Macroinvertebrate Responses To Hydrological Variation In Experimental Wetlands.

Predicted increases in the frequency of intense storms and periods of severe drought due to climate change represent a threat to wetland macroinvertebrate communities through alterations to the hydrological regime. I used experimental ponds to assess the effects of water permanence (i.e., duration of flooding) on the communities of aquatic macroinvertebrates. I predicted that permanent ponds would harbor higher diversity of longer-lived taxa whereas temporary ones will favor colonization by quick turnover, short-lived taxa and support lower consumer diversity. Results show differences in macroinvertebrate communities between permanent and temporary ponds can be mostly explained by hydrology and the amount of time these were covered by water. While biomass (B) and richness (S) of macroinvertebrates were related to treatment type, their abundance (N) was not. I also found that across both treatments many individuals were generalist collector-gatherers of small body size inhabiting fine-sediments, the open limnetic zone or vascular plants having multiple generations per year (multivoltine) and emerging in a highly synchronous manner at all times of the season. The results from this study show that the length of time these ponds retain water and the time of year in which these flooding events occur have major impacts on the natural succession of resettlement within temporary wetlands. The data obtained in this study aids in further understanding what communities of aquatic macroinvertebrates are supported by different conditions (i.e., potential disturbances), as well as what ecosystem functions will be the most impacted by these changes along the wetlands of the southeastern Coastal Plain

Analogue Modelling of Inverted Oblique Rift Systems

The geometric evolution of brittle fault systems in inverted oblique and offset rift systems has been simulated using scaled sandbox analogue models. Dry fine-grained quartz sand was used to represent the brittle upper crust. Extensional faults geometries in the models were governed by the geometry and orientation of a stretching zone at the base of the models. Oblique rift models were characterized by segmented en-echelon border fault systems trending parallel to the rift axis and the underlying zone of basement stretching. Offset rift models promoted highly-segmented border faults as well as offset sub-basins within the rift. In both types of models, intra-rift fault arrays were oriented sub-perpendicular to the extension direction. Inversion of the oblique and offset extensional models was achieved by horizontal shortening. This resulted in partial inversion of the border and intra-rift faults as well as the formation of new reverse faults. The geometries, distribution, orientations and number of these new reverse faults were strongly controlled by the earlier-formed fault extensional architectures. At the margins of the rift zone, shortening was mainly accommodated by partial inversion of the border faults together with the formation of hanging-wall bypass faults and footwall shortcut thrusts. Inversion of the offset rift models produced reactivation of the extensional accommodation zones as soft-linked transfer zones between new thrust faults. The analogue model results have been compared with natural inversion structures in the Atlas Mountains of Morocco and the Ukrainian Donbas fold belt. The analogue modelling results suggest that the High Atlas formed as the result of oblique inversion of an oblique rift system, and the contractional structures in the Ukranian Donbas belt were generated by partial inversion of the earlier-formed Donbas extensional graben via two major newly developed short-cuts that uplifted and exhumed the basin

Effect of multimodal cues from a predatory fish on refuge use and foraging on an amphidromous shrimp

Background. Prey can alter their behavior when detecting predator cues. Little is known about which sensory channel, number of channels, or the interaction among channels that shrimp species use to evaluate the threat from predators. The amphidromous shrimp Xiphocaris elongata has an induced defense, an elongated rostrum, where predatory fishes are present. We sought to test if kairomones or visual cues when presented singly from fish either eating flakes or shrimp, had more effect on altering the temporal feeding and refuge use patterns of long-rostrum (LR) X. elongata. We were also interested in elucidating potential interactions among cues when presented simultaneously in different combinations (kairomones + visual + mechanosensory, kairomones + alarm + visual, kairomones + alarm, kairomones + visual) on the same response variables. We expected that when presented alone kairomones will significantly increase refuge use and decrease foraging, particularly late at night, in comparison to visual cues alone, and that multiple cues when presented simultaneously will further increase refuge use and decrease foraging at night. Methods. We exposed shrimp to individual or multiple cues from the predatory fish mountain mullet, Augonostomus monticola. We examined shrimp behavior with respect to refuge use and foraging activity during four time periods (after sunset, nighttime, sunrise, and sunset) in a 24-hour period. Results. Shrimp presented fish visual and chemical cues singly did not differ from one another but differed from control shrimp (no cues) with respect to refuge use or foraging. The number of shrimp using refuge in the treatment with most cues (KVM: Kairomones+ visual + mechanosensory) was higher than in all the treatments with less cues. A significant decline in foraging was observed when multiple cues were presented simultaneously. The highest number of shrimp foraged one hour after sunset and at nighttime. A significant interaction was observed between cue treatments and time periods, with shrimp in the KVM treatment foraging less and using more refuge late at night and at sunrise than shrimp in other treatments or time periods. Conclusions. The observation that fish chemical and visual cues when presented singly produced similar refuge use and foraging patterns was contrary to expectation and suggests that visual and chemical cues, when presented alone, provide redundant information to X. elongata with regards to predation threat. The significant increase in refuge use and reduction in foraging observed in the KVM treatment suggest multimodal signal enhancement in the perception of threat. This makes evolutionary sense in \u27\u27noisy\u27\u27 environments, such as streams, where detection, localization, and intention of predators is much improved when cues are received through multiple sensory channels

Joint genomic and proteomic analysis identifies meta-trait characteristics of virulent and non-virulent Staphylococcus aureus strains

Staphylococcus aureus is an opportunistic pathogen of humans and warm-blooded animals and presents a growing threat in terms of multi-drug resistance. Despite numerous studies, the basis of staphylococcal virulence and switching between commensal and pathogenic phenotypes is not fully understood. Using genomics, we show here that S. aureus strains exhibiting virulent (VIR) and non-virulent (NVIR) phenotypes in a chicken embryo infection model genetically fall into two separate groups, with the VIR group being much more cohesive than the NVIR group. Significantly, the genes encoding known staphylococcal virulence factors, such as clumping factors, are either found in different allelic variants in the genomes of NVIR strains (compared to VIR strains) or are inactive pseudogenes. Moreover, the pyruvate carboxylase and gamma-aminobutyrate permease genes, which were previously linked with virulence, are pseudogenized in NVIR strain ch22. Further, we use comprehensive proteomics tools to characterize strains that show opposing phenotypes in a chicken embryo virulence model. VIR strain CH21 had an elevated level of diapolycopene oxygenase involved in staphyloxanthin production (protection against free radicals) and expressed a higher level of immunoglobulin-binding protein Sbi on its surface compared to NVIR strain ch22. Furthermore, joint genomic and proteomic approaches linked the elevated production of superoxide dismutase and DNA-binding protein by NVIR strain ch22 with gene duplications

Multi-omic Analyses of Extensively Decayed Pinus contorta Reveal Expression of a Diverse Array of Lignocellulose-Degrading Enzymes.

Fungi play a key role cycling nutrients in forest ecosystems, but the mechanisms remain uncertain. To clarify the enzymatic processes involved in wood decomposition, the metatranscriptomics and metaproteomics of extensively decayed lodgepole pine were examined by RNA sequencing (RNA-seq) and liquid chromatography-tandem mass spectrometry (LC-MS/MS), respectively. Following de novo metatranscriptome assembly, 52,011 contigs were searched for functional domains and homology to database entries. Contigs similar to basidiomycete transcripts dominated, and many of these were most closely related to ligninolytic white rot fungi or cellulolytic brown rot fungi. A diverse array of carbohydrate-active enzymes (CAZymes) representing a total of 132 families or subfamilies were identified. Among these were 672 glycoside hydrolases, including highly expressed cellulases or hemicellulases. The CAZymes also included 162 predicted redox enzymes classified within auxiliary activity (AA) families. Eighteen of these were manganese peroxidases, which are key components of ligninolytic white rot fungi. The expression of other redox enzymes supported the working of hydroquinone reduction cycles capable of generating reactive hydroxyl radicals. These have been implicated as diffusible oxidants responsible for cellulose depolymerization by brown rot fungi. Thus, enzyme diversity and the coexistence of brown and white rot fungi suggest complex interactions of fungal species and degradative strategies during the decay of lodgepole pine.IMPORTANCE The deconstruction of recalcitrant woody substrates is a central component of carbon cycling and forest health. Laboratory investigations have contributed substantially toward understanding the mechanisms employed by model wood decay fungi, but few studies have examined the physiological processes in natural environments. Herein, we identify the functional genes present in field samples of extensively decayed lodgepole pine (Pinus contorta), a major species distributed throughout the North American Rocky Mountains. The classified transcripts and proteins revealed a diverse array of oxidative and hydrolytic enzymes involved in the degradation of lignocellulose. The evidence also strongly supports simultaneous attack by fungal species employing different enzymatic strategies

Long-Range C–H Bond Activation by Rh^(III)-Carboxylates

Traditional C–H bond activation by a concerted metalation–deprotonation (CMD) mechanism involves precoordination of the C–H bond followed by deprotonation from an internal base. Reported herein is a “through-arene” activation of an uncoordinated benzylic C–H bond that is 6 bonds away from a Rh^(III) ion. The mechanism, which was investigated by experimental and DFT studies, proceeds through a dearomatized xylene intermediate. This intermediate was observed spectroscopically upon addition of a pyridine base to provide a thermodynamic trap

Overview of molecular typing methods for outbreak detection and epidemiological surveillance

Typing methods for discriminating different bacterial isolates of the same species are essential epidemiological tools in infection prevention and control. Traditional typing systems based on phenotypes, such as serotype, biotype, phage-type, or antibiogram, have been used for many years. However, more recent methods that examine the relatedness of isolates at a molecular level have revolutionised our ability to differentiate among bacterial types and subtypes. Importantly, the development of molecular methods has provided new tools for enhanced surveillance and outbreak detection. This has resulted in better implementation of rational infection control programmes and efficient allocation of resources across Europe. The emergence of benchtop sequencers using next generation sequencing technology makes bacterial whole genome sequencing (WGS) feasible even in small research and clinical laboratories. WGS has already been used for the characterisation of bacterial isolates in several large outbreaks in Europe and, in the near future, is likely to replace currently used typing methodologies due to its ultimate resolution. However, WGS is still too laborious and time-consuming to obtain useful data in routine surveillance. Also, a largely unresolved question is how genome sequences must be examined for epidemiological characterisation. In the coming years, the lessons learnt from currently used molecular methods will allow us to condense the WGS data into epidemiologically useful information. On this basis, we have reviewed current and new molecular typing methods for outbreak detection and epidemiological surveillance of bacterial pathogens in clinical practice, aiming to give an overview of their specific advantages and disadvantages