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Journal articles on the topic 'Barcoding gap'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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1

Mu, Yawen, Chao Song, Jianghua Yang, Yong Zhang, and Xiaowei Zhang. "Next-Generation DNA Barcoding for Fish Identification Using High-Throughput Sequencing in Tai Lake, China." Water 15, no. 4 (2023): 774. http://dx.doi.org/10.3390/w15040774.

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Tai Lake, an important biodiversity hotspot of the lower reaches of the Yangtze River in China, possesses its own characteristic fish fauna. Barcoding on native species is important for species identification and biodiversity assessment with the emerged molecular-based method, such as environmental DNA (eDNA) metabarcoding. Here, DNA-barcoding coupled with high-throughput sequencing (HTS) and traditional Sanger sequencing were introduced to barcoding 180 specimens belonging to 33 prior morphological species, including the most majority of fish fauna in Tai Lake. HTS technology, on the one hand

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2

Mondejar, Eddie P., and Olga M. Nuñeza. "DNA Barcodes of Pholcid Spiders (Araneae : Pholcidae) in Bukidnon and Camiguin, Philippines." Asian Journal of Conservation Biology 7, no. 2 (2018): 101–5. https://doi.org/10.5281/zenodo.8207347.

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DNA barcoding is a global initiative to standardize species identification of every living organism. This study aims to examine the effectiveness of DNA barcoding in species identification using 61 CO1 sequences from 12 species of pholcid spiders. CO1 barcodes of pholcid spiders demonstrate 95.08% diagnostic effectiveness as shown in clusters of neighbor-joining (NJ) tree. Barcode Gap Analysis (GBA) of 12 pholcid species exhibits the presence of barcode gap, with mean distance to nearest neighbor species of 11.27% (range 0.16-19.69%). Distance Analysis (DA) also revealed that mean intraspecifi

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3

Powell, Robyn F., Anthony R. Magee, and James S. Boatwright. "Decoding ice plants: challenges associated with barcoding and phylogenetics in the diverse succulent family Aizoaceae." Genome 61, no. 11 (2018): 815–21. http://dx.doi.org/10.1139/gen-2018-0055.

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Aizoaceae is the largest succulent plant family in the world, including in excess of 1800 species. Despite its richness, a large proportion of its taxa are listed as data deficient and as such, has been identified as the top priority for taxonomic research in South Africa. Limitations to accurate taxonomic identification of taxa in the family may be partly attributed to the degree of technical knowledge required to identify taxa in the Aizoaceae. DNA barcoding may provide an alternative method of identification; however, the suitability of commonly used gene regions has not been tested in the

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4

Aliabadian, Mansour, Vincent Nijman, Ahmad Mahmoudi, Mehdi Naderi, Ronald Vonk, and Miguel Vences. "ExcaliBAR: a simple and fast software utility to calculate intra- and interspecific distances from DNA barcodes." Contributions to Zoology 83, no. 1 (2014): 79–84. http://dx.doi.org/10.1163/18759866-08301004.

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In the context of DNA Barcoding, sequences of standard marker genes for thousands and potentially millions of individuals and species are becoming available, requiring ever more efficient bioinformatic environments and software algorithms for analysis. We here present ExcaliBAR (Extraction, Calculation, Barcoding), a user-friendly software utility to facilitate one important initial step in DNA barcoding analyses, namely the determination of the barcoding gap between pairwise genetic distances among and within species, based on original distance matrices computed by MEGA software. In addition,

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5

Qian, Zhi-Hao, Justus Mulinge Munywoki, Qing-Feng Wang, Itambo Malombe, Zhi-Zhong Li, and Jin-Ming Chen. "Molecular Identification of African Nymphaea Species (Water Lily) Based on ITS, trnT-trnF and rpl16." Plants 11, no. 18 (2022): 2431. http://dx.doi.org/10.3390/plants11182431.

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The genus Nymphaea L. (water lily) is the most diverse genus in the family Nymphaeaceae, with more than 50 species worldwide, including 11 species distributed in Africa. The complex and variable morphology of Nymphaea makes it extremely difficult to accurately identify species based on morphological characteristics alone. DNA barcoding has the potential to identify species accurately. In this study, 158 Nymphaea populations from seven African countries were collected for species identification by ITS, trnT-trnF and rpl16. Additionally, the three candidate DNA barcodes were evaluated for geneti

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6

Kannan, Adrian, Suganiya Rama Rao, Shyamala Ratnayeke, and Yoon-Yen Yow. "The efficiency of universal mitochondrial DNA barcodes for species discrimination of Pomacea canaliculata and Pomacea maculata." PeerJ 8 (April 1, 2020): e8755. http://dx.doi.org/10.7717/peerj.8755.

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Invasive apple snails, Pomacea canaliculata and P. maculata, have a widespread distribution globally and are regarded as devastating pests of agricultural wetlands. The two species are morphologically similar, which hinders species identification via morphological approaches and species-specific management efforts. Advances in molecular genetics may contribute effective diagnostic tools to potentially resolve morphological ambiguity. DNA barcoding has revolutionized the field of taxonomy by providing an alternative, simple approach for species discrimination, where short sections of DNA, the c

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Zhou, Tingting, Wei Jiang, Hongzhu Wang, and Yongde Cui. "DNA barcoding of Naididae (Annelida, Oligochaeta), based on cytochrome C oxidase gene and ITS2 region in China." Biodiversity Data Journal 9 (December 14, 2021): e73556. https://doi.org/10.3897/BDJ.9.e73556.

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Exploring the effectiveness of DNA barcoding in species identification is a prerequisite for biodiversity conservation and environmental monitoring. Aquatic oligochaetes could serve as excellent indicators in aquatic monitoring programmes. However, few studies have examined the effectiveness of DNA barcoding in these specific organisms. The mitochondrial cytochrome C oxidase (COI) gene of 83 specimens belonging to 40 species of 18 genera were sequenced in this study. The results showed that there was a barcode gap between species of Naididae and the intraspecific genetic distances of each spec

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8

BILGIN, R., M. A. UTKAN, E. KALKAN, S. U. KARHAN, and M. BEKBÖLET. "DNA barcoding of twelve shrimp species (Crustacea: Decapoda) from Turkish seas reveals cryptic diversity." Mediterranean Marine Science 16, no. 1 (2014): 36. http://dx.doi.org/10.12681/mms.548.

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DNA barcoding is a useful tool for the identification and potential discovery of new species. In this study, DNA barcoding was employed by sequencing the mitochondrial cytochrome oxidase subunit I gene (COI) to characterize the genetic diversity of 12 shrimp species inhabiting Turkish coastal waters and, when possible, to compare with the genetic data available from different parts of the Mediterranean and eastern Atlantic. This study also comprises the first DNA barcoding study performed in the Turkish Seas using COI. A total of 40 shrimp specimens were collected and analyzed from 9 sites. Ge

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9

Laini, A., S. Fenoglio, and T. Bo. "DNA barcoding reference libraries of Italian Plecoptera: a gap analysis." European Zoological Journal 91, no. 1 (2024): 162–71. http://dx.doi.org/10.1080/24750263.2023.2298977.

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10

Le Cadre, Jéhan, Finn Luca Klemp, Miklós Bálint, Stefan Scheu, and Ina Schaefer. "Applicability and perspectives for DNA barcoding of soil invertebrates." PeerJ 12 (July 24, 2024): e17709. http://dx.doi.org/10.7717/peerj.17709.

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Belowground invertebrate communities are dominated by species-rich and very small microarthropods that require long handling times and high taxonomic expertise for species determination. Molecular based methods like metabarcoding circumvent the morphological determination process by assigning taxa bioinformatically based on sequence information. The potential to analyse diverse and cryptic communities in short time at high taxonomic resolution is promising. However, metabarcoding studies revealed that taxonomic assignment below family-level in Collembola (Hexapoda) and Oribatida (Acariformes)

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11

Assmann, Thorsten, Estève Boutaud, Jörn Buse, et al. "Heaven and hell: Spotlights on some DNA barcodes for species identification and delimitation in ground beetles." ARPHA Conference Abstracts 2 (August 5, 2019): e38819. https://doi.org/10.3897/aca.2.e38819.

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In the face of the decline of many insects, there is an increasing demand for contemporary, fast and cost-effective approaches to monitor the development of populations and species. Numerous scientists favor molecular methods, especially those involving barcoding of the CO1 gene, as an alternative to classical, morphology-based species identification. Moreover, DNA barcoding is also discussed as a suitable method to support species delimitations in complexes of closely related taxa. We used the available sequences of ground beetles from North and Central Europe with additional ones we generate

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12

Zheng, Sihao, Dewang Liu, Weiguang Ren, Juan Fu, Linfang Huang, and Shilin Chen. "Integrated Analysis for Identifying Radix Astragali and Its Adulterants Based on DNA Barcoding." Evidence-Based Complementary and Alternative Medicine 2014 (2014): 1–11. http://dx.doi.org/10.1155/2014/843923.

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Radix Astragali is a popular herb used in traditional Chinese medicine for its proimmune and antidiabetic properties. However, methods are needed to help distinguish Radix Astragali from its varied adulterants. DNA barcoding is a widely applicable molecular method used to identify medicinal plants. Yet, its use has been hampered by genetic distance, base variation, and limitations of the bio-NJ tree. Herein, we report the validation of an integrated analysis method for plant species identification using DNA barcoding that focuses on genetic distance, identification efficiency, inter- and intra

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Liu, Qin, Fei Zhu, Guanghui Zhong, et al. "COI-based barcoding of Chinese vipers (Reptilia: Squamata: Viperidae)." Amphibia-Reptilia 36, no. 4 (2015): 361–72. http://dx.doi.org/10.1163/15685381-00003012.

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DNA barcoding seeks to assemble a standardized reference library for rapid and unambiguous identification of species, and can be used to screen for potentially cryptic species. The 5′ region of cytochrome oxidase subunit I (COI), which is a mitochondrial DNA (mtDNA) gene fragment, has been proposed as a universal marker for this purpose among animals. However, DNA barcoding of reptiles is still supported only by few datasets compared with other groups. We investigated the utilization of COI to discriminate 34 putative species of vipers, representing almost 92% of the recorded species in China.

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RAJARAM, MICHEAL C., CHRISTINA S. Y. YONG, JUALANG A. GANSAU, and RUSEA GO. "DNA Barcoding of Endangered Paphiopedilum species (Orchidaceae) of Peninsular Malaysia." Phytotaxa 387, no. 2 (2019): 94–104. http://dx.doi.org/10.11646/phytotaxa.387.2.2.

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In this study, the efficacy of four DNA markers and their combinations (rbcL, matK, ITS, trnH-psbA) as barcode markers were tested across the endangered Paphiopedilum species from Peninsular Malaysia. Four species of Paphiopedilum were sampled and barcoded. The DNA barcodes reliabilities were evaluated using NCBI BLASTn program, phylogenetic tree via Neighbour-Joining method with 1000 bootstrap replicates in MEGA 6 and barcoding gap assessment. matK is the most promising barcode with high sequence quality (100%), high accuracy in BLASTn (100%), clear resolution of species in Neighbour-Joining

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15

Zhou, Yufei, Alejandro Trujillo-González, Simon Nicol, Roger Huerlimann, Stephen D. Sarre, and Dianne Gleeson. "Evaluation of DNA barcoding reference databases for marine species in the western and central Pacific Ocean." PeerJ 13 (July 14, 2025): e19674. https://doi.org/10.7717/peerj.19674.

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DNA barcoding is a widely used tool for species identification, with its reliability heavily dependent on reference databases. While the quality of these databases has long been debated, a critical knowledge gap remains in their comprehensive evaluation and comparison at regional scales. Marine metazoan species in the western and central Pacific Ocean (WCPO), a region characterized by high biodiversity and limited sequencing efforts, are an example of this gap. This study developed a systematic workflow to assess mitochondrial cytochrome c oxidase subunit I (COI) barcode coverage and sequence

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16

Thakar, Mukesh, and Tina Sharma. "Identification of CITES-Listed Euphorbia royleana through DNA Barcoding Technology: A New Facet in Wildlife Forensics." Arab Journal of Forensic Sciences and Forensic Medicine 3, no. 2 (2021): 260–72. http://dx.doi.org/10.26735/gfum4068.

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Disorganized and chaotic collection of the Euphorbia plant species from the wild is one of the major reasons for its endangered status. According to CITES, the trade in Euphorbia royleana species is prohibited under Appendix II. However, the trade continues unabated as current identification methods do not discriminate between closely related species. In the present study, a DNA barcoding method has been used to establish inter- and intra-specific divergences of both matK and rbcL regions by using pairwise genetic distance measurement methods for evaluating the maximum barcoding gap. The matk

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17

Kim, Junggon, and Sunghoon Jung. "COI barcoding of plant bugs (Insecta: Hemiptera: Miridae)." PeerJ 6 (December 4, 2018): e6070. http://dx.doi.org/10.7717/peerj.6070.

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The family Miridae is the most diverse and one of the most economically important groups in Heteroptera. However, identification of mirid species on the basis of morphology is difficult and time-consuming. In the present study, we evaluated the effectiveness of COI barcoding for 123 species of plant bugs in seven subfamilies. With the exception of threeApolygusspecies—A. lucorum,A. spinolae, andA. watajii(subfamily Mirinae)—each of the investigated species possessed a unique COI sequence. The average minimum interspecific genetic distance of congeners was approximately 37 times higher than the

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Schultz, Jessica A., and Paul D. N. Hebert. "Marine ecozones represent a major gap in Canadian DNA barcoding efforts." FACETS 9 (January 1, 2024): 1–11. http://dx.doi.org/10.1139/facets-2024-0015.

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Because of Canada’s large size, it is impractical to obtain a comprehensive perspective on biotic change through morphological approaches. DNA metabarcoding offers a potential path, but its application requires access to a well-parameterized DNA barcode reference library. This study presents the current state of DNA barcode coverage for Canadian animals, highlighting progress, identifying gaps, and providing recommendations for future research. Our analysis indicates that many of the known species (100 000 terrestrial and 6000 marine) in the Canadian fauna possess DNA barcode coverage, but the

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19

Čandek, Klemen, and Matjaž Kuntner. "DNA barcoding gap: reliable species identification over morphological and geographical scales." Molecular Ecology Resources 15, no. 2 (2014): 268–77. http://dx.doi.org/10.1111/1755-0998.12304.

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20

Chalermwong, Piangjai, Thitipong Panthum, Pish Wattanadilokcahtkun, et al. "Overcoming taxonomic challenges in DNA barcoding for improvement of identification and preservation of clariid catfish species." Genomics & Informatics 21, no. 3 (2023): e39. http://dx.doi.org/10.5808/gi.23038.

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DNA barcoding without assessing reliability and validity causes taxonomic errors of species identification, which is responsible for disruptions of their conservation and aquaculture industry. Although DNA barcoding facilitates molecular identification and phylogenetic analysis of species, its availability in clariid catfish lineage remains uncertain. In this study, DNA barcoding was developed and validated for clariid catfish. 2,970 barcode sequences from mitochondrial cytochrome c oxidase I (COI) and cytochrome b (Cytb) genes and D-loop sequences were analyzed for 37 clariid catfish species.

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21

Jackson, Miranda, and Br Albert S. Gahr. "DNA Barcoding & Macroinvertebrate Identification." American Biology Teacher 81, no. 3 (2019): 162–67. http://dx.doi.org/10.1525/abt.2019.81.3.162.

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Macroinvertebrates are readily available at the undergraduate level and provide an indicator of stream quality. DNA barcoding is the use of a sequence comparison of a specific region of the DNA that allows for classification of the organism. In most undergraduate courses, the discussion of genetic identification and stream quality assessment remain separated concepts. However, joining these lectures into a three-part laboratory learning module could bridge this gap and prepare students for a real-world application. During the first week of the proposed activity, students perform taxonomic iden

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K., Lim Burton, and Hernandez Lina Maria Arcila. "DNA barcoding of Jamaican bats: implications to Neotropical biodiversity." Mitochondrial DNA Part A 27, no. 4 (2016): 3013–19. https://doi.org/10.5281/zenodo.13448946.

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(Uploaded by Plazi for the Bat Literature Project) We report on the first comprehensive DNA barcoding survey of bats from Jamaica and compare the genetic variation to similar species on South America and Central America. Bats comprise the majority of mammalian diversity in typical lowland forest in the Neotropics, but the Caribbean is one noticeable geographic gap in the International Barcode of Life reference database. Of the 20 known species reported from Jamaica, half were DNA barcoded and were genetically distinct with interspecific variation ranging from 17 to 33%. By contrast, intraspeci

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K., Lim Burton, and Hernandez Lina Maria Arcila. "DNA barcoding of Jamaican bats: implications to Neotropical biodiversity." Mitochondrial DNA Part A 27, no. 4 (2016): 3013–19. https://doi.org/10.5281/zenodo.13448946.

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(Uploaded by Plazi for the Bat Literature Project) We report on the first comprehensive DNA barcoding survey of bats from Jamaica and compare the genetic variation to similar species on South America and Central America. Bats comprise the majority of mammalian diversity in typical lowland forest in the Neotropics, but the Caribbean is one noticeable geographic gap in the International Barcode of Life reference database. Of the 20 known species reported from Jamaica, half were DNA barcoded and were genetically distinct with interspecific variation ranging from 17 to 33%. By contrast, intraspeci

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K., Lim Burton, and Hernandez Lina Maria Arcila. "DNA barcoding of Jamaican bats: implications to Neotropical biodiversity." Mitochondrial DNA Part A 27, no. 4 (2016): 3013–19. https://doi.org/10.5281/zenodo.13448946.

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(Uploaded by Plazi for the Bat Literature Project) We report on the first comprehensive DNA barcoding survey of bats from Jamaica and compare the genetic variation to similar species on South America and Central America. Bats comprise the majority of mammalian diversity in typical lowland forest in the Neotropics, but the Caribbean is one noticeable geographic gap in the International Barcode of Life reference database. Of the 20 known species reported from Jamaica, half were DNA barcoded and were genetically distinct with interspecific variation ranging from 17 to 33%. By contrast, intraspeci

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K., Lim Burton, and Hernandez Lina Maria Arcila. "DNA barcoding of Jamaican bats: implications to Neotropical biodiversity." Mitochondrial DNA Part A 27, no. 4 (2016): 3013–19. https://doi.org/10.5281/zenodo.13448946.

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(Uploaded by Plazi for the Bat Literature Project) We report on the first comprehensive DNA barcoding survey of bats from Jamaica and compare the genetic variation to similar species on South America and Central America. Bats comprise the majority of mammalian diversity in typical lowland forest in the Neotropics, but the Caribbean is one noticeable geographic gap in the International Barcode of Life reference database. Of the 20 known species reported from Jamaica, half were DNA barcoded and were genetically distinct with interspecific variation ranging from 17 to 33%. By contrast, intraspeci

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K., Lim Burton, and Hernandez Lina Maria Arcila. "DNA barcoding of Jamaican bats: implications to Neotropical biodiversity." Mitochondrial DNA Part A 27, no. 4 (2016): 3013–19. https://doi.org/10.5281/zenodo.13448946.

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(Uploaded by Plazi for the Bat Literature Project) We report on the first comprehensive DNA barcoding survey of bats from Jamaica and compare the genetic variation to similar species on South America and Central America. Bats comprise the majority of mammalian diversity in typical lowland forest in the Neotropics, but the Caribbean is one noticeable geographic gap in the International Barcode of Life reference database. Of the 20 known species reported from Jamaica, half were DNA barcoded and were genetically distinct with interspecific variation ranging from 17 to 33%. By contrast, intraspeci

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27

Pramual, Pairot, Isara Thanee, Yannawut Uttaruk, Jiraporn Thaijarern, and Komgrit Wongpakam. "Efficiency of DNA Barcodes for Identification and Documenting Aquatic Insect Diversity in Rice Fields." Tropical Natural History 20, no. 2 (2020): 169–81. https://doi.org/10.58837/tnh.20.2.169512.

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Rapid and accurate identifications are crucial for biodiversity assessment. Yet, traditional methods for species identification have some limitations. In this study, we tested the efficiency of mitochondrial cytochrome c oxidase I barcoding sequences for species identification and documenting diversity of aquatic insects in the rice fields of Thailand. Considerable success rate (80%) for species identification was found among the species of the order Odonata. Unidentifiable specimens of immatures were successfully associated with conspecific adults or by matching with reference sequences in th

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Mushagalusa Mulega, Archimède, Arthur F. Boom, Imane Rahmouni, et al. "Catfishes from the North-Western Part of Lake Tanganyika: Contribution to a Reference Library of DNA Barcodes." Diversity 17, no. 1 (2024): 8. https://doi.org/10.3390/d17010008.

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In spite of the global barcoding effort, there is still a lack of genetic data on African freshwater fishes. We aimed to contribute to bridging this gap by providing molecular data on commercially important catfish species from the north-western part of Lake Tanganyika. We collected 215 catfish specimens and sequenced the standard vertebrate barcoding gene (COI) for 41 specimens. Additionally, we sequenced 20 specimens for the mitochondrial Cyt-b gene to make the link to previously published datasets. We identified 11 species using morphology, compared DNA sequences with those available on Gen

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Kvist, Sebastian, Christopher E. Laumer, Juan Junoy, and Gonzalo Giribet. "New insights into the phylogeny, systematics and DNA barcoding of Nemertea." Invertebrate Systematics 28, no. 3 (2014): 287. http://dx.doi.org/10.1071/is13061.

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Although some clades of ribbon worms (phylum Nemertea) are consistently recovered with high support in molecular phylogenies, the placement and inter-relationships of some taxa have proven problematic. Herein, we performed molecular phylogenetic analyses aimed at resolving these recalcitrant splits, using six loci (nuclear 18S rRNA, 28S rRNA, histones H3 and H4, and mitochondrial 16S rRNA and COI) for 133 terminals, with particular emphasis on the problematic families Hubrechtidae and Plectonemertidae. Three different datasets were used for phylogenetic analyses and both maximum likelihood and

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Hu, Li, Yae Zhao, Yuanjun Yang, Dongling Niu, and Rui Yang. "LSU rDNA D5 region: the DNA barcode for molecular classification and identification of Demodex." Genome 62, no. 5 (2019): 295–304. http://dx.doi.org/10.1139/gen-2018-0168.

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Whether ribosomal genes can be used as DNA barcodes for molecular identification of Demodex (Acariformes: Demodicidae) is unclear. To examine this, Demodex folliculorum, D. brevis, D. canis, and D. caprae were collected for DNA extraction, rDNA fragments amplification, sequencing, and analysis. The V2 and V4 regions of SSU rDNA; D5, D6, and D8 regions of LSU rDNA; and ITS region were obtained from the four morphospecies. BLAST analysis showed that the obtained sequences matched those of Demodex or Aplonobia (Acariformes: Tetranychidae) in Raphignathae. Phylogenetic trees derived from V2, V4, D

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Li, Qiwei, Jihong Wu, Yesheng Wang, et al. "The phylogenetic analysis of Dalbergia (Fabaceae: Papilionaceae) based on different DNA barcodes." Holzforschung 71, no. 12 (2017): 939–49. http://dx.doi.org/10.1515/hf-2017-0052.

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AbstractThe genusDalbergiacontains approximately 250 species with many valuable trees being destroyed by targeted and illegal logging. DNA barcoding is a reliable method for the molecular identification of different species and resources conservation. In the present study, the specimen discrimination ability of internal transcribed spacer (ITS),matK,rbcL andpsbA-trnH barcoding were tested onDalbergiasequences, downloaded from the National Center for Biotechnology Information (NCBI), and the combined barcoding ITS+matK+rbcL was used to identify unknown specimens. It was found that ITS+matK+rbcL

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Lago-Barcia, Domingo, Fernando A. Fernández-Álvarez, Lisandro Negrete, et al. "Morphology and DNA barcodes reveal the presence of the non-native land planarian Obama marmorata (Platyhelminthes : Geoplanidae) in Europe." Invertebrate Systematics 29, no. 1 (2015): 12. http://dx.doi.org/10.1071/is14033.

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We report for the first time the occurrence of Obama marmorata in the Iberian Peninsula as an introduced species from the Neotropical Region. The species is also reported for the first time in Argentina. The identification was made on the basis of morphological evidence. The divergence levels of a fragment of the mitochondrial cytochromec oxidaseI gene from Argentinean and Iberian samples were studied. The morphology of samples from the two regions was the same and matched the original description of the species. A DNA barcoding matrix was constructed using new sequences from O. marmorata and

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Hanzen, Céline, Martyn C. Lucas, Gordon O'Brien, Colleen T. Downs, and Sandi Willows-Munro. "African freshwater eel species (Anguilla spp.) identification through DNA barcoding." Marine and Freshwater Research 71, no. 11 (2020): 1543. http://dx.doi.org/10.1071/mf19390.

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Freshwater eels (Anguilla spp.) have a long and complex catadromous life cycle. This unique feature, coupled with difficulty in separating species based on morphology, makes them complex targets for conservation. In this study we evaluated the utility of DNA barcoding using cytochrome oxidase I (COI) to delimit the four species of African eels found in the western Indian Ocean region. We collected 76 individual fin clips from the four eel species (A. mossambica, n=51; A. marmorata, n=17; A. bengalensis, n=6; A. bicolor, n=2) in the rivers of KwaZulu–Natal, South Africa, in 2016–18. Phylogeneti

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Mark, Karelov. "The Future of Smart Warehousing: From Barcoding to Drone Integration." American Journal of Engineering and Technology 07, no. 04 (2025): 119–24. https://doi.org/10.37547/tajet/volume07issue04-16.

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The rapid expansion of e-commerce and the growing demand for faster delivery have significantly reshaped the role of warehouse logistics in modern business. Traditional warehouse management methods are no longer sufficient to handle the rising volume of goods, underscoring the urgent need for innovative technological solutions. This study focuses on the evolution of smart warehousing—from basic barcoding systems to sophisticated technologies involving robotics, drones, and artificial intelligence. A noticeable gap remains in the academic literature between theoretical research on warehouse opt

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Xu, Xin, Fengxiang Liu, Jian Chen, Daiqin Li, and Matjaž Kuntner. "Integrative taxonomy of the primitively segmented spider genus Ganthela (Araneae: Mesothelae: Liphistiidae): DNA barcoding gap agrees with morphology." Zoological Journal of the Linnean Society 175, no. 2 (2015): 288–306. https://doi.org/10.1111/zoj.12280.

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Xu, Xin, Liu, Fengxiang, Chen, Jian, Li, Daiqin, Kuntner, Matjaž (2015): Integrative taxonomy of the primitively segmented spider genus Ganthela (Araneae: Mesothelae: Liphistiidae): DNA barcoding gap agrees with morphology. Zoological Journal of the Linnean Society 175 (2): 288-306, DOI: 10.1111/zoj.12280, URL: http://dx.doi.org/10.1111/zoj.12280

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Mallo, Diego, and David Posada. "Multilocus inference of species trees and DNA barcoding." Philosophical Transactions of the Royal Society B: Biological Sciences 371, no. 1702 (2016): 20150335. http://dx.doi.org/10.1098/rstb.2015.0335.

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The unprecedented amount of data resulting from next-generation sequencing has opened a new era in phylogenetic estimation. Although large datasets should, in theory, increase phylogenetic resolution, massive, multilocus datasets have uncovered a great deal of phylogenetic incongruence among different genomic regions, due both to stochastic error and to the action of different evolutionary process such as incomplete lineage sorting, gene duplication and loss and horizontal gene transfer. This incongruence violates one of the fundamental assumptions of the DNA barcoding approach, which assumes

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Ma, Zhuo, Jinliang Ren, and Runzhi Zhang. "Identifying the Genetic Distance Threshold for Entiminae (Coleoptera: Curculionidae) Species Delimitation via COI Barcodes." Insects 13, no. 3 (2022): 261. http://dx.doi.org/10.3390/insects13030261.

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The subfamily Entiminae is the largest group in the family Curculionidae, and it has long represented a challenge in traditional and molecular classification. Here, we analyzed intra- and interspecific genetic distances of 621 public COI barcode sequences (658bp) from 39 genera and 110 species of Entiminae, to determine parameters most congruent in retaining established species. We found that the mean intraspecific genetic distance (3.07%) was much smaller than the mean interspecific one (21.96%), but there is a wide range of overlap between intra- and interspecific genetic distances (0.77–18.

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Aghayeva, Parvin, Salvatore Cozzolino, Donata Cafasso, Valida Ali-zade, Silvia Fineschi, and Dilzara Aghayeva. "DNA barcoding of native Caucasus herbal plants: potentials and limitations in complex groups and implications for phylogeographic patterns." Biodiversity Data Journal 9 (January 27, 2021): e61333. https://doi.org/10.3897/BDJ.9.e61333.

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DNA barcoding has rapidly become a useful complementary tool in floristic investigations particularly for identifying specimens that lack diagnostic characters. Here, we assess the capability of three DNA barcode markers (chloroplast <i>rpoB</i>, <i>accD</i> and nuclear ITS) for correct species assignment in a floristic survey on the Caucasus. We focused on two herbal groups with potential for ornamental applications, namely orchids and asterids. On these two plant groups, we tested whether our selection of barcode markers allows identification of the "barcoding gap" in sequence identity and t

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Henter, Heather J., Ralph Imondi, Karen James, Diana Spencer, and Dirk Steinke. "DNA barcoding in diverse educational settings: five case studies." Philosophical Transactions of the Royal Society B: Biological Sciences 371, no. 1702 (2016): 20150340. http://dx.doi.org/10.1098/rstb.2015.0340.

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Despite 250 years of modern taxonomy, there remains a large biodiversity knowledge gap. Most species remain unknown to science. DNA barcoding can help address this gap and has been used in a variety of educational contexts to incorporate original research into school curricula and informal education programmes. A growing body of evidence suggests that actively conducting research increases student engagement and retention in science. We describe case studies in five different educational settings in Canada and the USA: a programme for primary and secondary school students (ages 5–18), a year-l

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Prie, Vincent E., and Xavier Cucherat. "Additional molecular data on the protected springsnail species Bythinella viridis (Poiret, 1801) (Gastropoda: Bythinellidae) suggest synonymy of related taxa." Knowledge & Management of Aquatic Ecosystems, no. 422 (2021): 36. http://dx.doi.org/10.1051/kmae/2021035.

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The taxonomic status of the springsnails B. viridis, B. carinulata and B. lancelevei remains unclear despite the molecular evidence data provided by Benke et al. (2009). Based on extensive sampling and the analysis of COI, 16S, 28S and ITS genes, we investigate analyze the genetic variability of Bythinella populations sampled within the area of occurrence of the three nominal taxa. Topotypic populations of B. lancelevei and B. viridis cannot could not be distinguished. Some of the populations included in the putative area of distribution range of B. carinulata form distinct supported clades, b

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WU, Shenmao, Liping YIN, Zhirui DENG, Qin CHEN, Yining FU, and Huajie XUE. "Using DNA Barcoding to Identify the Genus Lolium." Notulae Botanicae Horti Agrobotanici Cluj-Napoca 43, no. 2 (2015): 536–41. http://dx.doi.org/10.15835/nbha4329747.

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Seeds of the genus Lolium are difficult to identify based on morphology for morphological likeness and some physical deformation such as friction and flattening during storage and transport. DNA barcoding, a newly-established method, has been used to discriminate a variety of agricultural crops with its own advantages. In present study, DNA barcodes for the genus Lolium were investigated for the first time. DNA sequences of psbA-trnH, rbcL, atpF-atpH, and the ITS2 region were evaluated for their ability to differentiate Lolium from the related genus Festuca. As confirmed by inter-intraspecific

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BUCK, MATTHIAS, TYLER P. COBB, JULIE K. STAHLHUT, and ROBERT H. HANNER. "Unravelling cryptic species diversity in eastern Nearctic paper wasps, Polistes (Fuscopolistes), using male genitalia, morphometrics and DNA barcoding, with descriptions of two new species (Hymenoptera: Vespidae)." Zootaxa 3502, no. 1 (2012): 1. http://dx.doi.org/10.11646/zootaxa.3502.1.1.

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A study of male genitalia, morphometric head measurements and DNA barcoding revealed three overlooked species in eastern Nearctic Polistes (Fuscopolistes), two of which are described here: P. (F.) hirsuticornis Buck, sp. nov. and P. (F.) parametricus Buck, sp. nov. Polistes carolina of authors is a complex of two or three species. Type studies also uncovered new synonymies: P. rubiginosus Lepeletier, 1836, sp. restit. (=P. perplexus Cresson, 1872, syn. nov.; P. generosus Cresson, 1872, syn. nov.); P. nigripennis (De Geer, 1773) is removed from synonymy with P. carolina (Linnaeus, 1767) and ten

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Jażdżewska, Anna Maria, Anne Helene S. Tandberg, Tammy Horton, and Saskia Brix. "Global gap-analysis of amphipod barcode library." PeerJ 9 (November 4, 2021): e12352. http://dx.doi.org/10.7717/peerj.12352.

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In the age of global climate change and biodiversity loss there is an urgent need to provide effective and robust tools for diversity monitoring. One of the promising techniques for species identification is the use of DNA barcoding, that in Metazoa utilizes the so called ‘gold-standard’ gene of cytochrome c oxidase (COI). However, the success of this method relies on the existence of trustworthy barcode libraries of the species. The Barcode of Life Data System (BOLD) aims to provide barcodes for all existing organisms, and is complemented by the Barcode Index Number (BIN) system serving as a

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Marescaux, Jonathan, and Doninck Karine Van. "Using DNA barcoding to differentiate invasive Dreissena species (Mollusca, Bivalvia)." ZooKeys 365 (December 30, 2013): 235–44. https://doi.org/10.3897/zookeys.365.5905.

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The zebra mussel (<i>Dreissena polymorpha</i>) and the quagga mussel (<i>Dreissena rostriformis bugensis</i>) are considered as the most competitive invaders in freshwaters of Europe and North America. Although shell characteristics exist to differentiate both species, phenotypic plasticity in the genus <i>Dreissena </i>does not always allow a clear identification. Therefore, the need to find an accurate identification method is essential. DNA barcoding has been proven to be an adequate procedure to discriminate species. The cytochrome <i>c</i> oxidase subunit 1 mitochondrial gene (COI) is con

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Prantoni, Alessandro L., Ricardo Belmonte-Lopes, Paulo C. Lana, and Christer Erséus. "Genetic diversity of marine oligochaetous clitellates in selected areas of the South Atlantic as revealed by DNA barcoding." Invertebrate Systematics 32, no. 3 (2018): 524. http://dx.doi.org/10.1071/is17029.

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Marine oligochaetous clitellates are poorly investigated in the South Atlantic Ocean, especially along the east coast of South America. Closely related species are often difficult to distinguish based on morphology. The lack of specialists and modern identification guides have been pointed out as the main reasons for the scarcity of studies in the South Atlantic Ocean as a whole. To increase the knowledge of this group in the South Atlantic, the genetic diversity of a sample of marine oligochaetous clitellates from Brazil, South Africa and Antarctica was assessed by the Automatic Barcode Gap D

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Eckert, Ester, Diego Fontaneto, Manuela Coci, and Cristiana Callieri. "Does a Barcoding Gap Exist in Prokaryotes? Evidences from Species Delimitation in Cyanobacteria." Life 5, no. 1 (2014): 50–64. http://dx.doi.org/10.3390/life5010050.

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Javaheri Tehrani, Sahar, Elham Rezazadeh, Niloofar Alaei Kakhki, et al. "DNA barcoding of passerine birds in Iran." ZooKeys 1236 (April 24, 2025): 19–39. https://doi.org/10.3897/zookeys.1236.143336.

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Exploring genetic diversity is essential for precise species delimitation, especially within taxonomically complex groups like passerine birds. Traditional morphological methods often fail to resolve species boundaries; however, DNA barcoding, particularly through the mitochondrial cytochrome c oxidase subunit I (COI) gene, provides a powerful complementary method for accurate species identification. This study establishes a comprehensive DNA barcode library for Iranian passerine birds, analyzing 546 COI sequences from 94 species across 23 families and 53 genera. There is a pronounced barcode

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Hernandez Kantun, Jazmin J., Rafael Riosmena-Rodriguez, Walter H. Adey, and Fabio Rindi. "Analysis of the cox2-3 spacer region for population diversity and taxonomic implications in rhodolith-forming species (Rhodophyta: Corallinales)." Phytotaxa 190, no. 1 (2014): 331. http://dx.doi.org/10.11646/phytotaxa.190.1.20.

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Coralline red algae demonstrate phenotypic plasticity related to environmental factors, rendering their identification difficult. The cox2-3 spacer is a mitochondrial marker widely used for phylogeographic studies and discrimination between closely related species in red algae; however, cox2-3 spacer sequence data for coralline algae are still limited. In this study we substantially increase the number of cox2-3 spacer sequences available for coralline algae, exploring their usefulness for different types of molecular investigations in coralline algae (DNA barcoding and phylogeography), with e

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Javaheri, Tehrani Sahar, Elham Rezazadeh, Kakhki Niloofar Alaei, et al. "DNA barcoding of passerine birds in Iran." ZooKeys 1236 (April 24, 2025): 19–39. https://doi.org/10.3897/zookeys.1236.143336.

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Exploring genetic diversity is essential for precise species delimitation, especially within taxonomically complex groups like passerine birds. Traditional morphological methods often fail to resolve species boundaries; however, DNA barcoding, particularly through the mitochondrial cytochrome c oxidase subunit I (<i>COI</i>) gene, provides a powerful complementary method for accurate species identification. This study establishes a comprehensive DNA barcode library for Iranian passerine birds, analyzing 546 <i>COI</i> sequences from 94 species across 23 families and 53 genera. There is a prono

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Zhong, Yingchun, Haiying Wang, Qianhe Wei, et al. "Combining DNA Barcoding and HPLC Fingerprints to Trace Species of an Important Traditional Chinese Medicine Fritillariae Bulbus." Molecules 24, no. 18 (2019): 3269. http://dx.doi.org/10.3390/molecules24183269.

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Fritillariae Bulbus is a precious Chinese herbal medicine that is grown at high elevation and used to relieve coughs, remove phlegm, and nourish the lungs. Historically, Fritillariae Bulbus has been divided into two odourless crude drugs: Fritillariae Cirrhosae Bulbus and Fritillariae Thunbergii Bulbus. However, now the Chinese Pharmacopoeia has described five Fritillariae Bulbus—the new additions include Fritillariae Pallidiflorae Bulbus, Fritillariae Ussuriensis Bulbus, and Fritillariae Hupehensis Bulbus. Because the morphology of dried Fritillariae Bulbus is similar, it is difficult to accu

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