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1. DMSO and betaine significantly enhance the PCR amplification of ITS2 DNA barcodes from plants

Author:
Varadharajan, Bhooma; Parani, Madasamy
Source:
Genome 2021 v.64 no.3 pp. 165-171
ISSN:
1480-3321
Subject:
DNA barcoding,   etc   ; ; betaine; genome;     Show all 4 Subjects
Abstract:
... ITS2 marker is highly efficient in species discrimination but its application in DNA barcoding is limited due to huge variations in the PCR success rate. We have hypothesized that higher GC content and the resultant secondary structures formed during annealing might hinder the PCR amplification of ITS2. To test this hypothesis, we selected 12 species from 12 different families in which ITS2 was no ...
DOI:
10.1139/gen-2019-0221

2. Plant DNA barcoding necessitates marker-specific efforts to establish more comprehensive reference databases

Author:
Kolter, Andreas; Gemeinholzer, Birgit
Source:
Genome 2021 v.64 no.3 pp. 265-298
ISSN:
1480-3321
Subject:
DNA barcoding,   etc   ; ; databases; genome;     Show all 4 Subjects
Abstract:
... The problem of low species-level identification rates in plants by DNA barcoding is exacerbated by the fact that reference databases are far from being comprehensive. We investigate the impact of increased sampling depth on identification success by analyzing the efficacy of established plant barcode marker sequences (rbcL, matK, trnL-trnF, psbA-trnH, ITS). Adding sequences of the same species to ...
DOI:
10.1139/gen-2019-0198

3. Revision of the Conwentzia Enderlein, 1905 (Neuroptera, Coniopterygidae) of China, combining morphological and molecular characters

Author:
Zhao, Yaru; Li, Ying; Liu, Zhiqi
Source:
ZooKeys 2021 v.1026 pp. 1-15
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; Coniopterygidae; adults; China;     Show all 5 Subjects
Abstract:
... The Chinese species of Conwentzia Enderlein are revised by integrating morphological characters and molecular data. Conwentzia yunguiana Liu & Yang, 1993 is proposed as a junior synonym of Conwentzia nietoi Monserrat, 1982, syn. nov. and Conwentzia orthotibia Yang, 1974 is proposed as a junior synonym of Conwentzia pineticola Enderlein, 1905, syn. nov. Moreover, a key to the adult males of the Con ...
DOI:
10.3897/zookeys.1026.61700

4. Assessing the impact of taxon resolution on network structure

Author:
Hemprich‐Bennett, David R.; Oliveira, Hernani F. M.; Le Comber, Steven C.; Rossiter, Stephen J.; Clare, Elizabeth L.
Source:
Ecology 2021 v.102 no.3 pp. e03256
ISSN:
0012-9658
Subject:
DNA barcoding,   etc   ; morphospecies; sequence homology;     Show all 3 Subjects
Abstract:
... Constructing ecological networks has become an indispensable approach in understanding how different taxa interact. However, the methods used to generate data in network research vary widely among studies, potentially limiting our ability to compare results meaningfully. In particular, methods of classifying nodes vary in their precision, likely altering the architecture of the network studied. Fo ...
DOI:
10.1002/ecy.3256

5. New or little-known Boreoheptagyia (Diptera, Chironomidae) in China inferred from morphology and DNA barcodes

Author:
Lin, Xiao-Long; Yu, Hai-Jun; Wang, Xin-Hua; Bu, Wen-Jun; Yan, Chun-Cai; Liu, Wen-Bin
Source:
ZooKeys 2021 v.1040 pp. 187-200
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; Boreoheptagyia; Sasa; females; males; China;     Show all 7 Subjects
Abstract:
... The male adult of Boreoheptagyia zhengi Lin & Liu, sp. nov. is described and illustrated based on material collected in China. Associated morphological characteristics and reference to its DNA barcode are provided. Boreoheptagyia kurobebrevis (Sasa & Okazawa, 1992) is newly recorded from China based on both a male and female, with additional associated data on the DNA barcode of the male adult. A ...
DOI:
10.3897/zookeys.1040.66527

6. Checklist of the Ichneumonidae of Germany (Insecta, Hymenoptera)

Author:
Riedel, Matthias; Humala, Andrei E.; Schwarz, Martin; Schnee, Heinz; Schmidt, Stefan
Source:
Biodiversity data journal 2021 v.9 pp. e64267
ISSN:
1314-2828
Subject:
DNA barcoding,   etc   ; ; Ichneumonidae; biodiversity; fauna; Germany;     Show all 6 Subjects
Abstract:
... A revised checklist of the Ichneumonidae of Germany is provided. The list represents an updated version of an earlier checklist published in 2001. The present list includes several records of species that are new for the German fauna and species that were discovered since the last checklist was published. The present checklist was compiled as part of the DNA barcoding projects at the Zoologische S ...
DOI:
10.3897/BDJ.9.e64267

7. Design of potentially universal SSU primers in myxomycetes using next-generation sequencing

Author:
Wang, Wan; Wang, Wei; Wei, Shuwei; Huang, Wei; Qi, Bao; Wang, Qi; Li, Yu
Source:
Journal of microbiological methods 2021 v.184 pp. 106203
ISSN:
0167-7012
Subject:
DNA barcoding,   etc   ; genetic variation; introns; protists;     Show all 4 Subjects
Abstract:
... Unlike fungi, which have a universally accepted barcode marker, universal primers still lack in myxomycetes. Typically, DNA barcode primers were designed based on comparing existing myxomycetes sequences and targeting the conserved regions. However, the extreme genetic diversity within major myxomycetes groups and the frequent occurrence of group I introns have made the development of universal DN ...
DOI:
10.1016/j.mimet.2021.106203

8. Validation of an Effective Protocol for Culicoides Latreille (Diptera: Ceratopogonidae) Detection Using eDNA Metabarcoding

Author:
Milián-García, Yoamel; Janke, Lauren A. A.; Young, Robert G.; Ambagala, Aruna; Hanner, Robert H.
Source:
Insects 2021 v.12 no.5
ISSN:
2075-4450
Subject:
DNA barcoding,   etc   ; environmental DNA; monitoring; Ontario;     Show all 4 Subjects
Abstract:
... eDNA metabarcoding is an effective molecular-based identification method for the biosurveillance of flighted insects. An eDNA surveillance approach maintains specimens for secondary morphological identification useful for regulatory applications. This study identified Culicoides species using eDNA metabarcoding and compared these results to morphological identifications of trapped specimens. Insec ...
DOI:
10.3390/insects12050401

9. Review of Cotachena Moore, 1885 (Lepidoptera: Crambidae, Spilomelinae) from Korea based on morphology and DNA barcodes

Author:
Sohn, Jae-Cheon; Kim, Sung-Soo; Koo, Jun-Mo; Choi, Sei-Woong
Source:
Journal of Asia-Pacific entomology 2021 v.24 no.1 pp. 383-389
ISSN:
1226-8615
Subject:
DNA barcoding,   etc   ; ; Crambidae; conspecificity; entomology; Korean Peninsula;     Show all 6 Subjects
Abstract:
... The Korean species of Cotachena were reviewed, based on morphological characters and DNA barcodes. Our study recognized three species of Cotachena from Korea: C. alysoni Whalley, C. brunnealis Yamanaka and C. taiwanalis Yamanaka. The latter two were new to Korea. Dubious occurrence of C. pubescens (Warren) in Korea was discussed. The 23 individuals of COI barcodes were analyzed and assigned to the ...
DOI:
10.1016/j.aspen.2021.01.011

10. Review of the North American fauna of Drymeia Meigen (Diptera, Muscidae) and evaluation of DNA barcodes for species-level identification in the genus

Author:
Savage, Jade; Sorokina, Vera S.
Source:
ZooKeys 2021 v.1024 pp. 31-89
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; fauna; interspecific variation; new species;     Show all 5 Subjects
Abstract:
... The North American fauna of Drymeia Meigen was studied. Four new species are described (Drymeia hucketti sp. nov., Drymeia ponti sp. nov., Drymeia vockerothi sp. nov., Drymeia woodorum sp. nov.), and three new synonymies are proposed: Drymeia amnicola (Huckett, 1966) (= Drymeia rivalis (Huckett, 1966), syn. nov.); Drymeia glacialis (Rondani, 1866) (= Drymeia alpicola (Rondani, 1871), syn. nov.); a ...
DOI:
10.3897/zookeys.1024.60393

11. Studies on DNA barcoding of some Indian species of hawk moths (Lepidoptera: Sphingidae)

Author:
Kaur, Navneet; Singh, Devinder
Source:
Journal of entomological research 2021 v.45 no.1 pp. 39-46
ISSN:
0974-4576
Subject:
DNA barcoding,   etc   ; ; Sphingidae; databases; genes; research; India;     Show all 7 Subjects
Abstract:
... A partial segment of 583 bp (approx) of COI gene for eight species of family Sphingidae was analysed in the present study. It constituted surveying various districts of Himachal Pradesh, Punjab and Uttarakhand located at varied altitudes. The sequences have been added to the database at Gen Bank NCBI. The analysis revealed mean K2P divergence of 0.37% at intraspecific level, 6.0% at interspecific ...
DOI:
10.5958/0974-4576.2021.00006.2

12. Low-complexity and highly robust barcodes for error-rich single molecular sequencing

Author:
Chen, Weigang; Wang, Panpan; Wang, Lixia; Zhang, Dalu; Han, Mingzhe; Han, Mingyong; Song, Lifu
Source:
3 Biotech 2021 v.11 no.2 pp. 78
ISSN:
2190-572X
Subject:
DNA barcoding,   etc   ; ; DNA; DNA replication; mutation; probability;     Show all 6 Subjects
Abstract:
... DNA barcodes are frequently corrupted due to insertion, deletion, and substitution errors during DNA synthesis, amplification and sequencing, resulting in index hopping. In this paper, we propose a new DNA barcode construction scheme that combines a cyclic block code with a predetermined pseudo-random sequence bit by bit to form bit pairs, and then converts the bit pairs to bases, i.e., the DNA ba ...
DOI:
10.1007/s13205-020-02607-5

13. Three new species of the segmented spider genus Qiongthela (Mesothelae, Liphistiidae) from Hainan Island, China

Author:
Yu, Li; Liu, Fengxiang; Zhang, Zengtao; Li, Daiqin; Xu, Xin
Source:
ZooKeys 2021 v.1009 pp. 123-138
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; genes; new species; spiders; China;     Show all 6 Subjects
Abstract:
... We report three new species of the segmented trapdoor spider genus Qiongthela Xu & Kuntner, 2015 collected from Hainan Island, China based on morphological characters: Q. dongfang sp. nov. (♂♀), Q. nankai sp. nov. (♂♀), Q. yalin sp. nov. (♂♀). We also provide the GenBank accession codes of the DNA barcode gene, cytochrome c oxidase subunit I (COI), of the type specimens of all three new species to ...
DOI:
10.3897/zookeys.1009.57857

14. Species delimitation and life stage association of Propsilocerus Kieffer, 1923 (Diptera, Chironomidae) using DNA barcodes

Author:
Yu, Hai-Jun; Lin, Xiao-Long; Zhang, Rui-Lei; Wang, Qian; Wang, Xin-Hua
Source:
ZooKeys 2020 v.975 pp. 79-86
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; Chironomidae; morphospecies;     Show all 4 Subjects
Abstract:
... The utility of COI DNA barcodes in species delimitation is explored as well as life stage associations of five closely related Propsilocerus species: Propsilocerus akamusi (Tokunaga, 1938), Propsilocerus paradoxus (Lundström, 1915), Propsilocerus saetheri Wang, Liu et Paasivirta, 2007, Propsilocerus sinicus Sæther et Wang, 1996, and Propsilocerus taihuensis (Wen, Zhou et Rong, 1994). Results revea ...
DOI:
10.3897/zookeys.957.54668

15. A note on the larva of Chalcophora japonica chinensis (Coleoptera, Buprestidae) based on morphological characters and molecular data

Author:
Wei, Zhonghua; Zhang, Liumei; Shi, Aimin
Source:
ZooKeys 2020 v.944 pp. 147-155
ISSN:
1313-2970
Subject:
DNA barcoding,   etc   ; ; Chalcophora; China;     Show all 4 Subjects
Abstract:
... Larvae of Chalcophora japonica chinensis Schaufuss, 1879 were collected from within dead trunks in Hubei Province, China, in February 2019. These specimens created an opportunity to provide the first description of the larval stage of this subspecies; The larva is described and illustrated based on morphological characters and DNA barcoding. ...
DOI:
10.3897/zookeys.944.37765

16. The problem of naming commercial seaweeds

Author:
Bolton, John J.
Source:
Journal of applied phycology 2020 v.32 no.2 pp. 751-758
ISSN:
0921-8971
Subject:
DNA barcoding,   etc   ; macroalgae; taxonomy;     Show all 3 Subjects
Abstract:
... Although there are different naming systems for economic seaweeds, including local vernacular, legal, and institutional names, there is a general understanding that naming systems are underpinned by correct scientific taxonomy and nomenclature. The molecular revolution in taxonomy, causing huge changes in delimitation of taxa, together with a perceived inability of scientific taxonomy and nomencla ...
DOI:
10.1007/s10811-019-01928-0

17. Exploring the botanical composition of polyfloral and monofloral honeys through DNA metabarcoding

Author:
Chiara, Beltramo; Francesco, Cerutti; Fulvio, Brusa; Paola, Mogliotti; Annalisa, Garrone; Stefania, Squadrone; Luigi, Acutis Pier; Simone, Peletto
Source:
Food control 2021 v.128 pp. 108175
ISSN:
0956-7135
Subject:
DNA barcoding,   etc   ; ; botanical composition; food safety; fraud; honey; markets; melissopalynology;     Show all 8 Subjects
Abstract:
... Honey is prone to commercial fraud. It is in the interest of producers and consumers alike that its authenticity and origin be guaranteed. To this end, conventional melissopalynological analysis could be coupled with DNA metabarcoding of the plant sources for correct botanical identification of the product. This is especially relevant for the Italian market, which produces more than 30 different t ...
DOI:
10.1016/j.foodcont.2021.108175

18. Sharks in hot soup: DNA barcoding of shark species traded in Singapore

Author:
Liu, Celine J.N.; Neo, Sean; Rengifo, Nathalia M.; French, Ian; Chiang, Sarah; Ooi, Mathias; Heng, Jie Min; Soon, Nathaniel; Yeo, Jing Ying; Bungum, Haaken Z.; Ota, Kurumi; Koul, Arina A.; Poh, Yan Hong; Wainwright, Benjamin J.
Source:
Fisheries research 2021 v.241 pp. 105994
ISSN:
0165-7836
Subject:
DNA barcoding,   etc   ; ; Singapore; genes; international trade; mitochondria; research; sharks; soups;     Show all 9 Subjects
Abstract:
... Sharks are apex predators that play important roles in marine ecosystems, yet many species of shark are facing significant conservation challenges. Globally, shark populations have declined by as much as 90 % in the past 50 years, largely a consequence of overfishing to support a growing demand for shark products. Numerous regulations implemented by international trade and conservation bodies have ...
DOI:
10.1016/j.fishres.2021.105994

19. Estimation of biodiversity metrics by environmental DNA metabarcoding compared with visual and capture surveys of river fish communities

Author:
Doi, Hideyuki; Inui, Ryutei; Matsuoka, Shunsuke; Akamatsu, Yoshihisa; Goto, Masuji; Kono, Takanori
Source:
Freshwater biology 2021 v.66 no.7 pp. 1257-1266
ISSN:
0046-5070
Subject:
DNA barcoding,   etc   ; Japan; environmental DNA; fish; limnology; nestedness; surveys;     Show all 7 Subjects
Abstract:
... Information on α‐ (local), β‐ (between habitats), and γ‐ (regional) diversity is fundamental to understanding biodiversity as well as the function and stability of community dynamics. Methods like environmental DNA (eDNA) metabarcoding are currently considered useful to investigate biodiversity. We compared the performance of eDNA metabarcoding with visual and capture surveys for estimating α‐ and ...
DOI:
10.1111/fwb.13714

20. Integration of morphological and molecular taxonomic characters for identification of Odontoponera denticulata (Hymenoptera: Formicidae: Ponerinae) with the description of the antennal sensilla

Author:
Hazarika, Hridisha Nandana; Khanikor, Bulbuli
Source:
Zoologischer Anzeiger 2021 v.293 pp. 89-100
ISSN:
0044-5231
Subject:
DNA barcoding,   etc   ; Odontoponera transversa; genes; morphometry; nucleotide sequences; sensilla;     Show all 6 Subjects
Abstract:
... Integration of morphological and molecular approaches is nowadays given importance to identify a particular species. So in our study, we considered both approaches to identify the controversial ant species, Odontoponera denticulata. For morphological analysis, we considered morphological characters and morphometric measurements. In the molecular approach, we considered DNA barcoding from the COI g ...
DOI:
10.1016/j.jcz.2021.05.009