Éditeur(s) : HAL CCSD Wiley/Blackwell
Résumé : International audience
Photosynthetic eukaryotes have a critical role as the main producers in most ecosystems of the biosphere. The ongoing environmental metabarcoding revolution opens the perspective for holistic ecosystems biological studies of these organisms, in particular the unicellular microalgae that often lack distinctive morphological characters and have complex life cycles. To interpret environmental sequences, metabarcoding necessarily relies on taxonomically curated databases containing reference sequences of the targeted gene (or barcode) from identified organisms. To date, no such reference framework exists for photosynthetic eukaryotes. In this study, we built the PhytoREF database that contains 6490 plastidial 16S rDNA reference sequences that originate from a large diversity of eukaryotes representing all known major photosynthetic lineages. We compiled 3333 amplicon sequences available from public databases and 879 sequences extracted from plastidial genomes, and generated 411 novel sequences from cultured marine microalgal strains belonging to different eukaryotic lineages. A total of 1867 environmental Sanger 16S rDNA sequences were also included in the database. Stringent quality filtering and a phylogeny-based taxonomic classification were applied for each 16S rDNA sequence. The database mainly focuses on marine microalgae, but sequences from land plants (representing half of the PhytoREF sequences) and freshwater taxa were also included to broaden the applicability of PhytoREF to different aquatic and terrestrial habitats. PhytoREF, accessible via a web interface (http://phytoref.fr), is a new resource in molecular ecology to foster the discovery, assessment and monitoring of the diversity of photosynthetic eukaryotes using high-throughput sequencing.
ISSN: 1755-098X

hal-01149047
http://hal.upmc.fr/hal-01149047
http://hal.upmc.fr/hal-01149047/document
http://hal.upmc.fr/hal-01149047/file/Decelle_2015_PhytoREF.pdf
DOI : 10.1111/1755-0998.12401

Éditeur(s) : HAL CCSD
Résumé : International audience
This paper deals with a comparison of different colour space in order to improve high resolution images classification. The background of this study is the measure of the agriculture impact on the environment in islander context. Biodiversity is particularly sensitive and relevant in such areas and the follow-up of the forest front is a way to ensure its preservation. Very high resolution satellite images are used such as QuickBird and IKONOS scenes. In order to segment the images into forest and agriculture areas, we characterize both ground covers with colour and texture features. A classical unsupervised classifier is then used to obtain labelled areas. As features are computed on coloured images, we can wonder if the colour space choice is relevant. This study has been made considering more than fourteen colour spaces (RGB, YUV, Lab, YIQ, YCrCs, XYZ, CMY, LMS, HSL, KLT, IHS, I1I2I3, HSV, HSI, etc.) and shows the visual and quantitative superiority of IHS on all others. For conciseness reasons, results only show RGB, I1I2I3 and IHS colour spaces.
SPIE Remote Sensing Proceedings
Cardiff, United Kingdom

hal-00602277
https://hal.archives-ouvertes.fr/hal-00602277