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4,144 results for “ITS barcode”
Figures 1-17 from: Luan Y, Bu Y, Gao Y (2012) Redescription of arenicolous dipluran Parajapyx pauliani (Diplura, Parajapygidae) and DNA barcoding analyses of Parajapyx from China. ZooKeys 221: 19-29. https://doi.org/10.3897/zookeys.221.3207
Figures 1-17 - Parajapyx pauliani 1 Habitus 2 head, dorsal view (Di= dorsal interior setae; De= dorsal exterior setae; Dl= dorsal lateral setae) 3 head, ventral view (ad= admentum cx= coxae lp= labial palps area sm= submentum po= pli oral region) 4 pronotum 5 mesonotum 6 metanotum 7 prosternum (al= anterior lobe ml= middlelobe pl= posterior lobe, same for figs 8–9) 8 mesosternum 9 metasternum 10 cerci 11 subcoxal organ of urosternite I, right side 12 urotergite I 13 urotergite II 14 urotergite VII 15 urosternite I (so= subcoxal organ) 16 urosternite II (ev= eversible vesicles) 17 urosternite VII. Scale bar: 0.5 mm in Fig. 1; 0.1 mm in Figs 2–17.
Figure 5 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 5 - Non-metric Multidimensional Scaling plot of K2P-distance between MCR sequences of Stenella coeruleoalba (in blue), Delphinus delphis (in red) and Stenella frontalis (in green). Individuals of each species are clearly clustered together, and unidentified samples (in black) stranded along the coasts of Brittany group with one of the three species. Dd280211A (Ds1), Ds130210 (Ds3), Ds230409 (Ds4), Ds250412 (Ds5) and Sc210910 (Ds6) are putatively identified as Delphinus delphis, whereas Ds080410 (Ds2) would more likely belong to Stenella coeruloalba.
Figure 2 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 2 - Organization of the stranding network in Brittany (North West of France) and localization of the stranded specimens used in this study. Numbers indicate the 18 geographic sections of the stranding network in this area. The map was drawn using ArcGIS Desktop: Release 9.3.1 (Environmental Systems Research Institute, Redlands, CA, USA) with WGS 84 coordinates.
Figure 1 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 1 - Numbers of different species of marine mammals stranded along the coasts of Brittany (North West of France) in the period 2003–2012.
Figure 4 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 4 - Examples of marine mammals stranded along the coasts of Brittany and the species-level identifications of which were determined or confirmed thanks to DNA barcoding. A Sample Ms250511, stranded on the "Île de Sein" during May 2011, and identified as a Balaenoptera physalus B Sample Ds160111, stranded on the Ushant Island during January 2011, and identified as a Grampus griseus C Sample Ds130211, stranded on the Ushant Island in February 2011, and identified as belonging to the Delphininae subfamily (putatively identified as a Delphinus delphis on the nMDS plot in Figure 5) D Sample Ds080410 stranded on the Ushant Island during April 2010, and identified as belonging to the Delphininae (putatively identified as a Stenella coeruleoalba on the nMDS plot in Figure 5).
Figure 3 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 3 - Neighbour-Joining tree of major species of marine mammals, based on K2P-distances calculated from 507 bp of COI. All sequences come from the IMMB project on BOLD, and only 5 harbour porpoise and 5 grey seal samples among those of the IMMB project have been included in the analysis.
Figure 6 from: Jung J, Alfonsi E, Méheust E, Fuchs S, Carpentier F, Quillivic Y, Viricel A, Hassani S (2013) The use of DNA barcoding to monitor the marine mammal biodiversity along the French Atlantic coast. ZooKeys 365: 5-24. https://doi.org/10.3897/zookeys.365.5873
Figure 6 - Haplotype network established from the COI sequences of 45 harbour porpoises stranded along the Atlantic coast of France (Appendix 1). Numbers on a line connecting two haplotypes correspond to the sequence position of the mutation differentiating these haplotypes. Two mitochondrial haplogroups appear (black circles - grey circles), that group the same individuals as the haplogroups alpha and beta determined using MCR polymorphisms and described in Alfonsi et al. (2012).
Figure 2 from: Ballardini M, Mercuri A, Littardi C, Abbas S, Couderc M, Ludeña B, Pintaud J (2013) The chloroplast DNA locus psbZ-trnfM as a potential barcode marker in Phoenix L. (Arecaceae). ZooKeys 365: 71-82. https://doi.org/10.3897/zookeys.365.5725
Figure 2 - Structure and variation of the minisatellite in the trnG-trnfM intergenic spacer. The repeats of the two mutational motifs (1 and 2) are indicated above the sequence alignment of the 7 haplotypes recorded. The pattern of inverted repeats generated by the two motifs and their reverse complements (RC) is shown below the alignment. See Table 1 for haplotype distribution among species.
Figure 3 from: Nijman V, Vonk R, Roselaar K, van Brandwijk H, Beentjes K (2013) DNA barcoding of Dutch birds. ZooKeys 365: 25-48. https://doi.org/10.3897/zookeys.365.6287
Figure 3 - Haplotype networks constructed with statistical parsimony based on 694 bp of the mitochondrial cytochrome c oxidase subunit I gene (COI) of the Sylvia group (25 individuals). Each circle represents one haplotype; size of circles is proportional to haplotype frequency.
Supplementary figure 2 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Supplementary figure 2 - Neighbour-Joining tree (Kimura 2-parameter model) of a 408 bp fragment of the mitochondrial 16S rDNA gene for the land slug subgenus Mesarion. Bootstrap values ≥ 70% are shown at the nodes. For sample codes see Table 1.
Supplementary figure 3 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Supplementary figure 3 - Neighbour-Joining tree (Kimura 2-parameter model) of a 587 bp fragment of the nuclear internal transcribed spacer 1 (ITS1) region for the land slug subgenus Mesarion. Bootstrap values ≥ 70% are shown at the nodes. For sample codes see Table 1.
Figure 2 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Figure 2 - Arion gilvus Torres Mínguez, 1925 from Serra de Pandóls (Valencia, Spain). A dorsal view B lateral view C ventral view.
Supplementary figure 1 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Supplementary figure 1 - Neighbour-Joining tree (Kimura 2-parameter model) of a 504 bp fragment of the mitochondrial cytochrome c oxidase subunit I (COI) gene for the land slug subgenus Mesarion. Bootstrap values ≥ 70% are shown at the nodes. For sample codes see Table 1.
Figure 1 from: Ballardini M, Mercuri A, Littardi C, Abbas S, Couderc M, Ludeña B, Pintaud J (2013) The chloroplast DNA locus psbZ-trnfM as a potential barcode marker in Phoenix L. (Arecaceae). ZooKeys 365: 71-82. https://doi.org/10.3897/zookeys.365.5725
Figure 1 - The sequenced cpDNA psbZ-trnfM region.The location of PCR primers used and polymorphisms found in this study are shown. DNA fragment length refers to the Phoenix dactylifera cv. Khalas cpDNA sequence (Yang et al. 2010), characterised by a 4-repetitions minisatellite haplotype (NCBI Reference Sequence: NC_013991.2).
Supplementary figure 4 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Supplementary figure 4 - Neighbour-Joining tree (Kimura 2-parameter model) of a 378 bp fragment of the nuclear internal transcribed spacer 1 (ITS1) region for the land slug subgenus Mesarion. This figure also includes the Iberian Mesarion ITS1 sequences of Quinteiro et al. (2005) Bootstrap values ≥ 70% are shown at the nodes. For sample codes see Table 1.
Figure 2 from: Nijman V, Vonk R, Roselaar K, van Brandwijk H, Beentjes K (2013) DNA barcoding of Dutch birds. ZooKeys 365: 25-48. https://doi.org/10.3897/zookeys.365.6287
Figure 2 - Phylogenetic relationships of two putative subspecies of Lesser Whitethroat, i.e. the Western Lesser Whitethroat Sylvia curruca curruca and the Northeastern Lesser Whitethroat Sylvia curruca blythi from the Netherlands, based on analysis of 694 bp of the mitochondrial cytochrome c oxidase subunit I gene (COI). Bootstrap values are given for the maximum likelihood (ML) analysis.
Figure 1 from: Nijman V, Vonk R, Roselaar K, van Brandwijk H, Beentjes K (2013) DNA barcoding of Dutch birds. ZooKeys 365: 25-48. https://doi.org/10.3897/zookeys.365.6287
Figure 1 - Comparisons of K2P-pairwise distances based on the COI gene of 141 species of birds from the Netherlands, showing a clear barcoding gap. Interspecific distances are indicated with light grey bars and intraspecific distances with dark grey bars. Left Y-axis: numbers of intraspecific comparisons; Right Y-axis: numbers of interspecific comparisons.
Figure 3 from: Backeljau T, Breugelmans K, Jordaens K, Adriaens E, Remon J, Quintana Cardona J (2013) DNA barcodes and phylogenetic affinities of the terrestrial slugs Arion gilvus and A. ponsi (Gastropoda, Pulmonata, Arionidae). ZooKeys 365: 83-104. https://doi.org/10.3897/zookeys.365.6104
Figure 3 - Neighbour-Joining tree (Kimura 2-parameter model) of a 1499 bp concatenated fragment (504 bp of the mitochondrial cytochrome c oxidase subunit I (COI) gene, 408 bp of the mitochondrial 16S rDNA gene, 587 bp fragment of the nuclear internal transcribed spacer 1 (ITS1) region) for the land slug subgenus Mesarion. Bootstrap values ≥ 70% are shown at the nodes. For sample codes see Table 1.
Figure 1 from: Ardura A, Planes S, Garcia-Vazquez E (2013) Applications of DNA barcoding to fish landings: authentication and diversity assessmente. ZooKeys 365: 49-65. https://doi.org/10.3897/zookeys.365.6409
Figure 1 - Summary of population genetic diversity retrieved fromeach mitochondrial region separately (12S rDNA, COI, cyt b, D-Loop), from the coding and from all regions concatenated (All), in the four case studies. Mean (standard deviation as vertical bars) is provided for Nh/n, Hd and π (mean number of different haplotypes per species, haplotype diversity and nucleotide diversity respectively).
Figure 6 from: Gere J, Kowiyou Y, Daru B, Mankga L, Maurin O, van der Bank M (2013) Incorporating trnH-psbA to the core DNA barcodes improves significantly species discrimination within southern African Combretaceae. ZooKeys 365: 129-147. https://doi.org/10.3897/zookeys.365.5728
Figure 6 - Gene performance based on monophyly criteria. False = proportion of non-monophyletic species; True = proportion of monophyletic species.
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