11 results on '"molecular specimen identification"'
Search Results
2. Surprisingly high genetic divergence of the mitochondrial DNA barcode fragment (COI) within Central European woodlice species (Crustacea, Isopoda, Oniscidea).
- Author
-
Raupach, Michael J., Rulik, Björn, and Spelda, Jörg
- Subjects
- *
WOOD lice (Crustaceans) , *GENETIC barcoding , *DNA data banks , *CRUSTACEA , *MITOCHONDRIAL DNA - Abstract
DNA barcoding has become the most popular approach for species identification in recent years. As part of the German Barcode of Life project, the first DNA barcode library for terrestrial and freshwater isopods from Germany is presented. The analyzed barcode library included 38 terrestrial (78% of the documented species of Germany) and five freshwater (63%) species. A total of 513 new barcodes was generated and 518 DNA barcodes were analyzed. This analysis revealed surprisingly high intraspecific genetic distances for numerous species, with a maximum of 29.4% for Platyarthrus hoffmannseggii Brandt, 1833. The number of BINs per species ranged from one (32 species, 68%) to a maximum of six for Trachelipus rathkii (Brandt, 1833). In spite of such high intraspecific variability, interspecific distances with values between 12.6% and 29.8% allowed a valid species assignment of all analyzed isopods. The observed high intraspecific distances presumably result from phylogeographic events, Wolbachia infections, atypical mitochondrial DNAs, heteroplasmy, or various combinations of these factors. Our study represents the first step in generating an extensive reference library of DNA barcodes for terrestrial and freshwater isopods for future molecular biodiversity assessment studies. [ABSTRACT FROM AUTHOR]
- Published
- 2022
- Full Text
- View/download PDF
3. A DNA barcode library for ground beetles of Germany: the genus Pterostichus Bonelli, 1810 and allied taxa (Insecta, Coleoptera, Carabidae).
- Author
-
Raupach, Michael J., Hannig, Karsten, Morinière, Jérome, and Hendrich, Lars
- Subjects
- *
DNA data banks , *GROUND beetles , *INSECTS , *BEETLES , *DNA , *CYTOCHROME oxidase , *ANTISENSE DNA - Abstract
Species of the ground beetle genus Pterostichus Bonelli, 1810 are some of the most common carabids in Europe. This publication provides a first comprehensive DNA barcode library for this genus and allied taxa including Abax Bonelli, 1810, Molops Bonelli, 1810, Poecilus Bonelli, 1810, and Stomis Clairville, 1806 for Germany and Central Europe in general. DNA barcodes were analyzed from 609 individuals that represent 51 species, including sequences from previous studies as well as more than 198 newly generated sequences. The results showed a 1:1 correspondence between BIN and traditionally recognized species for 44 species (86%), whereas two (4%) species were characterized by two BINs. Three BINs were found for one species (2%), while one BIN for two species was revealed for two species pairs (8%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for four species pairs. Haplotype sharing was found for two closely related species pairs: Pterostichus adstrictus Eschscholtz, 1823/Pterostichus oblongopunctatus (Fabricius, 1787) and Pterostichus nigrita Paykull, 1790/Pterostichus rhaeticus Heer, 1837. In contrast to this, high intraspecific sequence divergences with values above 2.2% were shown for three species (Molops piceus (Panzer, 1793), Pterostichus panzeri (Panzer, 1805), Pterostichus strenuus (Panzer, 1793)). Summarizing the results, the present DNA barcode library does not only allow the identification of most of the analyzed species, but also provides valuable information for alpha-taxonomy as well as for ecological and evolutionary research. This library represents another step in building a comprehensive DNA barcode library of ground beetles as part of modern biodiversity research. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
4. A DNA barcode library for ground beetles of Germany: the genus Amara Bonelli, 1810 (Insecta, Coleoptera, Carabidae).
- Author
-
Raupach, Michael J., Hannig, Karsten, Morinière, Jérôme, and Hendrich, Lars
- Subjects
- *
DNA data banks , *GROUND beetles , *BEETLES , *CYTOCHROME c , *MITOCHONDRIAL DNA - Abstract
The genus Amara Bonelli, 1810 is a very speciose and taxonomically difficult genus of the Carabidae. The identification of many of the species is accomplished with considerable difficulty, in particular for females and immature stages. In this study the effectiveness of DNA barcoding, the most popular method for molecular species identification, was examined to discriminate various species of this genus from Central Europe. DNA barcodes from 690 individuals and 47 species were analysed, including sequences from previous studies and more than 350 newly generated DNA barcodes. Our analysis revealed unique BINs for 38 species (81%). Interspecific K2P distances below 2.2% were found for three species pairs and one species trio, including haplotype sharing between Amara alpinal/Amara torrida and Amara communis/Amara convexior/Amara makolskii. This study represents another step in generating an extensive reference library of DNA barcodes for carabids, highly valuable bioindicators for characterizing disturbances in various habitats. [ABSTRACT FROM AUTHOR]
- Published
- 2018
- Full Text
- View/download PDF
5. A DNA barcode library for ground beetles of Germany: the genus Pterostichus Bonelli, 1810 and allied taxa (Insecta, Coleoptera, Carabidae)
- Author
-
Michael J. Raupach, Lars Hendrich, Karsten Hannig, and Jérôme Morinière
- Subjects
0106 biological sciences ,0301 basic medicine ,Insecta ,Stomis ,German Barcode of Life ,mitochondrial DNA ,Carbotriplurida ,01 natural sciences ,DNA barcoding ,Ground beetle ,Genus ,Pterostichus ,lcsh:Zoology ,Caraboidea ,Bilateria ,Molops ,lcsh:QL1-991 ,Pterygota ,biology ,molecular specimen identification ,Philorhizus brandmayri ,Poecilus ,Cephalornis ,cytochrome c oxidase subunit I ,Circumscriptional names ,Coleoptera ,Abax ,Boltonocostidae ,Carabidae ,Coelenterata ,Arthropoda ,Nephrozoa ,Protostomia ,Zoology ,Circumscriptional names of the taxon under ,010603 evolutionary biology ,03 medical and health sciences ,Animalia ,Abacaelostus ,Ecology, Evolution, Behavior and Systematics ,Pharotarsus ,Central Europe ,Cytochrome c oxidase subunit I ,biology.organism_classification ,Abax Central Europe cytochrome c oxidase subunit I German Barcode of Life mitochondrial DNA molecular specimen identification Molops Poecilus Stomis ,030104 developmental biology ,Notchia ,Protodytiscus ,Ecdysozoa ,Animal Science and Zoology ,Microcheilini - Abstract
Species of the ground beetle genusPterostichusBonelli, 1810 are some of the most common carabids in Europe. This publication provides a first comprehensive DNA barcode library for this genus and allied taxa includingAbaxBonelli, 1810,MolopsBonelli, 1810,PoecilusBonelli, 1810, andStomisClairville, 1806 for Germany and Central Europe in general. DNA barcodes were analyzed from 609 individuals that represent 51 species, including sequences from previous studies as well as more than 198 newly generated sequences. The results showed a 1:1 correspondence between BIN and traditionally recognized species for 44 species (86%), whereas two (4%) species were characterized by two BINs. Three BINs were found for one species (2%), while one BIN for two species was revealed for two species pairs (8%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for four species pairs. Haplotype sharing was found for two closely related species pairs:Pterostichus adstrictusEschscholtz, 1823/Pterostichus oblongopunctatus(Fabricius, 1787) andPterostichus nigritaPaykull, 1790/Pterostichus rhaeticusHeer, 1837. In contrast to this, high intraspecific sequence divergences with values above 2.2% were shown for three species (Molops piceus(Panzer, 1793),Pterostichus panzeri(Panzer, 1805),Pterostichus strenuus(Panzer, 1793)). Summarizing the results, the present DNA barcode library does not only allow the identification of most of the analyzed species, but also provides valuable information for alpha-taxonomy as well as for ecological and evolutionary research. This library represents another step in building a comprehensive DNA barcode library of ground beetles as part of modern biodiversity research.
- Published
- 2020
6. Surprisingly high genetic divergence of the mitochondrial DNA barcode fragment (COI) within Central European woodlice species (Crustacea, Isopoda, Oniscidea)
- Author
-
Michael J. Raupach, Björn Rulik, and Jörg Spelda
- Subjects
Arthropoda ,Oniscidea ,mitochondrial DNA ,cytochrome c oxidase subunit I (COI) ,Oniscidae ,Crustacea ,Molecular Systematics ,Systematics ,Germany ,Platyarthrushoffmannseggii ,Asellidae ,Animalia ,Malacostraca ,freshwater ,Ecology, Evolution, Behavior and Systematics ,Taxonomy ,Central Europe ,German Barcode of Life (GBoL) ,molecular specimen identification ,Platyarthrus hoffmannseggii ,Biota ,QL1-991 ,Animal Science and Zoology ,Asellota ,Zoology ,Research Article ,Isopoda - Abstract
DNA barcoding has become the most popular approach for species identification in recent years. As part of the German Barcode of Life project, the first DNA barcode library for terrestrial and freshwater isopods from Germany is presented. The analyzed barcode library included 38 terrestrial (78% of the documented species of Germany) and five freshwater (63%) species. A total of 513 new barcodes was generated and 518 DNA barcodes were analyzed. This analysis revealed surprisingly high intraspecific genetic distances for numerous species, with a maximum of 29.4% for Platyarthrus hoffmannseggii Brandt, 1833. The number of BINs per species ranged from one (32 species, 68%) to a maximum of six for Trachelipus rathkii (Brandt, 1833). In spite of such high intraspecific variability, interspecific distances with values between 12.6% and 29.8% allowed a valid species assignment of all analyzed isopods. The observed high intraspecific distances presumably result from phylogeographic events, Wolbachia infections, atypical mitochondrial DNAs, heteroplasmy, or various combinations of these factors. Our study represents the first step in generating an extensive reference library of DNA barcodes for terrestrial and freshwater isopods for future molecular biodiversity assessment studies.
- Published
- 2022
7. A DNA barcode library for ground beetles (Insecta, Coleoptera, Carabidae) of Germany: The genus Bembidion Latreille, 1802 and allied taxa.
- Author
-
Raupach, Michael J., Hannig, Karsten, Morinière, Jérome, and Hendrich, Lars
- Subjects
- *
GROUND beetles , *DNA data banks , *CLASSIFICATION of insects , *INSECT identification , *MOLECULAR entomology - Abstract
As molecular identification method, DNA barcoding based on partial cytochrome c oxidase subunit 1 (COI) sequences has been proven to be a useful tool for species determination in many insect taxa including ground beetles. In this study we tested the effectiveness of DNA barcodes to discriminate species of the ground beetle genus Bembidion and some closely related taxa of Germany. DNA barcodes were obtained from 819 individuals and 78 species, including sequences from previous studies as well as more than 300 new generated DNA barcodes. We found a 1:1 correspondence between BIN and traditionally recognized species for 69 species (89%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for three species pairs, including two species pairs with haplotype sharing (Bembidion atrocaeruleum/Bembidion varicolor and Bembidion guttula/Bembidion mannerheimii). In contrast to this, deep intraspecific sequence divergences with distinct lineages were revealed for two species (Bembidion geniculatum/Ocys harpaloides). Our study emphasizes the use of DNA barcodes for the identification of the analyzed ground beetles species and represents an important step in building-up a comprehensive barcode library for the Carabidae in Germany and Central Europe as well. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
8. A DNA barcode library for ground beetles of Germany: the genus Agonum Bonelli, 1810 (Insecta, Coleoptera, Carabidae)
- Author
-
Michael J. Raupach, Lars Hendrich, Jérôme Morinière, and Karsten Hannig
- Subjects
0106 biological sciences ,0301 basic medicine ,Insecta ,Arthropoda ,German Barcode of Life ,Biodiversity ,mitochondrial DNA ,Tribe (biology) ,Barcode ,010603 evolutionary biology ,01 natural sciences ,DNA barcoding ,Intraspecific competition ,law.invention ,03 medical and health sciences ,Ground beetle ,sibling species ,Genus ,law ,Agonum ,Caraboidea ,Animalia ,lcsh:QH301-705.5 ,biology ,Central Europe ,molecular specimen identification ,biology.organism_classification ,cytochrome c oxidase subunit I ,Coleoptera ,030104 developmental biology ,Geography ,lcsh:Biology (General) ,Evolutionary biology ,Insect Science ,Carabidae ,BOLD Central Europe cytochrome c oxidase subunit I German Barcode of Life mitochondrial DNA molecular specimen identification sibling species ,BOLD - Abstract
The ground beetle genusAgonumBonelli, 1810 is a large genus of the tribe Platynini with many species that show high amounts of intraspecific variations, making a correct identification challenging. As part of the German Barcode of Life initiative, this publication provides a comprehensive DNA barcode library for species ofAgonumthat are reported for Germany. In total, DNA barcodes from 258 beetles and 23 species were analysed using the Barcode of Life Data System (BOLD) workbench, including sequences from former studies and 68 newly-generated sequences. The neighbour-joining analyses, based on K2P distances, revealed distinct clustering for all studied species, with unique Barcode Index Numbers (BINs) for 15 species (65%). BIN sharing but distinct clustering was found for three species pairs:Agonum micans/Agonum scitulum,Agonum impressum/Agonum sexpunctatumandAgonum duftschmidi/Agonum emarginatum. The given dataset and its analysis represent another important step in generating a comprehensive DNA barcode library for the ground beetles of Germany and Central Europe in terms of modern biodiversity research.
- Published
- 2020
9. Surprisingly high genetic divergence of the mitochondrial DNA barcode fragment (COI) within Central European woodlice species (Crustacea, Isopoda, Oniscidea).
- Author
-
Raupach MJ, Rulik B, and Spelda J
- Abstract
DNA barcoding has become the most popular approach for species identification in recent years. As part of the German Barcode of Life project, the first DNA barcode library for terrestrial and freshwater isopods from Germany is presented. The analyzed barcode library included 38 terrestrial (78% of the documented species of Germany) and five freshwater (63%) species. A total of 513 new barcodes was generated and 518 DNA barcodes were analyzed. This analysis revealed surprisingly high intraspecific genetic distances for numerous species, with a maximum of 29.4% for Platyarthrushoffmannseggii Brandt, 1833. The number of BINs per species ranged from one (32 species, 68%) to a maximum of six for Trachelipusrathkii (Brandt, 1833). In spite of such high intraspecific variability, interspecific distances with values between 12.6% and 29.8% allowed a valid species assignment of all analyzed isopods. The observed high intraspecific distances presumably result from phylogeographic events, Wolbachia infections, atypical mitochondrial DNAs, heteroplasmy, or various combinations of these factors. Our study represents the first step in generating an extensive reference library of DNA barcodes for terrestrial and freshwater isopods for future molecular biodiversity assessment studies., (Michael J. Raupach, Björn Rulik, Jörg Spelda.)
- Published
- 2022
- Full Text
- View/download PDF
10. A DNA barcode library for ground beetles (Insecta, Coleoptera, Carabidae) of Germany: The genus Bembidion Latreille, 1802 and allied taxa
- Author
-
Karsten Hannig, Michael J. Raupach, Lars Hendrich, and Jérôme Morinière
- Subjects
0106 biological sciences ,0301 basic medicine ,Insecta ,German Barcode of Life ,mitochondrial DNA ,Carbotriplurida ,Bembidion ,01 natural sciences ,DNA barcoding ,Ground beetle ,CarabidaeAnimalia ,BembidionCephalornis ,Genus ,Caraboidea ,Bilateria ,Pterygota ,biology ,Horologionina ,molecular specimen identification ,cytochrome c oxidase subunit I ,Circumscriptional names ,Liocosmius ,Coleoptera ,Boltonocostidae ,Sinechostictus ,Carabidae ,Research Article ,InsectaAnimalia ,Coelenterata ,Ocys harpaloides ,Mitochondrial DNA ,Arthropoda ,Nephrozoa ,Protostomia ,Circumscriptional names of the taxon under ,010603 evolutionary biology ,03 medical and health sciences ,Botany ,Animalia ,Abacaelostus ,Ecology, Evolution, Behavior and Systematics ,Ocys ,Pharotarsus ,Central Europe ,Cytochrome c oxidase subunit I ,biology.organism_classification ,030104 developmental biology ,Notchia ,Evolutionary biology ,Asaphidion ,Protodytiscus ,Ecdysozoa ,Plocamotrechini ,Animal Science and Zoology ,ColeopteraAnimalia - Abstract
As molecular identification method, DNA barcoding based on partial cytochrome c oxidase subunit 1 (COI) sequences has been proven to be a useful tool for species determination in many insect taxa including ground beetles. In this study we tested the effectiveness of DNA barcodes to discriminate species of the ground beetle genus Bembidion and some closely related taxa of Germany. DNA barcodes were obtained from 819 individuals and 78 species, including sequences from previous studies as well as more than 300 new generated DNA barcodes. We found a 1:1 correspondence between BIN and traditionally recognized species for 69 species (89%). Low interspecific distances with maximum pairwise K2P values below 2.2% were found for three species pairs, including two species pairs with haplotype sharing (Bembidion atrocaeruleum/Bembidion varicolor and Bembidion guttula/Bembidion mannerheimii). In contrast to this, deep intraspecific sequence divergences with distinct lineages were revealed for two species (Bembidion geniculatum/Ocys harpaloides). Our study emphasizes the use of DNA barcodes for the identification of the analyzed ground beetles species and represents an important step in building-up a comprehensive barcode library for the Carabidae in Germany and Central Europe as well.
- Published
- 2016
11. A DNA barcode library for ground beetles of Germany: the genus Amara Bonelli, 1810 (Insecta, Coleoptera, Carabidae)
- Author
-
Lars Hendrich, Jérôme Morinière, Karsten Hannig, and Michael J. Raupach
- Subjects
0106 biological sciences ,0301 basic medicine ,Mitochondrial DNA ,Insecta ,Arthropoda ,German Barcode of Life ,Zoology ,Amara convexior ,mitochondrial DNA ,010603 evolutionary biology ,01 natural sciences ,DNA barcoding ,Zabrus ,03 medical and health sciences ,Amara alpina ,Genus ,lcsh:Zoology ,Caraboidea ,Animalia ,lcsh:QL1-991 ,Ecology, Evolution, Behavior and Systematics ,Amara communis ,biology ,Central Europe ,molecular specimen identification ,Cytochrome c oxidase subunit I ,biology.organism_classification ,cytochrome c oxidase subunit I ,Amara ,Coleoptera ,030104 developmental biology ,Animal Science and Zoology ,Carabidae - Abstract
The genus Amara Bonelli, 1810 is a very speciose and taxonomically difficult genus of the Carabidae. The identification of many of the species is accomplished with considerable difficulty, in particular for females and immature stages. In this study the effectiveness of DNA barcoding, the most popular method for molecular species identification, was examined to discriminate various species of this genus from Central Europe. DNA barcodes from 690 individuals and 47 species were analysed, including sequences from previous studies and more than 350 newly generated DNA barcodes. Our analysis revealed unique BINs for 38 species (81%). Interspecific K2P distances below 2.2% were found for three species pairs and one species trio, including haplotype sharing between Amaraalpina/Amaratorrida and Amaracommunis/Amaraconvexior/Amaramakolskii. This study represents another step in generating an extensive reference library of DNA barcodes for carabids, highly valuable bioindicators for characterizing disturbances in various habitats.
- Published
- 2018
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