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• W3108238456 abstract "Abstract Background Over the last decade, the rapid development of high-throughput sequencing platforms has accelerated species description and assisted morphological classification through DNA barcoding. However, the current high-throughput DNA barcoding methods cannot obtain full-length barcode sequences due to read length limitations (e.g. a maximum read length of 300 bp for the Illumina’s MiSeq system), or are hindered by a relatively high cost or low sequencing output (e.g. a maximum number of eight million reads per cell for the PacBio’s SEQUEL II system). Results Pooled cytochrome c oxidase subunit I ( COI ) barcodes from individual specimens were sequenced on the MGISEQ-2000 platform using the single-end 400 bp (SE400) module. We present a bioinformatic pipeline, HIFI-SE, that takes reads generated from the 5′ and 3′ ends of the COI barcode region and assembles them into full-length barcodes. HIFI-SE is written in Python and includes four function modules of filter , assign , assembly and taxonomy . We applied the HIFI-SE to a set of 845 samples (30 marine invertebrates, 815 insects) and delivered a total of 747 fully assembled COI barcodes as well as 70 Wolbachia and fungi symbionts. Compared to their corresponding Sanger sequences (72 sequences available), nearly all samples (71/72) were correctly and accurately assembled, including 46 samples that had a similarity score of 100% and 25 of ca. 99%. Conclusions The HIFI-SE pipeline represents an efficient way to produce standard full-length barcodes, while the reasonable cost and high sensitivity of our method can contribute considerably more DNA barcodes under the same budget. Our method thereby advances DNA-based species identification from diverse ecosystems and increases the number of relevant applications." @default.
• W3108238456 created "2020-12-07" @default.
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• W3108238456 date "2020-12-01" @default.
• W3108238456 modified "2023-10-11" @default.
• W3108238456 title "Efficient COI barcoding using high throughput single-end 400 bp sequencing" @default.
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• W3108238456 cites W1843008321 @default.
• W3108238456 cites W1846666898 @default.
• W3108238456 cites W1963710629 @default.
• W3108238456 cites W1964064534 @default.
• W3108238456 cites W1965466602 @default.
• W3108238456 cites W1973950074 @default.
• W3108238456 cites W1974635744 @default.
• W3108238456 cites W1974939451 @default.
• W3108238456 cites W1977321866 @default.
• W3108238456 cites W1979060637 @default.
• W3108238456 cites W1981839438 @default.
• W3108238456 cites W1987061647 @default.
• W3108238456 cites W1997246534 @default.
• W3108238456 cites W2011557653 @default.
• W3108238456 cites W2014694676 @default.
• W3108238456 cites W2038158367 @default.
• W3108238456 cites W2044906750 @default.
• W3108238456 cites W2051569068 @default.
• W3108238456 cites W2063008800 @default.
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• W3108238456 cites W2063994095 @default.
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• W3108238456 cites W2098869000 @default.
• W3108238456 cites W2099901798 @default.
• W3108238456 cites W2101120467 @default.
• W3108238456 cites W2101658538 @default.
• W3108238456 cites W2103441770 @default.
• W3108238456 cites W2104337387 @default.
• W3108238456 cites W2111647009 @default.
• W3108238456 cites W2112284944 @default.
• W3108238456 cites W2114703217 @default.
• W3108238456 cites W2117457769 @default.
• W3108238456 cites W2119663666 @default.
• W3108238456 cites W2122421045 @default.
• W3108238456 cites W2128880918 @default.
• W3108238456 cites W2132926880 @default.
• W3108238456 cites W2133946740 @default.
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• W3108238456 cites W2142678478 @default.
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• W3108238456 cites W2167431598 @default.
• W3108238456 cites W2314657102 @default.
• W3108238456 cites W2512939464 @default.
• W3108238456 cites W2513506562 @default.
• W3108238456 cites W2636150609 @default.
• W3108238456 cites W2741650499 @default.
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• W3108238456 cites W2765449108 @default.
• W3108238456 cites W2775344422 @default.
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• W3108238456 doi "https://doi.org/10.1186/s12864-020-07255-w" @default.
• W3108238456 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/7716423" @default.
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• W3108238456 hasPublicationYear "2020" @default.
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