Microeukaryotes have vital roles for the functioning of marine ecosystems, but still some general characteristics of their current diversity and phylogeny remain unclear. Here we investigated both aspects in major oceanic microeukaryote lineages using 18S rDNA (V4-V5 hypervariable regions) sequences from public databases that derive from various marine environmental surveys. A very carefully an...

Despite the important role of phages in marine systems, little is understood about how their diversity is distributed in space. Biogeographic patterns of marine phages may be difficult to detect due to their vast genetic diversity, which may not be accurately represented by conserved marker genes. To investigate the spatial biogeographic structure of marine phages, we isolated over 400 cyanopha...

The abundance of both taxonomic groups and gene categories in microbiome samples can now be easily assayed via various sequencing technologies, and visualized using a variety of software tools. However, the assemblage of taxa in the microbiome and its gene content are clearly linked, and tools for visualizing the relationship between these two facets of microbiome composition and for facilitati...

In this paper we analyse the degree of concordance in species richness and taxonomic distinctness (diversity) patterns among different freshwater taxonomic groups in order to test three long held patterns described in Mexican freshwater biogeography: 1. The aquatic biota of Mexico includes two distinct faunas, a rich Neotropical component in the south and a south-eastern region and a less rich ...

MOTIVATION Establishment of a statistical association between microbiome features and clinical outcomes is of growing interest because of the potential for yielding insights into biological mechanisms and pathogenesis. Extracting microbiome features that are relevant for a disease is challenging and existing variable selection methods are limited due to large number of risk factor variables fro...

The rapidly emerging field of metagenomics seeks to examine the genomic content of communities of organisms to understand their roles and interactions in an ecosystem. In this paper we focus on clustering methods and their application to taxonomic analysis of metagenomic data. Clustering analysis for metagenomics amounts to group similar partial sequences, such as raw sequence reads, into clust...

The normal and lateral line cycloid scales of a cyprinid fish Rutilus frisii kutum Kamenskii, 1901 have been subjected to scanning electron microscopy technique to study their detailed structure. The scales have the general morphological characteristics of the cycloid scales. In the normal scale located below the dorsal fin, the focus lies on the anterior region with few mucous pores. There is ...

Assessing the ecological status, a concept implemented in the European Water Framework Directive [EC, 2000. Directive of the European Parliament and of the Council 2000/60/EC establishing a framework for community action in the field of water policy PE-CONS 3639/1/00, p. 72], requires the application of methods capable of distinguishing different levels of ecological quality. The Average Taxono...