apanteles species were downloaded from BOLD along with 29 sequences from species of other Microgastrinae genera (Microplitis, Pholetesor, Parapanteles, Dolichogenidea). All sequences were imported into Geneious Pro 6.1 (Drummond et al. 2011) and aligned using the default settings for MUSCLE. The first and last nucleotide positions of the aligned dataset were deleted to reduce the amount of missing data. All sequences downloaded were over 500 bp long and the final aligned dataset contained 657 characters of which 315 were parsimony informative. The dataset was partitioned into two partitions, the first containing first and second codon positions and the second containing third codon positions. Model testing done in JModelTest v.0.1.1 (Posada 2008) using the Bayesian Information Criterion selected the GTR+I+G model for both partitions. Two independent Bayesian analyses with 4 chains each were run in MrBayes v.3.2.1 (Ronquist and Huelsenbeck 2003) for 31 253 000 generations each. Trace files of all parametersJose L. Fernandez-Triana et al. / ZooKeys 383: 1?65 (2014)Figure 2. Neighbor-joining Tree for 180 species of Mesoamerican Apanteles with over 500 bp in the barcoding region and 29 species from other genera used as outgroups. Scale bar indicates branch length, expressed as the expected number of substitutions per site.Review of Apanteles sensu stricto (Hymenoptera, Braconidae, Microgastrinae)…were examined in Tracer v.1.5 (Rambaut and Drummond 2009) to verify that the runs had converged on the same stationary distribution, and to select the percentage of samples to.Ormation for individual sequences can be retrieved from the Barcode of Life Data System (BOLD) (Ratnasingham and Hebert 2007), but primers are as detailed in Smith et al. (2008). DNA barcoding data and related information for all specimens studied in this paper can be accessed at: dx.doi.org/10.5883/DATASET-ACGAP1. Sequences were considered as “barcode-compliant” when they had 500 or more base pairs and correctly placed the species with its conspecifics in an NJ tree, the function of which is simple identification (as well as species discovery). We did not follow the more formal, but less pragmatically useful, definition of also having less than 1 ambiguous characters (Barcode Compliance standards as in http://www.boldsystems. org/index.php/resources/handbook?chapter=6_managingdata.html section=record_ list), though in selecting the holotype we strive to choose a specimen with a “full” and “complete” DNA barcode. The number of sequences available in BOLD for each species that we treat is provided in the “Molecular data” section within the taxonomic treatment of every species and all sequences can be obtained from BOLD. In the taxonomic treatment of species, “Material Examined” presents the specimen’s information in the following format: “Number of females/males, acronym of the storing institution between parenthesis, COUNTRY: State/Province, city, other locality details, coordinates (in Decimal Degrees), date, collector name, biological information on host (starting with “ex”), ACG database codes (in the format “yy-SRNPxxxxxx” for the host or “DHJPARxxxxxxx” for the wasp)”. For states of the United States and for Canadian provinces/territories, acronyms consisting of two capital letters are used, following Canada Post (http://www.canadapost.ca/tools/pg/manual/ PGaddress-e.asp). For phylogenetic analyses conducted outside of BOLD, DNA barcode sequences from 180 Mesoamerican Apanteles species were downloaded from BOLD along with 29 sequences from species of other Microgastrinae genera (Microplitis, Pholetesor, Parapanteles, Dolichogenidea). All sequences were imported into Geneious Pro 6.1 (Drummond et al. 2011) and aligned using the default settings for MUSCLE. The first and last nucleotide positions of the aligned dataset were deleted to reduce the amount of missing data. All sequences downloaded were over 500 bp long and the final aligned dataset contained 657 characters of which 315 were parsimony informative. The dataset was partitioned into two partitions, the first containing first and second codon positions and the second containing third codon positions. Model testing done in JModelTest v.0.1.1 (Posada 2008) using the Bayesian Information Criterion selected the GTR+I+G model for both partitions. Two independent Bayesian analyses with 4 chains each were run in MrBayes v.3.2.1 (Ronquist and Huelsenbeck 2003) for 31 253 000 generations each. Trace files of all parametersJose L. Fernandez-Triana et al. / ZooKeys 383: 1?65 (2014)Figure 2. Neighbor-joining Tree for 180 species of Mesoamerican Apanteles with over 500 bp in the barcoding region and 29 species from other genera used as outgroups. Scale bar indicates branch length, expressed as the expected number of substitutions per site.Review of Apanteles sensu stricto (Hymenoptera, Braconidae, Microgastrinae)…were examined in Tracer v.1.5 (Rambaut and Drummond 2009) to verify that the runs had converged on the same stationary distribution, and to select the percentage of samples to.
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