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Singh PR, van de Vossenberg BTLH, Rybarczyk-Mydłowska K, Kowalewska-Groszkowska M, Bert W, Karssen G. An Integrated Approach for Synonymization of Rotylenchus rhomboides with R. goodeyi (Nematoda: Hoplolaimidae) Reveals High Intraspecific Mitogenomic Variation. PHYTOPATHOLOGY 2022; 112:1152-1164. [PMID: 34818905 DOI: 10.1094/phyto-08-21-0363-r] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Rotylenchus is a widely distributed, economically important plant-parasitic nematode group whose species-level identification relies largely on limited morphological characters, including character-based tabular keys and molecular data of ribosomal and mitochondrial genes. In this study, a combined morphological and molecular analysis of three populations of Rotylenchus goodeyi from Belgium, Poland, and the Netherlands revealed important character variations of this species, leading to synonymization of R. rhomboides with R. goodeyi and a high nucleotide variation within cox1 gene sequences in these populations. Additional Illumina sequencing of DNA from individuals of the Dutch population revealed two variants of mitogenomes, each approximately 23 Kb in size, differing by approximately 9% and containing 11 protein-coding genes, 2 ribosomal RNA genes, and as many as 29 transfer RNA genes. In addition to the first representative whole-genome shotgun sequence datasets of the genus Rotylenchus, this study also provides the full-length mitogenome and the ribosomal DNA sequences of R. goodeyi.
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Affiliation(s)
| | - Bart T L H van de Vossenberg
- National Plant Protection Organization, National Reference Centre for Plant Health, 6706 EA Wageningen, The Netherlands
| | | | | | - Wim Bert
- Nematology Research Unit, Department of Biology, Ghent University, 9000 Ghent, Belgium
| | - Gerrit Karssen
- Nematology Research Unit, Department of Biology, Ghent University, 9000 Ghent, Belgium
- National Plant Protection Organization, National Reference Centre for Plant Health, 6706 EA Wageningen, The Netherlands
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Smitz N, De Wolf K, Gheysen A, Deblauwe I, Vanslembrouck A, Meganck K, De Witte J, Schneider A, Verlé I, Dekoninck W, Gombeer S, Vanderheyden A, De Meyer M, Backeljau T, Müller R, Van Bortel W. DNA identification of species of the Anopheles maculipennis complex and first record of An. daciae in Belgium. MEDICAL AND VETERINARY ENTOMOLOGY 2021; 35:442-450. [PMID: 33951205 PMCID: PMC8453948 DOI: 10.1111/mve.12519] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 03/16/2021] [Accepted: 04/08/2021] [Indexed: 06/12/2023]
Abstract
The present study aimed at identifying the members of the Anopheles maculipennis complex (Diptera: Culicidae) occurring in Belgium. Therefore, the second internal transcribed spacer of nuclear ribosomal DNA (ITS2) and the mitochondrial cytochrome oxidase subunit I (COI) loci were sequenced in 175 and 111 specimens, respectively, collected between 2007 and 2019. In parallel, the suitability of two species-diagnostic PCR-RFLP assays was tested. The identified specimens included: An. maculipennis s.s. (N = 105), An. daciae (N = 62), An. atroparvus (N = 6) and An. messeae (N = 2). Each species was characterized by unique ITS2 haplotypes, whereas COI only supported the monophyly of An. atroparvus, a historical malaria vector in Belgium. Species identification results were further supported by unique PCR-RFLP banding patterns. We report for the first time An. daciae in Belgium, where it was found to co-occur with An. maculipennis s.s. The latter was the most prevalent in the collection studied (60%) and appears to have the widest distribution in Belgium. As in other studies, An. daciae and An. messeae appeared the most closely related species, up to the point that their species status remains debatable, while their ecological differences, including vector competences, need further study.
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Affiliation(s)
- N. Smitz
- Royal Museum for Central Africa (BopCo & Biology Department)TervurenBelgium
| | - K. De Wolf
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - A. Gheysen
- Royal Museum for Central Africa (BopCo & Biology Department)TervurenBelgium
| | - I. Deblauwe
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - A. Vanslembrouck
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service)BrusselsBelgium
| | - K. Meganck
- Royal Museum for Central Africa (BopCo & Biology Department)TervurenBelgium
| | - J. De Witte
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - A. Schneider
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - I. Verlé
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - W. Dekoninck
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service)BrusselsBelgium
| | - S. Gombeer
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service)BrusselsBelgium
| | - A. Vanderheyden
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service)BrusselsBelgium
| | - M. De Meyer
- Royal Museum for Central Africa (BopCo & Biology Department)TervurenBelgium
| | - T. Backeljau
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service)BrusselsBelgium
- Evolutionary Ecology GroupUniversity of AntwerpAntwerpBelgium
| | - R. Müller
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
| | - W. Van Bortel
- The Unit of Entomology, Department of Biomedical SciencesInstitute of Tropical MedicineAntwerpBelgium
- Outbreak Research TeamInstitute of Tropical MedicineAntwerpBelgium
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3
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Smitz N, De Wolf K, Deblauwe I, Kampen H, Schaffner F, De Witte J, Schneider A, Verlé I, Vanslembrouck A, Dekoninck W, Meganck K, Gombeer S, Vanderheyden A, De Meyer M, Backeljau T, Werner D, Müller R, Van Bortel W. Population genetic structure of the Asian bush mosquito, Aedes japonicus (Diptera, Culicidae), in Belgium suggests multiple introductions. Parasit Vectors 2021; 14:179. [PMID: 33766104 PMCID: PMC7995749 DOI: 10.1186/s13071-021-04676-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Accepted: 03/09/2021] [Indexed: 12/31/2022] Open
Abstract
BACKGROUND Aedes japonicus japonicus has expanded beyond its native range and has established in multiple European countries, including Belgium. In addition to the population located at Natoye, Belgium, locally established since 2002, specimens were recently collected along the Belgian border. The first objective of this study was therefore to investigate the origin of these new introductions, which were assumed to be related to the expansion of the nearby population in western Germany. Also, an intensive elimination campaign was undertaken at Natoye between 2012 and 2015, after which the species was declared to be eradicated. This species was re-detected in 2017, and thus the second objective was to investigate if these specimens resulted from a new introduction event and/or from a few undetected specimens that escaped the elimination campaign. METHODS Population genetic variation at nad4 and seven microsatellite loci was surveyed in 224 and 68 specimens collected in Belgium and Germany, respectively. German samples were included as reference to investigate putative introduction source(s). At Natoye, 52 and 135 specimens were collected before and after the elimination campaign, respectively, to investigate temporal changes in the genetic composition and diversity. RESULTS At Natoye, the genotypic microsatellite make-up showed a clear difference before and after the elimination campaign. Also, the population after 2017 displayed an increased allelic richness and number of private alleles, indicative of new introduction(s). However, the Natoye population present before the elimination programme is believed to have survived at low density. At the Belgian border, clustering results suggest a relation with the western German population. Whether the introduction(s) occur via passive human-mediated ground transport or, alternatively, by natural spread cannot be determined yet from the dataset. CONCLUSION Further introductions within Belgium are expected to occur in the near future, especially along the eastern Belgian border, which is at the front of the invasion of Ae. japonicus towards the west. Our results also point to the complexity of controlling invasive species, since 4 years of intense control measures were found to be not completely successful at eliminating this exotic at Natoye.
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Affiliation(s)
- Nathalie Smitz
- Royal Museum for Central Africa (BopCo & Biology Department), Leuvensesteenweg 17, 3080, Tervuren, Belgium.
| | - Katrien De Wolf
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Isra Deblauwe
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Helge Kampen
- Friedrich Loeffler Institut, Federal Research Institute for Animal Health, Südufer 10, 17493, Greifswald-Insel Riems, Germany
| | | | - Jacobus De Witte
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Anna Schneider
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Ingrid Verlé
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Adwine Vanslembrouck
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium.,Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service), Vautierstraat 29, 1000, Brussels, Belgium
| | - Wouter Dekoninck
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service), Vautierstraat 29, 1000, Brussels, Belgium
| | - Kenny Meganck
- Royal Museum for Central Africa (BopCo & Biology Department), Leuvensesteenweg 17, 3080, Tervuren, Belgium
| | - Sophie Gombeer
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service), Vautierstraat 29, 1000, Brussels, Belgium
| | - Ann Vanderheyden
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service), Vautierstraat 29, 1000, Brussels, Belgium
| | - Marc De Meyer
- Royal Museum for Central Africa (BopCo & Biology Department), Leuvensesteenweg 17, 3080, Tervuren, Belgium
| | - Thierry Backeljau
- Royal Belgian Institute of Natural Sciences (BopCo & Scientific Heritage Service), Vautierstraat 29, 1000, Brussels, Belgium.,Evolutionary Ecology Group, University of Antwerp, Universiteitsplein 1, 2610, Antwerp, Belgium
| | - Doreen Werner
- Leibniz Centre for Agricultural Landscape Research, Eberswalder Straße 84, 15374, Müncheberg, Germany
| | - Ruth Müller
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
| | - Wim Van Bortel
- The Unit of Entomology, Department of Biomedical Sciences, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium.,Outbreak Research Team, Institute of Tropical Medicine, Nationalestraat 155, 2000, Antwerp, Belgium
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Antolínez CA, Moreno A, Ontiveros I, Pla S, Plaza M, Sanjuan S, Palomo JL, Sjölund MJ, Sumner-Kalkun JC, Arnsdorf YM, Jeffries CJ, Ouvrard D, Fereres A. Seasonal Abundance of Psyllid Species on Carrots and Potato Crops in Spain. INSECTS 2019; 10:insects10090287. [PMID: 31500212 PMCID: PMC6780054 DOI: 10.3390/insects10090287] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/04/2019] [Revised: 08/29/2019] [Accepted: 09/02/2019] [Indexed: 11/17/2022]
Abstract
Psyllids (Hemiptera: Psylloidea) can transmit the phloem restricted bacterium ‘Candidatus Liberibacter solanacearum’ (Lso). In Europe, Lso causes severe losses to carrot and represents a threat to the potato industry. A rising concern is Lso transmission from carrot to potato and within potato, and this has driven the need for monitoring populations of psyllid species which could serve as vectors on both crops. This would provide a fundamental understanding of the epidemiology of Lso. Different sampling methods were used to survey populations of psyllid species in commercial carrot and potato fields in central and eastern mainland Spain from 2015 to 2017. Two psyllid species, Bactericeratrigonica and Bactericeranigricornis were found on carrot and potato crops. In carrot fields the most abundant species was B.trigonica (occurring from crop emergence to harvest); whereas in potato crops the most abundant psyllid species was B.nigricornis. Depending on field location, the maximum psyllid populations occurred between June and October. Since B.nigricornis was found on both carrot and potato and is the only psyllid species able to feed and reproduce on both these crops in Europe, there is the potential risk of Lso transmission from carrot to potato.
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Affiliation(s)
- Carlos A Antolínez
- Facultad de Ciencias Exactas, Naturales y Agropecuarias, Grupo de Investigación Agroambiente y Salud-Microbiota Universidad de Santander, 680003 Bucaramanga, Colombia
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain
| | - Aranzazu Moreno
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain
| | - Irene Ontiveros
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain
| | - Sandra Pla
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain
| | - María Plaza
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain
| | - Susana Sanjuan
- Agricola Villena, Carretera del Puerto, S/N 3400 Villena, Spain
| | - José L Palomo
- Centro Regional de Diagnostico, Junta de Castilla y León, 37340 Salamanca, Spain
| | | | | | | | | | - David Ouvrard
- Department of Life Sciences, Natural History Museum, Cromwell Road, London SW7 5BD, UK
| | - Alberto Fereres
- Instituto de Ciencias Agrarias (ICA, CSIC), Consejo Superior de Investigaciones Científicas (CSIC), C/Serrano 115 Dpdo, 28006 Madrid, Spain.
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Karthika P, Vadivalagan C, Thirumurugan D, Murugan K. Intra-species variation and geographic differentiation among the populations of the quarantine agricultural pest leucinoides orbonalis (lepidoptera: Crambidae) in the global assemblage - a prospective of DNA barcoding. Mitochondrial DNA A DNA Mapp Seq Anal 2019; 30:682-693. [PMID: 31181977 DOI: 10.1080/24701394.2019.1622691] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
Leucinodes orbonalis Guenée is serious quarantine pest occurring globally, studies are needed to enlighten the genetic complexities associated with the species. India is considered to be the origin of the L. orbonalis, therefore availability of species records from this region enable to analyse the genetic differences and dispersal of the lineages. The results of the study reported 47 haplotypes in four clusters pertaining to their ancestral lineage. The transition/transversion bias (R) was observed to be higher with 1.238 and 1.312 in the first and third codon positions respectively. The overall intraspecies divergence was found to be 0.302. AMOVA revealed that the total variations were then as reported 67.15 among the south-east countries but our studies reported the total variation to be 77.25% (Germany, India, South east and Australia). FST and Mantel's test indicated that there was no correlation between the genetic variation and geographical distance. The overall haplotype diversity was 0.852, where the nucleotide diversity of H31 (0.00593) was highest and H1 (0.00087) was lowest. The genetic diversity indices Tajima D and Fu's Fs static for H1, H13 and H31 had negative values which possibly inferred for the bottle neck effect. The ML tree was constituted the branch length of 5.0157 with one out-group. The tree was formed with ten distinctive clades with the haplotypes congregated together based on similar genetic composition.
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Affiliation(s)
- Pushparaj Karthika
- a Department of Zoology, School of Biosciences , Avinashilingam Institute for Home Science and Higher Education for Women , Coimbatore , India
| | - Chithravel Vadivalagan
- b Entomology Laboratory, Department of Zoology , Bharathiar University , Coimbatore , India
| | - Durairaj Thirumurugan
- c Department of Biotechnology , SRM Institute of Science and Technology , Kattankulathur , India
| | - Kadarkarai Murugan
- b Entomology Laboratory, Department of Zoology , Bharathiar University , Coimbatore , India
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Hodgetts J, Ostojá-Starzewski JC, Prior T, Lawson R, Hall J, Boonham N. DNA barcoding for biosecurity: case studies from the UK plant protection program. Genome 2016; 59:1033-1048. [PMID: 27792411 DOI: 10.1139/gen-2016-0010] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Since its conception, DNA barcoding has seen a rapid uptake within the research community. Nevertheless, as with many new scientific tools, progression towards the point of routine deployment within diagnostic laboratories has been slow. In this paper, we discuss the application of DNA barcoding in the Defra plant health diagnostic laboratories, where DNA barcoding is used primarily for the identification of invertebrate pests. We present a series of case studies that demonstrate the successful application of DNA barcoding but also reveal some potential limitations to expanded use. The regulated plant pest, Bursephalenchus xylophilus, and one of its vectors, Monochamus alternatus, were found in dining chairs. Some traded wood products are potentially high risk, allowing the movement of longhorn beetles; Trichoferus campestris, Leptura quadrifasciata, and Trichoferus holosericeus were found in a wooden cutlery tray, a railway sleeper, and a dining chair, respectively. An outbreak of Meloidogyne fallax was identified in Allium ampeloprasum and in three weed species. Reference sequences for UK native psyllids were generated to enable the development of rapid diagnostics to be used for monitoring following the release of Aphalara itadori as a biological control agent for Fallopia japonica.
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Affiliation(s)
- Jennifer Hodgetts
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
| | - Jozef C Ostojá-Starzewski
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
| | - Thomas Prior
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
| | - Rebecca Lawson
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
| | - Jayne Hall
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
| | - Neil Boonham
- Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom.,Fera, The National Agri-Food Innovation Campus, Sand Hutton, York, YO41 1LZ, United Kingdom
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Ashfaq M, Hebert PDN. DNA barcodes for bio-surveillance: regulated and economically important arthropod plant pests. Genome 2016; 59:933-945. [PMID: 27753511 DOI: 10.1139/gen-2016-0024] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Many of the arthropod species that are important pests of agriculture and forestry are impossible to discriminate morphologically throughout all of their life stages. Some cannot be differentiated at any life stage. Over the past decade, DNA barcoding has gained increasing adoption as a tool to both identify known species and to reveal cryptic taxa. Although there has not been a focused effort to develop a barcode library for them, reference sequences are now available for 77% of the 409 species of arthropods documented on major pest databases. Aside from developing the reference library needed to guide specimen identifications, past barcode studies have revealed that a significant fraction of arthropod pests are a complex of allied taxa. Because of their importance as pests and disease vectors impacting global agriculture and forestry, DNA barcode results on these arthropods have significant implications for quarantine detection, regulation, and management. The current review discusses these implications in light of the presence of cryptic species in plant pests exposed by DNA barcoding.
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Affiliation(s)
- Muhammad Ashfaq
- Centre for Biodiversity Genomics, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON N1G 2W1, Canada.,Centre for Biodiversity Genomics, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON N1G 2W1, Canada
| | - Paul D N Hebert
- Centre for Biodiversity Genomics, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON N1G 2W1, Canada.,Centre for Biodiversity Genomics, Biodiversity Institute of Ontario, University of Guelph, Guelph, ON N1G 2W1, Canada
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Muhammad Tahir H, Akhtar S. Services of DNA barcoding in different fields. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:4463-4474. [DOI: 10.3109/19401736.2015.1089572] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
| | - Samreen Akhtar
- Department of Zoology, University of Sargodha, Sargodha, Pakistan
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