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4,144 results for “ITS barcode”
Figure 6 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 6 - Neighbor-joining phylogenetic tree drawn using from COI sequence data. Bootstrap support (>50%) after 1,000 replications is shown at each node. Italic accession numbers with dagger (AY012732, AY012733, AY012742–AY012747) are from Lessios et al. (2001) and red accession numbers with asterisk (AB900024, AB909927, AB909929–AB909931, AB909933–AB909935, AB909942, AB909945, AB909947, AB909949, AB909953, AB909955, AB909957) are from Chow et al. (2014).
Figure 2 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 2 - Underwater aboral view of phenotype I of Diadema-sp, KPM-NJL000035, original specimen number is AT1.
Figure 5 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 5 - Aboral view (A) and enlarged view of a naked space of the interambulacral area (B) in a reference dried specimen of Diadema found in Ikeda's collection. KMNH IvR 500788, original specimen No. is IK3. White streak-like remnant can be seen (A, B), and the outer and inner series of primary tubercles initiated on the 3rd and 5th coronal plates, respectively (B). Scales bars = 20 mm (A) and 10 mm (B).
Figure 3 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 3 - Underwater aboral views of four phenotypes (A–E) and color variants of phenotype I (F) of Diadema-sp, Diadema setosum (G), and Diadema savignyi (H). A KPM-NJL000036, original specimen number is AT2 designated as phenotype II B KPM-NJL000037, original specimen number is AT3 designated as phenotype III C KPM-NJL000039, original specimen number is AR59 designated as phenotype IV D KPM-NJL000038, original specimen No. is AR54 designated as phenotype V E KPM-NJL000040, original specimen No. is AR70 designated as phenotype V F color variant of phenotype I observed at Haida-ura in Mie Prefecture (Figure 1E) photographed by T. Ishikawa G Diadema setosum (DST2 in Chow et al. (2014)) H Diadema savignyi (DSV23 in Chow et al. (2014)).
Figure 1 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 1 - Localities where field observation and sampling of Diadema were performed. See Table 1 for detailed information. A Arasaki (Kanagawa Prefecture) B Tateyama (Chiba) C Mera (Shizuoka) D Shikine-jima (Tokyo) E Haida-ura (Mie) F Kushimoto (Wakayama) G Hachijo-jima (Tokyo) H Uchidomari (Ehime) I Iki-no-shima (Nagasaki) J Ojika (Nagasaki) K Mie (Nagasaki) L Shibushi (Kagoshima) M Kaimon (Kagoshima) N Tanega-shima (Kagoshima) O Yaku-shima (Kagoshima) P Amami Ohshima (Kagoshima) Q Ogasawara (Tokyo) R Motobu (Okinawa) S Sesoko (Okinawa) T Ishigaki-jima (Okinawa). Diadema setosum was observed in all areas surveyed. No Diadema savignyi but Diadema-sp were observed at localities with yellow circle, Both Diadema savignyi and Diadema-sp were observed at localities with white circle, No Diadema-sp but Diadema savignyi were observed at localities with red circle.
Figure 4 from: Chow S, Konishi K, Mekuchi M, Tamaki Y, Nohara K, Takagi M, Niwa K, Teramoto W, Manabe H, Kurogi H, Suzuki S, Ando D, Jinbo T, Kiyomoto M, Hirose M, Shimomura M, Kurashima A, Ishikawa T, Kiyomoto S (2016) DNA barcoding and morphological analyses revealed validity of Diadema clarki Ikeda, 1939 (Echinodermata, Echinoidea, Diadematidae). ZooKeys 585: 1-16. https://doi.org/10.3897/zookeys.585.8161
Figure 4 - Preserved specimen of phenotypes I (A), II (B), III (C) and V (D) of Diadema-sp, corresponding to AT1 (KPM-NJL000035) in Figure 2, and AT2, AT3 and AR54 (KPM-NJL000036‒KPM-NJL000038) in Figures 3A, B and D, respectively. All scale bars = 10 mm.
Supplementary material 1 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Table S1: List of primers used in this study :
Figure 7 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 7 Neoprotoparmeliacapensis, holotype Crespo, Divakar, Hawksworth, Amo & Lumbsch 63f (MAF-Lich. 19584). a Habit b Section through centre of apothecium, showing cupular proper exciple (arrow) c Ascus d Spores, showing setae (arrow). Scale bars: 2 mm (a), 100 µm (b), 10 µm (c), 5 µm (d).
Figure 8 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 8 Neoprotoparmeliacorallifera (type species Neoprotoparmelia), sample Papong 7100. Scale bar: 1 mm.
Figure 12 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 12 Neoprotoparmeliaplurisporibadia, holotype Cáceres & Aproot 22130 (ABL). a Habitus b ascus with ascospores. Scale bars: 1 mm (a), 10 micron (b).
Figure 6 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 6 Neoprotoparmeliabrasilisidiata, holotype Cáceres & Aproot 21684 (ISE). Scale bar: 1 mm.
Figure 3 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 3 Maroninaaustraliensis (type species of Maronina), holotype Hafellner 17823 & Rogers (GZU). Scale bar: 1 mm.
Figure 11 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 11 Neoprotoparmeliapauli, holotype Kirika & Lumbsch 3821 (EA) a Habit b Centre of apothecia section, showing cupular proper exciple (arrow). Scale bars: 1 mm (a), 20 µm (b).
Figure 1 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 1 Phylogeny of Protoparmelioideae based on maximum likelihood analysis of ITS rDNA sequences of Protoparmelia and Neoprotoparmelia (Maronina s.l.). Numbers above branches indicate bootstrap support. Terminal clades were collapsed at the species level for clarity of presentation. The length of the triangle corresponds to branch lengths. Numbers in parentheses indicate number of specimens included in collapsed clade. Voucher information of each specimen in a clade is given in Table 1; New Neoprotoparmelia species are marked in red and bold.
Figure 2 from: Singh G, Aptroot A, Rico VJ, Otte J, Divakar PK, Crespo A, Cáceres ME da S, Lumbsch HT, Schmitt I (2018) Neoprotoparmelia gen. nov. and Maronina (Lecanorales, Protoparmelioideae): species description and generic delimitation using DNA barcodes and phenotypical characters. MycoKeys 44: 19-50. https://doi.org/10.3897/mycokeys.44.29904
Figure 2 Boxplot showing the intra- and interspecific genetic distances of Neoprotoparmelia species and the overall intraspecific distances from all species and pairwise interspecific distances. New species described in this study are marked in red.
COI-barcoding evidences mislabelling and the use of endangered species in German shark products
<p><span>Recent estimations </span><span>categorize about 37% of all cartilaginous fish species (sharks, rays and chimaeras) as endangered. Especially sharks show severe population declines and many species are protected by CITES and other international conventions. Shark meat and other body parts are sold as various products internationally, often via complex trade routes. As most shark products (like cartilage pills, liver oil or smoked meat) are heavily processed, correct species identification can only be achieved via DNA-based methods. It has been shown that a large proportion of shark products ends up mislabelled to the consumer in Europe. Moreover, fraudulent and economically motivated substitution with cheaper meat is a strong driver for illegal and non-transparent shark trade. Interestingly, the German market is one of the most significant key drivers of the legal trade with <em>Squalus</em> <em>acanthias</em>, the spiny dogfish, which is appreciated in gastronomy as 'Schillerlocken' although the species is listed as vulnerable by the IUCN. Additionally, cartilage pills are a popular 'health' product in 'alternative medicine'. We wanted to find out whether mislabelled and substituted shark products exist in the German market. Hence seven 'Schillerlocken' and 17 products of 'shark cartilage pills' were analysed by DNA-Barcoding. We used various primer cocktails to amplify and sequence between 127 bp ('minibarcodes') and 650 bp of the mitochondrial Cytochrome C Oxidase subunit I. We identified 45.8% <em>Squalus</em> <em>acanthias</em> (including all 'Schillerlocken') and 8.3% critically endangered shark species (<em>Galeorhinus</em> <em>galeus</em>), as well as 4.2% <em>Prionace</em> <em>glauca</em>. In addition, we report 70.6% of the cartilage pills as mislabelled or substituted. The analysis revealed the use of an undeclared teleost species (<em>Merluccius</em> <em>merluccius</em>, European hake), as well as <em>Gallus</em> <em>gallus</em> (chicken) and <em>Solanum</em> sp. (potato). Our results support earlier demands for better transparency and stronger regulation of the shark product market and hold implications for conservation as well as for consumers' health.</span></p>
Fig. 1 in Conspecificity of Phintella aequipeiformis Zabka, 1985 and P. lucai Zabka, 1985 (Araneae: Salticidae) confirmed by DNA barcoding
Fig. 1. Map of northern and central Vietnam showing four collection sites and the type localities of Phintella aequipeiformis and P. lucai.
FIGURE 4 in First record of Archanara neurica (Hübner, 1808) from the Iberian Peninsula (Lepidoptera: Noctuidae) according to DNA barcoding and internal male genitalia
FIGURE 4. Habitat in the saltmarshes of Adventus near Trebujena, Cádiz, Spain (Manuel Pozas phot.).
Supplementary material 1 from: Praz CJ, Bénon D (2023) Revision of the leachella group of Megachile subgenus Eutricharaea in the Western Palaearctic (Hymenoptera, Apoidea, Megachilidae): A renewed plea for DNA barcoding type material. Journal of Hymenoptera Research 95: 143-198. https://doi.org/10.3897/jhr.95.96796
List of examined specimens, with BOLD and genbank accession numbers
Barcode whitelist
<p>For converting the stLFR data zhishito other cobarcoding sequencing data.</p>
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