Behind taxonomic variability: The functional redundancy in the tick microbiome

The taxonomic composition and diversity of tick midgut microbiota have been extensively studied in different species of the genera Rhipicephalus, Ixodes, Amblyomma, Haemaphysalis, Hyalomma, Dermacentor, Argas and Ornithodoros, while the functional significance of bacterial diversity has been proportionally less explored. In this study, we used previously published 16S amplicon sequence data sets from three Ixodes scapularis cohorts, two of uninfected nymphs, and one of larvae experimentally infected with Borrelia burgdorferi, to test the functional redundancy of the tick microbiome. We predicted the metabolic profiling of each sample using the state-of-the-art metagenomics tool PICRUSt2. The results showed that the microbiomes of all I. scapularis samples share only 80 taxa (24.6%, total 324), while out of the 342 metabolic pathways predicted, 82.7%, were shared by all the ticks. Borrelia-infected larvae lack 15.4% of pathways found in the microbiome of uninfected nymphs. Taxa contribution analysis showed that the functional microbiome of uninfected ticks was highly redundant, with, in some cases, up to 198 bacterial taxa contributing to a single pathway. However, Borrelia-infected larvae had a smaller redundancy with 6.7% of pathways provided by more than 100 genera, while 15.7–19.2% of pathways were provided by more than 100 genera in the two cohorts of uninfected ticks. In addition, we compared the functional profiles of three microbial communities from each data set, identified through a network-based approach, and we observed functional similarity between them. Based on the functional redundancy and functional similarity of the microbiome of ticks in different developmental stages and infection status, we concluded that the tick gut microbiota is a self-regulating community of very diverse bacteria contributing to a defined set of metabolic pathways and functions with yet unexplored relevance for tick fitness and/or bacterial community stability. We propose a change of focus in which the tick microbiome must be analyzed in all dimensions, highlighting their functional traits, instead of the conventional taxonomic profiling

Light‐Emitting Diodes: Progress in Plant Micropropagation

In commercial micropropagation laboratories, the light source is one of the most important factors controlling plant morphogenesis and metabolism of plant cells and tissue and organ cultures. Lamp manufacturers have begun to rate lamps specifically for plant needs. The traditional light source used for in vitro propagation is fluorescent lamps (FLs). However, power consumption in FL use is expensive and produces a wide range of wavelengths (350–750 nm) unnecessary for plant development. Light‐emitting diodes (LEDs) have recently emerged as an alternative for commercial micropropagation. The flexibility of matching LED wavelengths to plant photoreceptors may provide more optimal production, influencing plant morphology and chlorophyll content. Although previous reports have confirmed physiological effects of LED light quality on morphogenesis and growth of several plantlets in vitro, these study results showed that LED light is more suitable for plant morphogenesis and growth than FLs. However, the responses vary according to plant species. This chapter describes the applications and benefits of LED lamps on chlorophyll in plant micropropagation. Two study cases are exposed, Anthurium (Anthurium andreanum) and moth orchids (Phalaenopsisis sp.), both species with economic importance as ornamental plants, where LEDs have a positive effect on in vitro development and chlorophyll content

Interactions between tick and transmitted pathogens evolved to minimise competition through nested and coherent networks

Natural foci of ticks, pathogens, and vertebrate reservoirs display complex relationships that are key to the circulation of pathogens and infection dynamics through the landscape. However, knowledge of the interaction networks involved in transmission of tick-borne pathogens are limited because empirical studies are commonly incomplete or performed at small spatial scales. Here, we applied the methodology of ecological networks to quantify >14, 000 interactions among ticks, vertebrates, and pathogens in the western Palearctic. These natural networks are highly structured, modular, coherent, and nested to some degree. We found that the large number of vertebrates in the network contributes to its robustness and persistence. Its structure reduces interspecific competition and allows ample but modular circulation of transmitted pathogens among vertebrates. Accounting for domesticated hosts collapses the network'' s modular structure, linking groups of hosts that were previously unconnected and increasing the circulation of pathogens. This framework indicates that ticks and vertebrates interact along the shared environmental gradient, while pathogens are linked to groups of phylogenetically close reservoirs

Nested coevolutionary networks shape the ecological relationships of ticks, hosts, and the Lyme disease bacteria of the Borrelia burgdorferi (s.l.) complex

Background: The bacteria of the Borrelia burgdorferi (s.l.) (BBG) complex constitute a group of tick-transmitted pathogens that are linked to many vertebrate and tick species. The ecological relationships between the pathogens, the ticks and the vertebrate carriers have not been analysed. The aim of this study was to quantitatively analyse these interactions by creating a network based on a large dataset of associations. Specifically, we examined the relative positions of partners in the network, the phylogenetic diversity of the tick''s hosts and its impact on BBG circulation. The secondary aim was to evaluate the segregation of BBG strains in different vectors and reservoirs. Results: BBG circulates through a nested recursive network of ticks and vertebrates that delineate closed clusters. Each cluster contains generalist ticks with high values of centrality as well as specialist ticks that originate nested sub-networks and that link secondary vertebrates to the cluster. These results highlighted the importance of host phylogenetic diversity for ticks in the circulation of BBG, as this diversity was correlated with high centrality values for the ticks. The ticks and BBG species in each cluster were not significantly associated with specific branches of the phylogeny of host genera (R 2 = 0.156, P = 0.784 for BBG; R 2 = 0.299, P = 0.699 for ticks). A few host genera had higher centrality values and thus higher importance for BBG circulation. However, the combined contribution of hosts with low centrality values could maintain active BBG foci. The results suggested that ticks do not share strains of BBG, which were highly segregated among sympatric species of ticks. Conclusions: We conclude that BBG circulation is supported by a highly redundant network. This network includes ticks with high centrality values and high host phylogenetic diversity as well as ticks with low centrality values. This promotes ecological sub-networks and reflects the high resilience of BBG circulation. The functional redundancy in BBG circulation reduces disturbances due to the removal of vertebrates as it allows ticks to fill other biotic niches

Influence of Rotations on the Critical State of Soil Mechanics

The ability of grains to rotate can play a crucial role on the collective behavior of granular media. It has been observed in computer simulations that imposing a torque at the contacts modifies the force chains, making support chains less important. In this work we investigate the effect of a gradual hindering of the grains rotations on the so-called critical state of soil mechanics. The critical state is an asymptotic state independent of the initial solid fraction where deformations occur at a constant shear strength and compactness. We quantify the difficulty to rotate by a friction coefficient at the level of particles, acting like a threshold. We explore the effect of this particle-level friction coefficient on the critical state by means of molecular dynamics simulations of a simple shear test on a poly-disperse sphere packing. We found that the larger the difficulty to rotate, the larger the final shear strength of the sample. Other micro-mechanical variables, like the structural anisotropy and the distribution of forces, are also influenced by the threshold. These results reveal the key role of rotations on the critical behavior of soils and suggest the inclusion of rotational variables into their constitutive equations.Comment: 9 pages, 8 figures, Accepted for publication in Computer Physics Communication