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Het OWA, het open archief van het Waterbouwkundig Laboratorium heeft tot doel alle vrij toegankelijke onderzoeksresultaten van dit instituut in digitale vorm aan te bieden. Op die manier wil het de zichtbaarheid, verspreiding en gebruik van deze onderzoeksresultaten, alsook de wetenschappelijke communicatie maximaal bevorderen.

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one publication added to basket [200852]

Exploring the use of cytochrome oxidase c Subunit 1 (COI) for DNA barcoding of free-living marine nematodes Derycke, S.; Vanaverbeke, J.; Rigaux, A.; Backeljau, T.; Moens, T. (2010). Exploring the use of cytochrome oxidase c Subunit 1 (COI) for DNA barcoding of free-living marine nematodes. PLoS One 5(10): e13716. dx.doi.org/10.1371/journal.pone.0013716 In: PLoS One. Public Library of Science: San Francisco. ISSN 1932-6203; e-ISSN 1932-6203, meer

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Beschikbaar in	Auteurs
VLIZ: Open access 216874 [ download pdf ]

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Trefwoorden

Enzymes > Coenzymes > Cytochromes Identification Nematoda [WoRMS] ANE, België, Nieuwpoort [Marine Regions]; ANE, Nederland, Westerschelde [Marine Regions] Marien/Kust

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Auteurs		Top
Derycke, S., meer Vanaverbeke, J., meer Rigaux, A., meer	Backeljau, T., meer Moens, T., meer

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Abstract

BackgroundThe identification of free-living marine nematodes is difficult because of the paucity of easily scorable diagnostic morphological characters. Consequently, molecular identification tools could solve this problem. Unfortunately, hitherto most of these tools relied on 18S rDNA and 28S rDNA sequences, which often lack sufficient resolution at the species level. In contrast, only a few mitochondrial COI data are available for free-living marine nematodes. Therefore, we investigate the amplification and sequencing success of two partitions of the COI gene, the M1-M6 barcoding region and the I3-M11 partition.MethodologyBoth partitions were analysed in 41 nematode species from a wide phylogenetic range. The taxon specific primers for the I3-M11 partition outperformed the universal M1-M6 primers in terms of amplification success (87.8% vs. 65.8%, respectively) and produced a higher number of bidirectional COI sequences (65.8% vs 39.0%, respectively). A threshold value of 5% K2P genetic divergence marked a clear DNA barcoding gap separating intra- and interspecific distances: 99.3% of all interspecific comparisons were >0.05, while 99.5% of all intraspecific comparisons were <0.05 K2P distance.ConclusionThe I3-M11 partition reliably identifies a wide range of marine nematodes, and our data show the need for a strict scrutiny of the obtained sequences, since contamination, nuclear pseudogenes and endosymbionts may confuse nematode species identification by COI sequences

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