University of Bremen

About: University of Bremen is a education organization based out in Bremen, Germany. It is known for research contribution in the topics: Population & Context (language use). The organization has 14563 authors who have published 37279 publications receiving 970381 citations. The organization is also known as: Universität Bremen.

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

Abstract: Nucleo-cytoplasmic large DNA viruses (NCLDVs) constitute a group of eukaryotic viruses that can have crucial ecological roles in the sea by accelerating the turnover of their unicellular hosts or by causing diseases in animals. To better characterize the diversity, abundance and biogeography of marine NCLDVs, we analyzed 17 metagenomes derived from microbial samples (0.2–1.6 μm size range) collected during the Tara Oceans Expedition. The sample set includes ecosystems under-represented in previous studies, such as the Arabian Sea oxygen minimum zone (OMZ) and Indian Ocean lagoons. By combining computationally derived relative abundance and direct prokaryote cell counts, the abundance of NCLDVs was found to be in the order of 104–105 genomes ml−1 for the samples from the photic zone and 102–103 genomes ml−1 for the OMZ. The Megaviridae and Phycodnaviridae dominated the NCLDV populations in the metagenomes, although most of the reads classified in these families showed large divergence from known viral genomes. Our taxon co-occurrence analysis revealed a potential association between viruses of the Megaviridae family and eukaryotes related to oomycetes. In support of this predicted association, we identified six cases of lateral gene transfer between Megaviridae and oomycetes. Our results suggest that marine NCLDVs probably outnumber eukaryotic organisms in the photic layer (per given water mass) and that metagenomic sequence analyses promise to shed new light on the biodiversity of marine viruses and their interactions with potential hosts.

When biomolecules meet graphene: from molecular level interactions to material design and applications.

Abstract: Graphene-based materials have attracted increasing attention due to their atomically-thick two-dimensional structures, high conductivity, excellent mechanical properties, and large specific surface areas. The combination of biomolecules with graphene-based materials offers a promising method to fabricate novel graphene–biomolecule hybrid nanomaterials with unique functions in biology, medicine, nanotechnology, and materials science. In this review, we focus on a summarization of the recent studies in functionalizing graphene-based materials using different biomolecules, such as DNA, peptides, proteins, enzymes, carbohydrates, and viruses. The different interactions between graphene and biomolecules at the molecular level are demonstrated and discussed in detail. In addition, the potential applications of the created graphene–biomolecule nanohybrids in drug delivery, cancer treatment, tissue engineering, biosensors, bioimaging, energy materials, and other nanotechnological applications are presented. This review will be helpful to know the modification of graphene with biomolecules, understand the interactions between graphene and biomolecules at the molecular level, and design functional graphene-based nanomaterials with unique properties for various applications.

Effort-Aware Defect Prediction Models

Abstract: Defect Prediction Models aim at identifying error-prone modules of a software system to guide quality assurance activities such as tests or code reviews. Such models have been actively researched for more than a decade, with more than 100 published research papers. However, most of the models proposed so far have assumed that the cost of applying quality assurance activities is the same for each module. In a recent paper, we have shown that this fact can be exploited by a trivial classifier ordering files just by their size: such a classifier performs surprisingly good, at least when effort is ignored during the evaluation. When effort is considered, many classifiers perform not significantly better than a random selection of modules. In this paper, we compare two different strategies to include treatment effort into the prediction process, and evaluate the predictive power of such models. Both models perform significantly better when the evaluation measure takes the effort into account.

Labrador Sea Water: Pathways, CFC Inventory, and Formation Rates

Abstract: In 1997, a unique hydrographic and chlorofluorocarbon (CFC: component CFC-11) dataset was obtained in the subpolar North Atlantic. To estimate the synopticity of the 1997 data, the recent temporal evolution of the CFC and Labrador Sea Water (LSW) thickness fields are examined. In the western Atlantic north of 50°N, the LSW thickness decreased considerably from 1994–97, while the mean CFC concentrations did not change much. South of 50°N and in the eastern Atlantic, the CFC concentration increased with little or no change in the LSW thickness. On shorter timescales, local anomalies due to the presence of eddies are observed, but for space scales larger than the eddies the dataset can be treated as being synoptic over the 1997 observation period. The spreading of LSW in the subpolar North Atlantic is described in detail using gridded CFC and LSW thickness fields combined with Profiling Autonomous Lagrangian Circulation Explorer (PALACE) float trajectories. The gridded fields are also used to calculate the CFC-11 inventory in the LSW from 40° to 65°N, and from 10° to 60°W. In total, 2300 ± 250 tons of CFC-11 (equivalent to 16.6 million moles) were brought into the LSW by deep convection. In 1997, 28% of the inventory was still found in the Labrador Sea west of 45°W and 31% of the inventory was located in the eastern Atlantic. The CFC inventory in the LSW was used to estimate the lower limits of LSW formation rates. At a constant formation rate, a value of 4.4–5.6 Sv (Sv ≡ 106 m3 s−1) is obtained. If the denser modes of LSW are ventilated only in periods with intense convection, the minimum formation rate of LSW in 1988–94 is 8.1–10.8 Sv, and 1.8–2.4 Sv in 1995–97