Towards a DNA Barcode Reference Database for Spiders and Harvestmen of Germany

Astrin, Jonas J.; Höfer, Hubert; Spelda, Jörg; Holstein, Joachim; Bayer, Steffen; Hendrich, Lars; Huber, Bernhard A.; Kielhorn, Karl-Hinrich; Krammer, Hans-Joachim; Lemke, Martin; Monje, Juan; Morinière, Jérôme; Rulik, Björn; Petersen, Malte; Janssen, Hannah; Muster, Christoph

doi:10.1371/journal.pone.0162624

Cited by 97 publications

(88 citation statements)

References 87 publications

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“…The spider samples were collected from different locations including human houses.The spider species used in the current study was identified as Hasarius adansoni by amplification of 889 bp of ribosaml RNA ( rRNA ) gene large subunit and 705bp in length of the 5’-end of mitochondrial cytochrome c oxidase subunit 1( COI ) gene. The fragments of rRNA and COI were amplified using specific primer sets Sp28SN/Sp28SC (Starrett and Hedin, 2007), and SP-LCO 1490FJJ/SP-HCO2198RJJ (Astrin et al, 2016), respectively. The spider species was confirmed with complete homology of the two fragments with H .…”

Section: Methodsmentioning

confidence: 99%

Isolation of the Astacin-like metalloprotease coding gene (astl) and assessment of its insecticidal activity againstSpodoptera littoralisandSitophilus oryzae

Diab

Hussein

Ahmed

et al. 2019

Preprint

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14Astacin-like metalloprotease (astl) is a multi-domain metallopeptidase that has 15 protease activity against a number of organisms; including fish, frogs, birds and 16 insects. In this present investigation, the full length of astl cDNA was cloned 17 from spider species, Hasarius adansoni. Sequencing of the cloned astl cDNA 18 proved that its full length including 802 bp with 714bp open reading frame 19 encoding for 238 amino acids. The catalytic domain comprised of 489 nts was20 cloned and expressed by the yeast expression system Pichia pastoris and its 21 insecticidal activity was determined against two species of agricultural insects 22 Spodoptera littoralis (Lepidoptera:Noctuidae) and Sitophilus oryzae 23 (Coleoptera:Curculionidae). Bioassay was performed using three 2 24 concentrations (100,500 and 1000 ppm) for four days for S. littoralis and 14 25 days for S. oryzae. In addition, the astl was fused to the GNA snowdrop lectin 26 in the same frame and expressed in P. pastoris. The synergistic effect of astl 27 and GNA was examined on the S. littoralis larvae and S. oryzae adults. The 28 mortality percentages of the fused protein (Ha-astl/GNA) "1000 ppm " after 4 29 days, were 78.6%± 4.16 and 71.66% ±3.51 for first and second spodpotera 30 larval instars, respectively. While, lower mortality of the fused protein of the 31 same concentration was observed on S. oryzae adults, 49.3±2.08 %. 32 4 69pointed out that the neurotoxin protein from the Australian funnel web spider 70 Hadronyche versuta, Ѡ-hexatoxin-Hv1a was lethal to many insect species 71 when injected, while it is non-toxic through feeding. However, the Ѡ-72 hexatoxin-Hv1a/GNA fusion protein showed oral insecticidal activity against 73 insects from different orders. 74The agricultural and horticultural pest insects cause 40% loss of the crop yield 75 worldwide (Oerke et al., 1994) that is estimated by 17.7 billions dollars 76 annually (Oliveira et al., 2014). Spodoptera littoralisis one of the most 77 destructive agricultural lepidopteron insect pests that can damage many 78 economical crops such as cotton, maize, tomato and vegetables (Salama et al., 79 1970). The larvae of S. littoralis feed on the leaves, fruits, flowers, buds and 80 bolls of cotton making them useless (Bishari, 1934). Sitophilus oryzae is one of 81 the important insect pests of stored grains such as rice, wheat and their products 82 (Baloch, 1992). S. oryzae causes loss of weight, reduction in the nutritional 83 value and increasing the infection with other mites and fungi, therefore the 84 commercial value of the stored grains decreased (Madrid et al., 1990). These 85 agriculture pests are controlled by different methods such as chemical 86 insecticides which are extensively used in Egypt (Issa et al., 1984a; Issa et al., 87 1984b; and Abo-El-Ghar et al. , 1986). Therefore, resistant strains of insect 88 pests appeared in the field (Sawicki, 1986). An alternative control method that 89 used in control strategy is biological agents such as natural enemies, nuclear 90 polyhedrosi...

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Section: Methodsmentioning

confidence: 99%

Isolation of the Astacin-like metalloprotease coding gene (astl) and assessment of its insecticidal activity againstSpodoptera littoralisandSitophilus oryzae

Diab

Hussein

Ahmed

et al. 2019

Preprint

View full text Add to dashboard Cite

show abstract

“…(). DNA extraction, polymerase chain reaction and sequencing followed standard protocols (Astrin et al., ) and are described together with the newly developed specific primers in detail in Data . All data are deposited in BOLD (https://doi.org/10.5883/gcolzfmk) and GenBank (accession numbers –) respectively.…”

Section: Methodsmentioning

confidence: 99%

Using taxonomic consistency with semi‐automated data pre‐processing for high quality DNA barcodes

et al. 2017

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Abstract1. In recent years, large-scale DNA barcoding campaigns have generated an enormous amount of COI barcodes, which are usually stored in NCBI's GenBank and the official Barcode of Life database (BOLD). BOLD data are generally associated with more detailed and better curated meta-data, because a great proportion is based on expert-verified and vouchered material, accessible in public collections. In the course of the initiative German Barcode of Life data were generated for the reference library of 2,846 species of Coleoptera from 13,516 individuals.2. Confronted with the high effort associated with the identification, verification and data validation, a bioinformatic pipeline, "TaxCI" was developed that (1) identifies taxonomic inconsistencies in a given tree topology (optionally including a reference dataset), (2) discriminates between different cases of incongruence in order to identify contamination or misidentified specimens, (3) graphically marks those cases in the tree, which finally can be checked again and, if needed, corrected or removed from the dataset. For this, "TaxCI" may use DNA-based species delimitations from other approaches (e.g. mPTP) or may perform implemented threshold-based clustering.3. The data-processing pipeline was tested on a newly generated set of barcodes, using the available BOLD records as a reference. A data revision based on the first run of the TaxCI tool resulted in the second TaxCI analysis in a taxonomic match ratio very similar to the one recorded from the reference set (92% vs. 94%). The revised dataset improved by nearly 20% through this procedure compared to the original, uncorrected one.4. Overall, the new processing pipeline for DNA barcode data allows for the rapid and easy identification of inconsistencies in large datasets, which can be dealt withThis is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

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“…Sequence alignment was performed in MEGA X v. 10.0.5 (Kumar, Stecher, Li, Knyaz, & Tamura, 2018) using MUSCLE (Edgar, 2004) with the default settings. The resulting alignment (Appendix S3) was trimmed to length of 653 bp corresponding to Astrin et al (2016). The shortest included sequence was composed of 540 bp.…”

Section: Molecular Datamentioning

confidence: 99%

“…Interestingly, however, data from the German Barcode of Life campaign (GBOL, https://www.bolgermany.de/) revealed that COI sequences of M. pulicaria fall into two distinct clusters with a p‐distance of ca. 6% (Astrin et al, ), further suggesting that the species deserves a thorough taxonomic reconsideration.…”

Section: Introductionmentioning

confidence: 99%

Cryptic diversity in ant‐mimic Micaria spiders (Araneae, Gnaphosidae) and a tribute to early naturalists

Muster

Michalik

2020

Zoologica Scripta

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Spiders of the genus Micaria are ground‐living mimics of ants. Species delineation in these spiders is challenging, mainly because of exceptional high levels of intraspecific variation masking species boundaries. As implied by preliminary DNA barcode data from Central Europe, the Holarctic and very widely distributed glossy ant‐spider M. pulicaria shows cryptic diversity. Here, we disentangle the hidden diversity by means of an integrative taxonomy approach, using mitochondrial DNA, morphometrics, traditional genitalic characters and ecology. Our data suggest the clear delineation of two distinct species, which supports the conception of 19th century taxonomists. These early naturalists distinguished M. pulicaria and a second closely related species based on morphology and natural history, which were synonymized in subsequent taxonomic studies. Therefore, we re‐circumscribe M. pulicaria and revalidate the long forgotten M. micans. These two Micaria species co‐occur sympatrically in vast areas of the western Palearctic, while the Nearctic region is populated by M. pulicaria alone. Male genitalic traits are more dissimilar in the area of sympatry than in allopatry, suggesting a decisive role of reproductive character displacement in species diversification. Our study emphasizes the value of the early taxonomic literature in integrative taxonomic studies, as it may contain crucial information on natural history that are not regularly recorded by modern taxonomists.

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Towards a DNA Barcode Reference Database for Spiders and Harvestmen of Germany

Cited by 97 publications

References 87 publications

Isolation of the Astacin-like metalloprotease coding gene (astl) and assessment of its insecticidal activity againstSpodoptera littoralisandSitophilus oryzae

Isolation of the Astacin-like metalloprotease coding gene (astl) and assessment of its insecticidal activity againstSpodoptera littoralisandSitophilus oryzae

Using taxonomic consistency with semi‐automated data pre‐processing for high quality DNA barcodes

Cryptic diversity in ant‐mimic Micaria spiders (Araneae, Gnaphosidae) and a tribute to early naturalists

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