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barcoding Diptera

Tanasak Changbunjong, Benjaporn Bhusri, Poonyapat Sedwisai, Thekhawet Weluwanarak, Eakanan Nitiyamatawat, Theeraphap Chareonviriyaphap, Jiraporn Ruangsittichai
Horse flies (Diptera: Tabanidae) are of medical and veterinary importance because they are known to transmit pathogens. Approximately 80 species of horse flies have been reported in Thailand. Monitoring the distribution of horse fly species is important to control the spread of diseases transmitted by them. Currently, the species identification of horse flies is based on their morphology; this requires considerable skills and taxonomic expertise, and it may be difficult to identify morphologically similar species...
August 15, 2018: Veterinary Parasitology
Wei Chen, Yanjie Shang, Lipin Ren, Kai Xie, Xiangyan Zhang, Changquan Zhang, Shule Sun, Yong Wang, Lagabaiyila Zha, Yadong Guo
Some representatives of flesh flies visiting/colonizing the decomposed remains demonstrated their values in estimating the minimal postmortem interval (PMImin) since death. However, the utility of sarcophagid flies has been seriously hampered by limited ecological, biological and taxonomic knowledge of them. Although mitochondrial genes have been proposed as a potential DNA barcode for the species-level identification of sarcophagids, some defects still remain such as the substantial memory and processing time taken for homologous comparisons online...
July 21, 2018: Forensic Science International
Van Lun Low, Hiroyuki Takaoka, Peter H Adler, Tiong Kai Tan, Francis Cheng-Hsuan Weng, Cheng-Yu Chen, Yvonne Ai Lian Lim, Zubaidah Ya'cob, Chee Dhang Chen, Mohd Sofian-Azirun, Daryi Wang
The Simulium rufibasis subgroup is one of three subgroups of the Simulium (Simulium) tuberosum species-group; it is characterized by a pair of clustered stout hairs on the ventral surface of female abdominal segment 7. A member of the S. rufibasis subgroup in Taiwan was investigated morphologically and genetically using the universal cytochrome c oxidase subunit I (COI) barcoding gene and polytene chromosomal banding pattern. The Taiwanese material is morphologically similar to S. rosliramlii Takaoka & Chen from Vietnam and represents the second species of the S...
July 14, 2018: Parasitology Research
Muhammad Ashfaq, Jamal S M Sabir, Hosam O El-Ansary, Kate Perez, Valerie Levesque-Beaudin, Arif M Khan, Akhtar Rasool, Carlene Gallant, Joseph Addesi, Paul D N Hebert
Although insects dominate the terrestrial fauna, sampling constraints and the poor taxonomic knowledge of many groups have limited assessments of their diversity. Passive sampling techniques and DNA-based species assignments now make it possible to overcome these barriers. For example, Malaise traps collect specimens with minimal intervention while the Barcode Index Number (BIN) system automates taxonomic assignments. The present study employs Malaise traps and DNA barcoding to extend understanding of insect diversity in one of the least known zoogeographic regions, the Saharo-Arabian...
2018: PloS One
Matt N Krosch, Francesca Strutt, Mark J Blacket, Jana Batovska, Melissa Starkie, Anthony R Clarke, Stephen L Cameron, Mark K Schutze
Accurate species-level identifications underpin many aspects of basic and applied biology; however, identifications can be hampered by a lack of discriminating morphological characters, taxonomic expertise or time. Molecular approaches, such as DNA "barcoding" of the cytochrome c oxidase (COI) gene, are argued to overcome these issues. However, nuclear encoding of mitochondrial genes (numts) and poor amplification success of suboptimally preserved specimens can lead to erroneous identifications. One insect group for which these molecular and morphological problems are significant are the dacine fruit flies (Diptera: Tephritidae: Dacini)...
June 6, 2018: Insect Science
Oumama Benabdelkrim Filali, Mostafa Kabine, Adil El Hamouchi, Meryem Lemrani, Mustapha Debboun, M'hammed Sarih
Anopheles sergentii known as the "oasis vector" or the "desert malaria vector" is considered the main vector of malaria in the southern parts of Morocco. Its presence in Morocco is confirmed for the first time through sequencing of mitochondrial DNA (mDNA) cytochrome c oxidase subunit I (COI) barcodes and nuclear ribosomal DNA (rDNA) second internal transcribed spacer (ITS2) sequences and direct comparison with specimens of A. sergentii of other countries. The DNA barcodes (n = 39) obtained from A...
June 5, 2018: Vector Borne and Zoonotic Diseases
Edward Pfeiler
Genetic diversity in mitochondrial DNA barcodes, comprising a segment of the cytochrome c oxidase subunit I (COI) gene, was used to infer demographic histories in selected taxa of the cactophilic Drosophila repleta species group in North America. Haplotype and nucleotide diversities were determined in 16 taxa based on both previously published and new sequences. Haplotype diversity (h) differed dramatically in different taxa, varying from h = 0 in D. eremophila, D. hexastigma and D. bifurca to h = 0.99 in D...
May 21, 2018: Journal of Heredity
Lipin Ren, Wei Chen, Yanjie Shang, Fanming Meng, Lagabaiyila Zha, Yong Wang, Yadong Guo
Muscid Flies (Diptera: Muscidae) are of great forensic importance due to their wide distribution, ubiquitous and synanthropic nature. They are frequently neglected as they tend to arrive at the corpses later than the flesh flies and blow flies. Moreover, the lack of species-level identification also hinders investigation of medicolegal purposes. To overcome the difficulty of morphological identification, molecular method has gained relevance. Cytochrome c oxidase subunit I (COI) gene has been widely utilized...
May 17, 2018: Journal of Medical Entomology
Salman Shayya, Régis Debruyne, André Nel, Dany Azar
Calliphoridae are among the first insects associated to decomposing animal remains. We have collected 1,841 specimens of three calliphorid genera: Calliphora, Lucilia, and Chrysomya, from different Lebanese localities as a first step in implementing a database of insects of forensic relevance for the country. Blow-flies are crucial for the estimation of the postmortem interval. DNA-based identification is a rapid and accurate method, often used for morphologically similar species, especially for immatures or incomplete specimens...
May 12, 2018: Journal of Medical Entomology
Burçin Morçiçek, Belgin Gocmen Taskin, Ersin Doğaç, Taylan Doğaroğlu, Vatan Taskin
Establishing reliable risk projection information about the distribution pattern of members of the Culex pipiens complex is of particular interest, as these mosquitoes are competent vectors for certain disease-causing pathogens. Wolbachia, a maternally inherited bacterial symbiont, are distributed in various arthropod species and can induce cytoplasmic incompatibility, i.e., reduced egg hatch, in certain crosses. It is being considered as a tool for population control of mosquito disease vectors. The Aegean region is characterized by highly populated, rural, and agricultural areas and is also on the route of the migratory birds...
June 2018: Journal of Vector Ecology: Journal of the Society for Vector Ecology
Sarah Susanne Übleis, Claudia Cuk, Michaela Nawratil, Julia Butter, Ellen Schoener, Adelheid G Obwaller, Thomas Zechmeister, Georg G Duscher, Franz Rubel, Karin Lebl, Carina Zittra, Hans-Peter Fuehrer
Information on mosquito-borne filarioid helminths in Austria is scarce, but recent discoveries of Dirofilaria repens indicate autochthonous distribution of this parasite in Eastern Austria. In the current xenomonitoring study, more than 48,000 mosquitoes were collected in Eastern Austria between 2013 and 2015, using different sampling techniques and storage conditions, and were analysed in pools with molecular tools for the presence of filarioid helminth DNA. Overall, DNA of D. repens , Setaria tundra , and two unknown filarioid helminths were documented in twenty mosquito pools within the mitochondrial cox1 gene (barcode region)...
2018: Canadian Journal of Infectious Diseases & Medical Microbiology
D Li, D W Waite, D N Gunawardana, B McCarthy, D Anderson, A Flynn, S George
Immature fruit fly stages of the family Tephritidae are commonly intercepted on breadfruit from Pacific countries at the New Zealand border but are unable to be identified to the species level using morphological characters. Subsequent molecular identification showed that they belong to Bactrocera xanthodes, which is part of a species complex that includes Bactrocera paraxanthodes, Bactrocera neoxanthodes and an undescribed species. To establish a more reliable molecular identification system for B. xanthodes, a reference database of DNA barcode sequences for the 5'-fragment of COI gene region was constructed for B...
May 6, 2018: Bulletin of Entomological Research
Zubaidah Ya'cob, Hiroyuki Takaoka, Van Lun Low, Mohd Sofian-Azirun
Simulium (Simulium) hackeri Edwards, 1928 of the Simulium variegatum species-group from Malaysia was described initially based on the female specimen from Cameron Highlands, Pahang. In the present study, the pupa and larva of this species are described for the first time. Their morphological characters resemble those of the Simulium variegatum species-group by having six gill filaments per side, abdomen with dorsal spine-combs at least on segments 7 and 8, cocoon with wall-pocket shaped and with or without an anterodorsal projection...
April 27, 2018: Acta Tropica
Art Borkent, Brian V Brown, Peter H Adler, Dalton de Souza Amorim, Kevin Barber, Daniel Bickel, Stephanie Boucher, Scott E Brooks, John Burger, Z L Burington, Renato S Capellari, Daniel N R Costa, Jeffrey M Cumming, Greg Curler, Carl W Dick, J H Epler, Eric Fisher, Stephen D Gaimari, Jon Gelhaus, David A Grimaldi, John Hash, Martin Hauser, Heikki Hippa, Sergio IbÁÑez-Bernal, Mathias Jaschhof, Elena P Kameneva, Peter H Kerr, Valery Korneyev, Cheslavo A Korytkowski, Giar-Ann Kung, Gunnar Mikalsen Kvifte, Owen Lonsdale, Stephen A Marshall, Wayne N Mathis, Verner Michelsen, Stefan Naglis, Allen L Norrbom, Steven Paiero, Thomas Pape, Alessandre Pereira-Colavite, Marc Pollet, Sabrina Rochefort, Alessandra Rung, Justin B Runyon, Jade Savage, Vera C Silva, Bradley J Sinclair, Jeffrey H Skevington, John O Iii Stireman, John Swann, Pekka Vilkamaa, Terry Wheeler, Terry Whitworth, Maria Wong, D Monty Wood, Norman Woodley, Tiffany Yau, Thomas J Zavortink, Manuel A Zumbado
Study of all flies (Diptera) collected for one year from a four-hectare (150 x 266 meter) patch of cloud forest at 1,600 meters above sea level at Zurquí de Moravia, San José Province, Costa Rica (hereafter referred to as Zurquí), revealed an astounding 4,332 species. This amounts to more than half the number of named species of flies for all of Central America. Specimens were collected with two Malaise traps running continuously and with a wide array of supplementary collecting methods for three days of each month...
March 27, 2018: Zootaxa
Eugenyi A Makarchenko, Marina A Makarchenko, Alexander A Semenchenko, Dmitry M Palatov
Illustrated descriptions of the adult male, pupa and fourth instar larva, as well as DNA barcoding results of Chaetocladius (Chaetocladius) elisabethae sp. nov. in comparison with closely related species of Chaetocladius s. str. from the Moscow Region are provided. A reference 658 bp barcode sequence from a fragment of the mitochondrial gene cytochrome oxidase I (COI) was used as a tool for species delimitation. Comparisons with corresponding regions of COI between C. (s. str.) elisabethae sp. nov. and other species of the subgenus produced K2P genetic distances of 0...
April 4, 2018: Zootaxa
Trude Magnussen, Jostein KjÆrandsen, Arild Johnsen, Geir E E SØli
Only one species of the genus Allodia has been previously recorded from the Afrotropical region, Allodia (Brachycampta) flavorufa Matile, 1978. Six new species are described here, all representing the nominotypical subgenus, Allodia s.s. The new species are described from material collected in different mountainous areas in south and east Africa; A. jaschhofi sp. nov., A. karkloofensis sp. nov., A. drakensbergensis sp. nov., A. nyeriensis sp. nov., A. mazumbaiensis sp. nov. and A. keurbosensis sp. nov. The species are morphologically very similar, and can only be separated based on minor differences in wing venation and characters of the male terminalia...
April 11, 2018: Zootaxa
Amrita Srivathsan, Bilgenur Baloğlu, Wendy Wang, Wei X Tan, Denis Bertrand, Amanda H Q Ng, Esther J H Boey, Jayce J Y Koh, Niranjan Nagarajan, Rudolf Meier
DNA barcodes are useful for species discovery and species identification, but obtaining barcodes currently requires a well-equipped molecular laboratory and is time-consuming, and/or expensive. We here address these issues by developing a barcoding pipeline for Oxford Nanopore MinION™ and demonstrating that one flow cell can generate barcodes for ~500 specimens despite the high basecall error rates of MinION™ reads. The pipeline overcomes these errors by first summarizing all reads for the same tagged amplicon as a consensus barcode...
April 19, 2018: Molecular Ecology Resources
Yangqing Liu, Huiying Tao, Yixin Yu, Liangliang Yue, Wen Xia, Weiqing Zheng, Hongmei Ma, Xiaoqing Liu, Haiying Chen
Culicoides biting midges (Diptera:Ceratopogonidae) cause a significant biting nuisance to humans, livestock, which are the biological vectors of a range of risky pathogens. Accurate illustration of vector play a key role in arthropod borne diseases surveillance. However, few studies have focused on the Culicoides, which caused bluetongue disease in 29 provinces of China since 1979. In this study, we assessed cytochrome oxidase subunit I (COI) mtDNA molecular marker for identification of ten major vector species and analyzed the Culicoides species community and diversity in different habitats...
April 30, 2018: Veterinary Parasitology
Yuyan Guo, Zhangyao Song, Lei Luo, Qingmin Wang, Guofa Zhou, Dizi Yang, Daibin Zhong, Xueli Zheng
BACKGROUND: Aedes (Stegomyia) albopictus (Skuse) is an indigenous species and the predominant vector of dengue fever in China. Understanding of genetic diversity and structure of the mosquito would facilitate dengue prevention and vector control. Sympatric cryptic species have been identified in the Ae. albopictus subgroup in Southeast Asia; however, little is known about the presence and distribution of cryptic species in China. This study aimed to examine the genetic diversity, evaluate potential new cryptic sibling species, and assess the prevalence of Wolbachia infections in field populations...
April 4, 2018: Parasites & Vectors
Bruno Leite Rodrigues, Luís Fernando Carvalho-Costa, Israel de Souza Pinto, José Manuel Macário Rebêlo
Sand fly (Diptera: Psychodidae) taxonomy is complex and time-consuming, which hampers epidemiological efforts directed toward controlling leishmaniasis in endemic regions such as northeastern Brazil. Here, we used a fragment of the mitochondrial cytochrome c oxidase I (COI) gene to identify sand fly species in Maranhão State (northeastern Brazil) and to assess cryptic diversity occurring at different spatial scales. For this, we obtained 148 COI sequences of 15 sand fly species (10 genera) from Maranhão (fine spatial scale), and joined them to COI sequences from other Brazilian localities (distant about 2,000 km from Maranhão, broad spatial scale) available in GenBank...
June 28, 2018: Journal of Medical Entomology
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