Development of internal COI primers to improve and extend barcoding of fruit flies (Diptera: Tephritidae: Dacini).

Autor: Krosch MN; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Plant Biosecurity Co-operative Research Centre, Bruce, Australian Capital Territory, Australia., Strutt F; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Plant Biosecurity Co-operative Research Centre, Bruce, Australian Capital Territory, Australia., Blacket MJ; Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Victoria, Australia., Batovska J; Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora, Victoria, Australia., Starkie M; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia., Clarke AR; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia., Cameron SL; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Plant Biosecurity Co-operative Research Centre, Bruce, Australian Capital Territory, Australia.; Department of Entomology, Purdue University, West Lafayette, Indiana, USA., Schutze MK; School of Earth, Environmental & Biological Sciences, Queensland University of Technology, Brisbane, Queensland, Australia.; Plant Biosecurity Co-operative Research Centre, Bruce, Australian Capital Territory, Australia.; Department of Agriculture & Fisheries, Queensland Primary Industries Insect Collection (QDPC), Dutton Park, Queensland, Australia.
Jazyk: angličtina
Zdroj: Insect science [Insect Sci] 2020 Feb; Vol. 27 (1), pp. 143-158. Date of Electronic Publication: 2018 Jul 24.
DOI: 10.1111/1744-7917.12612
Abstrakt: 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). We addressed these issues associated with COI barcoding in the dacines by first assessing several "universal" COI primers against public mitochondrial genome and numt sequences for dacine taxa. We then modified a set of four primers that more closely matched true dacine COI sequence and amplified two overlapping portions of the COI barcode region. Our new primers were tested alongside universal primers on a selection of dacine species, including both fresh preserved and decades-old dry specimens. Additionally, Bactrocera tryoni mitochondrial and nuclear genomes were compared to identify putative numts. Four numt clades were identified, three of which were amplified using existing universal primers. In contrast, our new primers preferentially amplified the "true" mitochondrial COI barcode in all dacine species tested. The new primers also successfully amplified partial barcodes from dry specimens for which full length barcodes were unobtainable. Thus we recommend these new primers be incorporated into the suites of primers used by diagnosticians and quarantine labs for the accurate identification of dacine species.
(© 2018 Institute of Zoology, Chinese Academy of Sciences.)
Databáze: MEDLINE
Externí odkaz:
Nepřihlášeným uživatelům se plný text nezobrazuje