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Are we missing half of the viruses in the ocean?
TLDR
The data suggest that the abundance of RNA viruses rivaled or exceeded that of DNA viruses in samples of coastal seawater, and imply that protists contribute more to marine viral dynamics than one might expect based on their relatively low abundance.
The Characterization of RNA Viruses in Tropical Seawater Using Targeted PCR and Metagenomics
TLDR
This study investigated the diversity of the RNA virus assemblages in tropical coastal seawater samples using targeted PCR and metagenomics to expand the known range of viral diversity and shed new light on the physical properties and genetic composition of RNA viruses in the ocean.
Transcriptome comparison of winter and spring wheat responding to low temperature.
TLDR
Gene expression during cold acclimation was compared in 2 cultivars with marked differences in freezing tolerance and Transcript levels of more than 300 genes were altered by cold, including genes that encode potential regulatory proteins and proteins that act in plant metabolism.
The evolution of the tape measure protein: units, duplications and losses
TLDR
A heuristic is given that reconstructs the duplication history of phages whose tape measure proteins contain variable numbers of an 11 amino acids sequence repeat, aligned with sequence similarity, structural properties, and simple arithmetics, based on an efficient algorithm.
Mosaic Graphs and Comparative Genomics in Phage Communities
TLDR
Comparisons of sets of Staphylococcus aureus phages that share large identical sequences with up to three other genomes, and with different partners along their genomes, are presented to illustrate the breath and depth of sequence sharing.
Prediction of Mature MicroRNA and Piwi-Interacting RNA without a Genome Reference or Precursors
TLDR
This study proposes an approach that relies primarily on the nucleotide composition of the read and does not require reference genomes of related species for prediction and can detect about an order of magnitude or more known miRNAs than the mature miRNA predictor, miRPlex.
Developmental morphology of the flower of Dracontium polyphyllum in the context of the phylogeny of the Araceae
TLDR
The developmental morphology of the flower of Dracontium is different from that of Anaphyllopsis, and the trilocular or tetralocular nature of the ovary is clearly visible during early stages of development of the gynoecium.
CoCoNet: an efficient deep learning tool for viral metagenome binning
TLDR
The results show that CoCoNet substantially outperforms existing binning methods on viral datasets and leverages the flexibility and the effectiveness of deep learning to model the co-occurrence of contigs belonging to the same viral genome and provide a rigorous framework for binning viral contigs.
Multiclass relevance units machine: benchmark evaluation and application to small ncRNA discovery
TLDR
An extension of a recently introduced probabilistic kernel-based learning algorithm called the Classification Relevance Units Machine to the multiclass setting to increase its applicability is presented, showing its potential in solving large-scale multiclass problems in bioinformatics and other fields of study.
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