The sustainability of cotton : consequences for man and environment

This project aimed to summarise literature that compares conventional, IPM, and organic cotton production systems in terms of environmental impact; to select indicators which can be used to compare the environmental impact of conventional, IPM, and organic cotton production systems and to start a discussion on the social aspects relevant for trade in sustainable cotton

Automated airborne pest monitoring of drosophila suzukii in crops and natural habitats

Drosophila suzukii has become a serious pest in Europe attacking many soft-skinned crops such as several berry species and grapevines since its spread in 2008 to Spain and Italy. An efficient and accurate monitoring system to identify the presence of Drosophila suzukii in crops and their surroundings is essential for the prevention of damage to economically valuable fruit crops. Existing methods for monitoring Drosophila suzukii are costly, time and labor intensive, prone to errors, and typically conducted at a low spatial resolution. To overcome current monitoring limitations, we are developing a novel system consisting of sticky traps which are monitored by means of Unmanned Aerial Vehicles (UAVs) and an image processing pipeline that automatically identifies and counts the number of Drosophila suzukii per trap location. To this end, we are currently collecting high resolution RGB imagery of Drosophila suzukii flies in sticky traps taken from both a static position (tripod) and from a UAV, which are then used as input to train deep learning models. Preliminary results show that a large part of the of Drosophila suzukii flies that are caught in the sticky traps can be correctly identified by the trained deep learning models. In the future, an autonomously flying UAV platform will be programmed to capture imagery of the sticky traps under field conditions. The collected imagery will be transferred directly to cloud-based storage for subsequent processing and analysis to identify the presence and count of Drosophila suzukii in near real time. This data will be used as input to a decision support system (DSS) to provide valuable information for farmers

Resolving cryptic species complexes in marine protists: phylogenetic haplotype networks meet global DNA metabarcoding datasets

Marine protists have traditionally been assumed to be lowly diverse and cosmopolitan. Yet, several recent studies have shown that many protist species actually consist of cryptic complexes of species whose members are often restricted to particular biogeographic regions. Nonetheless, detection of cryptic species is usually hampered by sampling coverage and application of methods (e.g. phylogenetic trees) that are not well suited to identify relatively recent divergence and ongoing gene flow. In this paper, we show how these issues can be overcome by inferring phylogenetic haplotype networks from global metabarcoding datasets. We use the Chaetoceros curvisetus (Bacillariophyta) species complex as study case. Using two complementary metabarcoding datasets (Ocean Sampling Day and Tara Oceans), we equally resolve the cryptic complex in terms of number of inferred species. We detect new hypothetical species in both datasets. Gene flow between most of species is absent, but no barcoding gap exists. Some species have restricted distribution patterns whereas others are widely distributed. Closely related taxa occupy contrasting biogeographic regions, suggesting that geographic and ecological differentiation drive speciation. In conclusion, we show the potential of the analysis of metabarcoding data with evolutionary approaches for systematic and phylogeographic studies of marine protists

The effect of depth on the morphology, bacterial clearance, and respiration of the mediterranean sponge chondrosia reniformis (Nardo, 1847)

To support the successful application of sponges for water purification and collagen production, we evaluated the effect of depth on sponge morphology, growth, physiology, and functioning. Specimens of Eastern Mediterranean populations of the sponge Chondrosia reniformis (Nardo, 1847) (Demospongiae, Chondrosiida, Chondrosiidae) were reciprocally transplanted between 5 and 20 m depth within the KaŠ-Kekova Marine Reserve Area. Control sponges at 5 m had fewer but larger oscula than their conspecifics at 20 m, and a significant inverse relationship between the osculum density and size was found in C. reniformis specimens growing along a natural depth gradient. Sponges transplanted from 20 to 5 m altered their morphology to match the 5 m control sponges, producing fewer but larger oscula, whereas explants transplanted from 5 to 20 m did not show a reciprocal morphological plasticity. Despite the changes in morphology, the clearance, respiration, and growth rates were comparable among all the experimental groups. This indicates that depth-induced morphological changes do not affect the overall performance of the sponges. Hence, the potential for the growth and bioremediation of C. reniformis in mariculture is not likely to change with varying culture depth. The collagen content, however, was higher in shallow water C. reniformis compared to deeper-growing sponges, which requires further study to optimize collagen production.This research was executed within the Connected Circularity program, financed by strategic funding of Wageningen University and Research and the knowledge base of the Ministry of Agriculture, Nature, and FoodQuality (KB40), and was part of the ERA-NET project Biogenink (project 4195), funded by the EuropeanCommission in conjunction with the Dutch Science Foundation NWO and the Portuguese Foundation for Science and Technology (FCT) (project M-ERA-NET-2/0022/2016)

Inguinal microbiome in patients undergoing an endovascular aneurysm repair:Application of next-generation sequencing of the 16S-23S rRNA regions

Background: Surgical site infection (SSI) remains a hazardous complication after vascular surgery. In this pilot study we investigated the inguinal microbiome in skin biopsies using histology and 16S-23S rDNA Next Generation Sequencing (NGS). Our hypothesis was that causative microorganisms of SSI are present in the inguinal microbiome. Methods: Data on surgical site infections and skin samples from the Percutaneous in Endovascular Repair versus Open (PiERO) trail were evaluated. Two patients with SSI were matched for age and comorbidity to eight matching patients of the PiERO trial. All patients were treated for an abdominal aortic aneurysm with endovascular repair. Nasal and perineal cultures were taken preoperatively to detect Staphylococcus aureus carriage. After disinfection with chlorhexidine, groin biopsies were taken to identify bacteria in deeper skin layers. All samples were subjected to histological analysis and culture-free 16S-23S rDNA NGS. Results: Staphylococcus aureus species were cultured in 5 out of 20 preoperative nasal and perineal swaps. Histology detected only a few bacteria, NGS of the 16S-23S rRNA regions identified DNA of bacterial species in all biopsies (20/20). Most identified genera and species proved to be known skin flora bacteria. No relation was found between SSIs and the preoperative microbiome. Conclusion: In this pilot study, an innovative analysis of the preoperative microbiome using 16S-23S rDNA NGS did not show a relation with the occurrence of a surgical site infection. No pathogenic bacterial species were present in the inguinal skin after disinfection with chiorhexidine

Galactic interstellar filaments as probed by LOFAR and Planck

Recent Low Frequency Array (LOFAR) observations at 115-175 MHz of a field at medium Galactic latitudes (centered at the bright quasar 3C196) have shown striking filamentary structures in polarization that extend over more than 4 degrees across the sky. In addition, the Planck satellite has released full sky maps of the dust emission in polarization at 353GHz. The LOFAR data resolve Faraday structures along the line of sight, whereas the Planck dust polarization maps probe the orientation of the sky projected magnetic field component. Hence, no apparent correlation between the two is expected. Here we report a surprising, yet clear, correlation between the filamentary structures, detected with LOFAR, and the magnetic field orientation, probed by the Planck satellite. This finding points to a common, yet unclear, physical origin of the two measurements in this specific area in the sky. A number of follow-up multi- frequency studies are proposed to shed light on this unexpected finding.Comment: 6 pages, 4 figures, accepted for publication in MNRAS Letter