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microbiology
4 downloads
41 views

Synaptic exocytosis requires the assembly of syntaxin 1A and SNAP-25 on the plasma membrane and synaptobrevin 2 (VAMP2) on the vesicular membrane to bridge the two opposite membranes. It is believed that the three SNARE proteins assemble in steps along the dynamic...

["Biochemistry","Biophysics","Microbiology","Neuroscience"]
doi:10.7717/peerj.1065
341 downloads
3,043 views

The increased availability of genomic and metagenomic data poses challenges at multiple analysis levels, including visualization of very large-scale microbial and microbial community data paired with rich metadata. We developed GraPhlAn (Graphical Phylogenetic...

["Bioinformatics","Computational Biology","Genomics","Microbiology"]
doi:10.7717/peerj.1029
111 downloads
1,217 views

As more and more prokaryotic sequencing takes place, a method to quickly and accurately analyze this data is needed. Previous tools are mainly designed for metagenomic analysis and have limitations; such as long runtimes and significant false positive error rates....

["Bioinformatics","Computational Biology","Genomics","Microbiology"]
doi:10.7717/peerj.1025
104 downloads
552 views

Associations between microorganisms occur extensively throughout Earth’s oceans. Understanding how microbial communities are assembled and how the presence or absence of species is related to that of others are central goals of microbial ecology. Here, we investigate...

["Computational Biology","Ecology","Genomics","Marine Biology","Microbiology"]
doi:10.7717/peerj.1008
53 downloads
351 views

Deep sequencing of the viral phoH gene, a host-derived auxiliary metabolic gene, was used to track viral diversity throughout the water column at the Bermuda Atlantic Time-series Study (BATS) site in the summer (September) and winter (March) of three years. Viral...

["Biodiversity","Bioinformatics","Microbiology","Virology"]
doi:10.7717/peerj.997
33 downloads
225 views

Sponge diseases have been widely reported, yet the causal factors and major pathogenic microbes remain elusive. In this study, two individuals of the sponge Crella cyathophora in total that showed similar disease-like characteristics were collected from two different...

["Biodiversity","Ecology","Environmental Sciences","Marine Biology","Microbiology"]
doi:10.7717/peerj.890
195 downloads
1,128 views

Viruses of microbes impact all ecosystems where microbes drive key energy and substrate transformations including the oceans, humans and industrial fermenters. However, despite this recognized importance, our understanding of viral diversity and impacts remains...

["Bioinformatics","Genomics","Microbiology","Virology"]
doi:10.7717/peerj.985
113 downloads
681 views

Ghost-tree is a bioinformatics tool that integrates sequence data from two genetic markers into a single phylogenetic tree that can be used for diversity analyses. Our approach uses one genetic marker whose sequences can be aligned across organisms spanning divergent...

["Bioinformatics","Microbiology"]
doi:10.7287/peerj.preprints.1106v1
95 downloads
248 views

Bois Noir is a grapevine disease responsible for severe economic losses in wine production. Bois Noir is caused by Candidatus Phytoplasma solani, cell wall-less bacteria belonging to the taxonomic group 16Sr-XII-A. In Germany, they are known to be vectored from...

["Agricultural Science","Ecology","Entomology","Microbiology"]
doi:10.7287/peerj.preprints.732v2
144 downloads
780 views

An uncultured non-photosynthetic basal lineage of the Cyanobacteria, the Melainabacteria, was recently characterised by metagenomic analyses of aphotic environmental samples. However, a predatory bacterium, Vampirovibrio chlorellavorus, originally described in...

["Genomics","Microbiology"]
doi:10.7717/peerj.968
986 downloads
2,069 views

Large-scale recovery of genomes from isolates, single cells, and metagenomic data has been made possible by advances in computational methods and substantial reductions in sequencing costs. While this increasing breadth of draft genomes is providing key information...

["Bioinformatics","Genomics","Microbiology","Molecular Biology"]
doi:10.7287/peerj.preprints.554v2
51 downloads
96 views

Antagonistic interactions such as competition and predation shape the structure and dynamics of ecological communities. Their combined effects can affect the species richness within a particular trophic level. Despite theory linking the complementarity of interactions...

["Biodiversity","Ecology","Ecosystem Science","Microbiology"]
doi:10.7287/peerj.preprints.1100v1
8 downloads
101 views

MicroView was made to make the connection between medicine and mobile technology reality, in order to achieve that we transform the widely used mobile devices (smartphones, tablets) into diagnostic tools. MicroView is a medical application that focuses on the diagnosis...

["Bioinformatics","Microbiology","Infectious Diseases","Science and Medical Education"]
doi:10.7287/peerj.preprints.1096v1
45 downloads
60 views

Within highly diverse ecosystems, the majority of bacterial taxa are present in low abundance as members of the rare biosphere. The rationale for the occurrence and maintenance of the rare biosphere, and the putative ecological role(s) and dynamics of its members...

["Ecology","Microbiology"]
doi:10.7287/peerj.preprints.1078v1
1 citation
256 downloads
2,163 views

The sequencing, assembly, and basic analysis of microbial genomes, once a painstaking and expensive undertaking, has become much easier for research labs with access to standard molecular biology and computational tools. However, there are a confusing variety of...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7717/peerj.960

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