Cytochrome c oxidase barcodes for aquatic oligochaete identification: development of a Swiss reference database

Régis Vivien 1 Maria Holzmann 2 Inge Werner 1 Jan Pawlowski 2 Michel Lafont 3 Benoît J.D. Ferrari 1
1 Swiss Centre for Applied Ecotoxicology Eawag-EPFL
2 Department of Genetics and Evolution [Genève]
3 LEHNA - Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés
Abstract : Introduction. Aquatic oligochaetes represent valuable indicators of the quality of sediments of watercourses and lakes, but their difficult identification based on mor- phological criteria compromises their more common use for eco-diagnostic analyses. This issue could be overcome by using DNA barcodes for species identification. A 10% threshold of cytochrome c oxidase (COI) divergence was proposed for differentiating between oligochaete species based on molecular and morphological data. A Swiss database of COI sequences of aquatic oligochaetes was initiated in 2012. The aim of this study is to complement the Swiss oligochaete database of COI sequences and to confirm the relevance of this threshold for species delimitation. Methods. We sequenced the COI sequence of 216 specimens collected in different regions of Switzerland and ITS2 region of some lineages whose delimitation with COI data was doubtful. Results. We distinguished 53 lineages, among which 34 were new for Switzerland and 17 sequenced for the first time. All the lineages were separated by more than 10% of COI variation, with the exception of some species within Nais and Uncinais. In these two genera, the threshold was lowered to 8% to be congruent with the morphological analysis. The total number of lineages reported so far for Switzerland is 75, including 59 morphospecies or unidentified species and 16 cryptic species. Discussion. Our study shows that the threshold of 10% of COI divergence is generally appropriate to distinguish aquatic oligochaete lineages, but that it must be adjusted for some species. The database reported here will be complemented in the future in parallel to the development of genetic oligochaete indices.
Keywords : Biomonitoring DNAbarcoding Aquaticoligochaetes Geneticdiversity
Document type :
Journal articles
Complete list of metadatas
https://hal-sde.archives-ouvertes.fr/hal-01703139
Contributor : Nathalie Lyvet <>
Submitted on : Wednesday, February 7, 2018 - 3:08:49 PM
Last modification on : Thursday, April 19, 2018 - 2:28:02 PM

Links full text

openaccess

Identifiers

Collections

UNIV-LYON1 | INRA | BIOENVIS | ENTPE

Citation

Régis Vivien, Maria Holzmann, Inge Werner, Jan Pawlowski, Michel Lafont, et al.. Cytochrome c oxidase barcodes for aquatic oligochaete identification: development of a Swiss reference database. PeerJ, PeerJ, 2017, 5:e4122, pp.1-16. ⟨10.7717/peerj.4122⟩. ⟨hal-01703139⟩

Export

BibTeX TEI DC DCterms EndNote

Share

Metrics

Record views

89

Contact

support.ccsd.cnrs.fr
hal.support@ccsd.cnrs.fr
Logo CCSD