Benthic communities, biogeography and resources management, vol.70, pp.455-492, 2004. ,
DOI : 10.1016/s0422-9894(04)80056-4
Genomics in marine monitoring: New opportunities for assessing marine health status, Marine Pollution Bulletin, vol.74, pp.19-31, 2013. ,
DOI : 10.1016/j.marpolbul.2013.05.042
URL : https://doi.org/10.1016/j.marpolbul.2013.05.042
Metabarcoding reveals environmental factors influencing spatiotemporal variation in pelagic micro-eukaryotes, Molecular Ecology, vol.25, pp.3593-3604, 2016. ,
DOI : 10.1111/mec.13709
Metabarcoding of marine zooplankton: Prospects, progress and pitfalls, Journal of Plankton Research, vol.38, pp.393-400, 2016. ,
DOI : 10.1093/plankt/fbw023
URL : https://academic.oup.com/plankt/article-pdf/38/3/393/10831127/fbw023.pdf
QIIME allows analysis of high-throughput community sequencing data, Nature Methods, vol.7, pp.335-336, 2010. ,
Metagenetic tools for the census of marine meiofaunal biodiversity: An overview, Marine Genomics, vol.24, pp.11-20, 2015. ,
Non-parametric multivariate analyses of changes in community structure, Australian Journal of Ecology, vol.18, pp.117-143, 1993. ,
, PRIMER v7: User manual/tutorial, pp.PRIMER-E, 2015.
Change in marine communities: An approach to statistical analysis and interpretation, pp.PRIMER-E, 2014. ,
Metabarcoding is powerful yet still blind: A comparative analysis of morphological and molecular surveys of seagrass communities, PLoS One, vol.10, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-01840066
From barcoding single individuals to metabarcoding biological communities: Towards an integrative approach to the study of global biodiversity, Trends in Ecology and Evolution, vol.29, pp.566-571, 2014. ,
Implementing and innovating marine monitoring approaches for assessing marine environmental status, Frontiers in Marine Science, vol.3, p.213, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01448726
Eukaryotic plankton diversity in the sunlit ocean, Science, vol.348, pp.1-12, 2015. ,
DNA metabarcoding and the cytochrome c oxidase subunit I marker: Not a perfect match, Biology Letters, vol.10, 2014. ,
Environmental DNA metabarcoding: Transforming how we survey animal and plant communities, Molecular Ecology, vol.26, pp.5872-5895, 2017. ,
Unveiling the biodiversity of deep-sea nematodes through metabarcoding: Are we ready to bypass the classical taxonomy, PLoS One, vol.10, 2015. ,
Search and clustering orders of magnitude faster than BLAST, Bioinformatics, vol.26, pp.2460-2461, 2010. ,
Can DNA-based ecosystem assessments quantify species abundance? Testing primer bias and biomasssequence relationships with an innovative metabarcoding protocol, PLoS One, vol.10, 2015. ,
Sorting things out: Assessing effects of unequal specimen biomass on DNA metabarcoding, Ecology and Evolution, vol.7, pp.6918-6926, 2017. ,
Power-cost efficiency of eight macrobenthic sampling schemes in Puget Sound, Canadian Journal of Fisheries and Aquatic Sciences, vol.46, pp.2157-2165, 1989. ,
Quelques remarques bionomiques sur la côte basque française et espagnole, Bulletin du Laboratoire Maritime Saint Servan, vol.14, pp.1-14, 1935. ,
Geographical variation in species diversity: A comparison of marine polychaetes and nematodes, Journal of Experimental Marine Biology and Ecology, vol.330, pp.234-244, 2006. ,
Biodiversity and ecology of the Bulgarian Black Sea invertebrates, Biogeography and Ecology of Bulgaria, vol.82, pp.537-554, 2007. ,
Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA. PeerJ, 4, e2807, 2016. ,
Predicted levels of future ocean acidification and temperature rise could alter community structure and biodiversity in marine benthic communities, Oikos, vol.120, pp.661-674, 2011. ,
Implementation options for DNA-based identification into ecological status assessment under the European Water Framework Directive, Water Research, vol.138, pp.192-205, 2018. ,
DOI : 10.1016/j.watres.2018.03.003
Reliable, verifiable and efficient monitoring of biodiversity via metabarcoding, Ecology Letters, vol.16, pp.1245-1257, 2013. ,
DOI : 10.1111/ele.12162
Genetic and manual survey methods yield different and complementary views of an ecosystem, Frontiers in Marine Science, vol.3, p.283, 2017. ,
DOI : 10.3389/fmars.2016.00283
URL : https://www.frontiersin.org/articles/10.3389/fmars.2016.00283/pdf
The biogeography of islands; preliminary results from a comparative study of the Isles of Scilly and Cornwall, Journal of the Marine Biological Association of the United Kingdom, vol.76, pp.219-222, 1996. ,
Sibling species in the sea, Annual Review of Ecology and Systematics, vol.24, pp.189-216, 1993. ,
DOI : 10.1146/annurev.ecolsys.24.1.189
Molecular genetic analysis of species boundaries in the sea, Hydrobiologia, vol.420, pp.73-90, 2000. ,
High-throughput sequencing and morphology perform equally well for benthic monitoring of marine systems, Scientific Reports, vol.5, p.13932, 2015. ,
DOI : 10.1038/srep13932
URL : https://www.nature.com/articles/srep13932.pdf
DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversity, Proceedings of the National Academy of Sciences of the United States of America, vol.112, pp.2076-2081, 2015. ,
A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: Application for characterizing coral reef fish gut contents, Frontiers in Zoology, vol.10, 2013. ,
URL : https://hal.archives-ouvertes.fr/hal-01268031
The problems and promise of DNA barcodes for species diagnosis of primate biomaterials, Philosophical Transactions of the Royal Society B, vol.360, pp.1869-1877, 2005. ,
Molecular and morphological methods for identifying plankton: What makes a successful marriage?, Journal of Plankton Research, vol.31, pp.1119-1129, 2009. ,
The keystone species concept: Variation in interaction strength in a rocky intertidal habitat, Ecological Monographs, vol.64, pp.249-286, 1994. ,
Climatic variation alters supply-side ecology: Impact of climate patterns on phytoplankton and mussel recruitment, Ecological Monographs, vol.79, pp.379-395, 2009. ,
DOI : 10.1890/08-2086.1
URL : http://sonoma-dspace.calstate.edu/bitstream/10211.1/795/1/nielson_climatic.pdf
Inter-hemispheric comparison of bottom-up effects on community structure: Insights revealed using the comparative-experimental approach, Ecological Research, vol.17, pp.1-16, 2002. ,
Status of biodiversity in the Baltic Sea, PLoS One, vol.5, 2010. ,
vegan: Community Ecology Package. R package version 2.4-0, 2016. ,
Intertidal community structure. Experimental studies on the relationship between a dominant competitor and its principal predator, Oecologia, vol.15, pp.93-120, 1974. ,
DOI : 10.1007/bf00345739
European Marine Biodiversity Monitoring Networks: Strengths, weaknesses, opportunities and threats, Frontiers in Marine Science, vol.3, p.161, 2016. ,
Please mind the gap-visual census and cryptic biodiversity assessment at central Red Sea coral reefs, Marine Environmental Research, vol.118, pp.20-30, 2016. ,
DOI : 10.1016/j.marenvres.2016.04.011
URL : https://doi.org/10.1016/j.marenvres.2016.04.011
Cross-shelf investigation of coral reef cryptic benthic organisms reveals diversity patterns of the hidden majority, Scientific Reports, vol.8, p.8090, 2018. ,
Cryptic animal species are homogeneously distributed among taxa and biogeographical regions, BMC Evolutionary Biology, vol.7, 2007. ,
DOI : 10.1186/1471-2148-7-121
URL : https://bmcevolbiol.biomedcentral.com/track/pdf/10.1186/1471-2148-7-121
Automated high throughput animal COI metabarcode classification, Scientific Reports, vol.8, p.4226, 2018. ,
DOI : 10.1038/s41598-018-22505-4
URL : https://www.nature.com/articles/s41598-018-22505-4.pdf
R: A language and environment for statistical computing, R Foundation for Statistical Computing, 2016. ,
BOLD: The barcode of life data system (www.barcodinglife.org), Molecular Ecology Notes, vol.7, pp.355-364, 2007. ,
Introducing mothur: Opensource, platform-independent, community-supported software for describing and comparing microbial communities, Applied and Environmental Microbiology, vol.75, pp.7537-7541, 2009. ,
DOI : 10.1128/aem.01541-09
URL : https://aem.asm.org/content/75/23/7537.full.pdf
Towards next-generation biodiversity assessment using DNA metabarcoding, Molecular Ecology, vol.21, pp.2045-2050, 2012. ,
Early development of subtidal macrofaunal assemblages: Relationships to period and timing of colonization, Journal of Experimental Marine Biology and Ecology, vol.330, pp.221-233, 2006. ,
Naïve Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Applied and Environmental Microbiology, vol.73, pp.5261-5267, 2007. ,
Biodiversity soup: Metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring, Methods in Ecology and Evolution, vol.3, pp.613-623, 2012. ,
Marine biological diversity in the Black Sea. A study of change and decline. GEF Black Sea Environmental Series, 1997. ,