Identification of suitable reference genes for miRNA quantitation in bumblebee (Hymenoptera: Apidae) response to reproduction

International audienceAbstractThe precise quantification of microRNAs (miRNAs) expression level is a critical factor in mastering its functions. We evaluate the suitability of two common genes and ten miRNAs as normalizers for miRNA quantification in the head and ovary at different reproductive status of bumblebees, Bombus lantschouensis by using four different algorithms and one consensus rank approach. For the head and ovary combination, miR-275 was the best candidate. For different tissues, miR-275 was the most stable candidate in the head, while the candidate for the ovary was miR-277. To test the best candidate accuracy, miR-315 was demonstrated to be downregulated based on miR-275 normalization in ovipositor bumblebees. The miR-275 and miR-277 combination is identified to be the most reliable and suitable reference genes for the head and ovary of bumblebees

Prediction of the post-translational modifications of adipokinetic hormone receptors from solitary to eusocial bees

Adipokinetic hormone receptor (AKHR) was regarded as the crucial regulator of lipid consuming, but now has been renewed as a pluripotent neuropeptide G protein-coupled receptor. It has been identified in all sequenced bee genomes from the solitary to the eusocial. In the current study, we try to clarify the transitions of AKHR on lipid utilization and other potential functions from solitary to eusocial bees. The results showed that the AKHRs were divided into different groups based on their social complexity approximately. Nevertheless, the critical motifs and tertiary structures were highly conserved. As to the post-translational modifications, the eusocial possessed more phosphorylation residues and modification patterns, which might be due to the necessity of more diverse functions. These results suggest that AKHRs are highly conserved on both primary motifs and tertiary structures, but more flexible on posttranslational modifications so as to accommodate to more complicated eusocial life

Comparative transcriptome analysis reveals the adaptive mechanisms of halophyte Suaeda dendroides encountering high saline environment

Suaeda dendroides, a succulent euhalophyte of the Chenopodiaceae family, intermittently spread around northern Xinjiang, China, has the ability to grow and develop in saline and alkali environments. The objective of this study was therefore to investigate the underlying molecular mechanisms of S. dendroides response to high salt conditions. 27 sequencing libraries prepared from low salt (200 mM NaCl) and high salt (800 mM NaCl) treated plants at 5 different stages were sequenced using Illumina Hiseq 2000. A total of 133,107 unigenes were obtained, of which 4,758 were DEGs. The number of DEGs in the high salt group (3,189) was more than the low salt treatment group (733) compared with the control. GO and KEGG analysis of the DEGs at different time points of the high salt treatment group showed that the genes related to cell wall biosynthesis and modification, plant hormone signal transduction, ion homeostasis, organic osmolyte accumulation, and reactive oxygen species (ROS) detoxification were significantly expressed, which indicated that these could be the main mechanisms of S. dendroides acclimate to high salt stress. The study provides a new perspective for understanding the molecular mechanisms of halophytes adapting to high salinity. It also provides a basis for future investigations of key salt-responsive genes in S. dendroides

DeepChain: Auditable and Privacy-Preserving Deep Learning with Blockchain-based Incentive

Deep learning can achieve higher accuracy than traditional machine learning algorithms in a variety of machine learning tasks. Recently, privacy-preserving deep learning has drawn tremendous attention from information security community, in which neither training data nor the training model is expected to be exposed. Federated learning is a popular learning mechanism, where multiple parties upload local gradients to a server and the server updates model parameters with the collected gradients. However, there are many security problems neglected in federated learning, for example, the participants may behave incorrectly in gradient collecting or parameter updating, and the server may be malicious as well. In this paper, we present a distributed, secure, and fair deep learning framework named DeepChain to solve these problems. DeepChain provides a value-driven incentive mechanism based on Blockchain to force the participants to behave correctly. Meanwhile, DeepChain guarantees data privacy for each participant and provides auditability for the whole training process. We implement a DeepChain prototype and conduct experiments on a real dataset for different settings, and the results show that our DeepChain is promising

A horizon scan of future threats and opportunities for pollinators and pollination

Background. Pollinators, which provide the agriculturally and ecologically essential service of pollination, are under threat at a global scale. Habitat loss and homogenisation, pesticides, parasites and pathogens, invasive species, and climate change have been identified as past and current threats to pollinators. Actions to mitigate these threats, e.g., agri-environment schemes and pesticide-use moratoriums, exist, but have largely been applied post-hoc. However, future sustainability of pollinators and the service they provide requires anticipation of potential threats and opportunities before they occur, enabling timely implementation of policy and practice to prevent, rather than mitigate, further pollinator declines. Methods.Using a horizon scanning approach we identified issues that are likely to impact pollinators, either positively or negatively, over the coming three decades. Results.Our analysis highlights six high priority, and nine secondary issues. High priorities are: (1) corporate control of global agriculture, (2) novel systemic pesticides, (3) novel RNA viruses, (4) the development of new managed pollinators, (5) more frequent heatwaves and drought under climate change, and (6) the potential positive impact of reduced chemical use on pollinators in non-agricultural settings. Discussion. While current pollinator management approaches are largely driven by mitigating past impacts, we present opportunities for pre-emptive practice, legislation, and policy to sustainably manage pollinators for future generations

Dynamics of Persistent and Acute Deformed Wing Virus Infections in Honey Bees, Apis mellifera

The dynamics of viruses are critical to our understanding of disease pathogenesis. Using honey bee Deformed wing virus (DWV) as a model, we conducted field and laboratory studies to investigate the roles of abiotic and biotic stress factors as well as host health conditions in dynamics of virus replication in honey bees. The results showed that temperature decline could lead to not only significant decrease in the rate for pupae to emerge as adult bees, but also an increased severity of the virus infection in emerged bees, partly explaining the high levels of winter losses of managed honey bees, Apis mellifera, around the world. By experimentally exposing adult bees with variable levels of parasitic mite Varroa destructor, we showed that the severity of DWV infection was positively correlated with the density and time period of Varroa mite infestation, confirming the role of Varroa mites in virus transmission and activation in honey bees. Further, we showed that host conditions have a significant impact on the outcome of DWV infection as bees that originate from strong colonies resist DWV infection and replication significantly better than bee originating from weak colonies. The information obtained from this study has important implications for enhancing our understanding of host‑pathogen interactions and can be used to develop effective disease control strategies for honey bees

Pan-Genome Analysis Reveals Functional Divergences in Gut-Restricted <i>Gilliamella</i> and <i>Snodgrassella</i>

Gilliamella and Snodgrassella, members of core gut microbiota in corbiculate bees, have high species diversity and adaptability to a wide range of hosts. In this study, we performed species taxonomy and phylogenetic analysis for Gilliamella and Snodgrassella strains that we isolated in our laboratory, in combination with published whole-genome. Functional effects of accessory and unique genes were investigated by KEGG category and pathway annotation in pan-genome analysis. Consequently, in Gilliamella, we inferred the importance of carbohydrate metabolism, amino acid metabolism, membrane transport, energy metabolism, and metabolism of cofactors and vitamins in accessory or unique genes. The pathway mentioned above, plus infectious disease, lipid metabolism, nucleotide metabolism as well as replication and repair exert a pivotal role in accessory or unique genes of Snodgrassella. Further analysis revealed the existence of functional differentiation of accessory and unique genes among Apis-derived genomes and Bombus-derived genomes. We also identified eight and four biosynthetic gene clusters in all Gilliamella and Snodgrassella genomes, respectively. Our study provides a good insight to better understand how host heterogeneity influences the bacterial speciation and affects the versatility of the genome of the gut bacteria

Vector beams encoded by diverse orthogonal polarization states and their generation based on metasurfaces

Vector beams with spatially varying polarization states have wide application prospects. Convenient and feasible generation of compact vector beams become important for the applications in integrated optics and optical communication. Based on the superposition of orthogonal polarization vortex beams and the metasurface design, this paper studies systematically vector beams with hybrid states of polarization in diverse orthogonal polarization encoding. The spatial polarization of vector beam can be controlled through choosing the polarization types and adjusting the contributions of two orthogonal polarized beams. The generated vector beams based on metasurfaces verify the output of diversity polarization states in the transverse plane. The high polarization sensitivity of vector beam is beneficial to the polarization multiplexing and the utilization of optical metasurface realizes the polarization manipulation in nanometer scale. This work lays the foundation for the construction of complex vector beams and it is helpful for expanding the applications of vector beams