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Methanogenic processes have great potential in the sustainable treatment of organic wastes with the production of methane as a renewable source of energy. However, the broader application of methan...

Large groups of animals aggregate around resource hotspots, with group size often influenced by the heterogeneity of the environment. In most cases, the foraging success of individuals within groups is interdependent, scaling either constructively or destructively with group size. Here we used biologging tags, acoustic prey mapping, passive acoustic recording of social cues and remote sensing of surface currents to investigate an alternative scenario in which large, dense aggregations of southeast Atlantic humpback whales, Megaptera novaeangliae, and northeast Pacific blue whales, Balaenoptera musculus, were each associated with ephemeral krill aggregations large enough such that their availability to predators appeared to be influenced more by environmental features than by consumption, implying independence of group size and consumption rates. We found that the temporal scale and spatial extent of oceanographic drivers were consistent with the temporal scale and locations of predator aggregations, and additionally found that groups formed above bathymetric features known to promote zooplankton concentration. Additionally, we found calling behaviour counter-indicative of competition: blue whale foraging calls were anomalously high during observed aggregation time periods, suggesting signalling behaviour that could alert conspecifics to the location of high-quality resources. Modelled results suggest that the use of social information reduces the time required for individuals to discover and exploit high-quality resources, allowing for more efficient foraging without apparent costs to the caller. Thus, rorqual whales foraging in these environments appear to exhibit a social foraging strategy whereby a behaviour with negligible individual costs (signalling) provides information that enhances group foraging efficiency. The population density dependence of this social foraging strategy may help explain why some rorqual species were at first slow to recover from human exploitation, but have since increased more rapidly.

Background Large-scale variation in ecological parameters across Madagascar is hypothesized to drive varying spatial patterns of malaria infection. However, to date, few studies of parasite prevalence with resolution at finer, sub-regional spatial scales are available. As a result, there is a poor understanding of how Madagascar’s diverse local ecologies link with variation in the distribution of infections at the community and household level. Efforts to preserve Madagascar’s ecological diversity often focus on improving livelihoods in rural communities near remaining forested areas but are limited by a lack of data on their infectious disease burden. Methods To investigate spatial variation in malaria prevalence at the sub-regional scale in Madagascar, we sampled 1476 households (7117 total individuals, all ages) from 31 rural communities divided among five ecologically distinct regions. The sampled regions range from tropical rainforest to semi-arid, spiny forest and include communities near protected areas including the Masoala, Makira, and Mikea forests. Malaria prevalence was estimated by rapid diagnostic test (RDT) cross-sectional surveys performed during malaria transmission seasons over 2013–2017. Results Indicative of localized hotspots, malaria prevalence varied more than 10-fold between nearby ( Conclusions Our data suggest that the malaria infection burden experienced by rural communities in Madagascar varies greatly at smaller spatial scales (i.e., at the community and household level) and that the southeast and west coast ecological regions warrant further attention from disease control efforts. Conservation and development efforts in these regions may benefit from consideration of the high, and variable, malaria prevalences among communities in these areas.

Across the genera of katydids from the family Tettigoniidae, both diurnal and nocturnal species have been identified. The Saint Louis Zoo Bayer Insectarium filmed dragon-headed katydids (Lesina blanchardi) overnight using red light-emitting diodes (LEDs) to examine the activity of this presumed nocturnal species to provide quantitative information about these insects that are otherwise immobile when keepers are present. Evidence from the literature suggests that LED bulbs emitting long-wavelength red and infrared lights are less likely to cause changes to the subjects' behavioral budgets and movements through the habitat. Three katydids were filmed for 5 nights, and time-interval scan sampling was used to record their positions and whether they were active every 15 min for two 2-h periods starting at midnight and noon. A modified Shannon's diversity index determined that katydids were recorded in more areas when under only red LEDs at night as compared to artificial daytime working lights. Similarly, repeated measures analysis of variance indicated that insects were significantly more active under nighttime red LEDs when compared to daytime working lights. While we cannot be sure if behaviors recorded under red LEDs are the same as those that would be performed under total darkness in situ, the use of red LED illumination ex situ to facilitate overnight filming did not suppress nocturnal movement or activity for our subjects.

Supplemental Digital Content is available in the text., Background: Cardiac involvement among hospitalized patients with severe coronavirus disease 2019 (COVID-19) is common and associated with adverse outcomes. This study aimed to determine the prevalence and clinical implications of COVID-19 cardiac involvement in young competitive athletes. Methods: In this prospective, multicenter, observational cohort study with data from 42 colleges and universities, we assessed the prevalence, clinical characteristics, and outcomes of COVID-19 cardiac involvement among collegiate athletes in the United States. Data were collected from September 1, 2020, to December 31, 2020. The primary outcome was the prevalence of definite, probable, or possible COVID-19 cardiac involvement based on imaging definitions adapted from the Updated Lake Louise Imaging Criteria. Secondary outcomes included the diagnostic yield of cardiac testing, predictors for cardiac involvement, and adverse cardiovascular events or hospitalizations. Results: Among 19 378 athletes tested for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection, 3018 (mean age, 20 years [SD, 1 year]; 32% female) tested positive and underwent cardiac evaluation. A total of 2820 athletes underwent at least 1 element of cardiac triad testing (12-lead ECG, troponin, transthoracic echocardiography) followed by cardiac magnetic resonance imaging (CMR) if clinically indicated. In contrast, primary screening CMR was performed in 198 athletes. Abnormal findings suggestive of SARS-CoV-2 cardiac involvement were detected by ECG (21 of 2999 [0.7%]), cardiac troponin (24 of 2719 [0.9%]), and transthoracic echocardiography (24 of 2556 [0.9%]). Definite, probable, or possible SARS-CoV-2 cardiac involvement was identified in 21 of 3018 (0.7%) athletes, including 15 of 2820 (0.5%) who underwent clinically indicated CMR (n=119) and 6 of 198 (3.0%) who underwent primary screening CMR. Accordingly, the diagnostic yield of CMR for SARS-CoV-2 cardiac involvement was 4.2 times higher for a clinically indicated CMR (15 of 119 [12.6%]) versus a primary screening CMR (6 of 198 [3.0%]). After adjustment for race and sex, predictors of SARS-CoV-2 cardiac involvement included cardiopulmonary symptoms (odds ratio, 3.1 [95% CI, 1.2, 7.7]) or at least 1 abnormal triad test result (odds ratio, 37.4 [95% CI, 13.3, 105.3]). Five (0.2%) athletes required hospitalization for noncardiac complications of COVID-19. During clinical surveillance (median follow-up, 113 days [interquartile range=90 146]), there was 1 (0.03%) adverse cardiac event, likely unrelated to SARS-CoV-2 infection. Conclusions: SARS-CoV-2 infection among young competitive athletes is associated with a low prevalence of cardiac involvement and a low risk of clinical events in short-term follow-up.

Office of Naval Research, Stanford University, South African Department of the Environment, Forestry and Fisheries National Science Foundation.

Introduction: Bemisia tabaci is one of the important pests that cause direct damage by sucking plant fluids. The purpose of this study was to provide information on the life balance of the pest Bemisia tabaci in chili plant. Materials and Methods: This research was conducted at the Laboratory in the Faculty of Agriculture, University of Muhammadiyah Sumatera Utara, Medan from January to February 2020. The plants used in this test were three-month-old chili plant of Keriting Bogor The life balance test on plants was initiated by inserting 15 individuals of B. tabaci (5 males and 10 females) into a plastic tube. Results: The whitefly stuck in the hood from chili plant and has a long morphology of 0.2 to 0.3 mm. Eggs are inserted into plant tissue. Eggs under the leaves at the temperature of 26 to 32oC the incubation period lasts for 4 to 6 days, meanwhile at the temperature of 18 to 22oC increased to 10 until 16 days.

Aging is associated with dysfunction of the gut microbiota-immune-brain axis, a major regulatory axis in both brain health and in central nervous system (CNS) diseases. Antigen presenting cells (APCs) play a major role in sensing changes in the gut microbiota and regulation of innate and adaptive immune responses. APCs have also been implicated in various chronic inflammatory conditions, including age-related neurodegenerative diseases. The increase in chronic low-level inflammation seen with aging has also been linked to behavioral decline. Despite their acknowledged importance along the gut microbiota-immune-brain axis, there is limited evidence on how APCs change with aging. In this study, we examined age-related changes in myeloid APCs in the gut, spleen, and brain as well as changes in the gut microbiota and behavioral phenotype in mice ranging in age from 2 months up to 32 months of both sexes. Our data show that the number of peripherally-sourced myeloid APCs significantly increases with advanced aging in the brain. In addition, our data showed that age-related changes in APCs are subset-specific in the gut and sexually dimorphic in the spleen. Our work highlights the importance of studying myeloid APCs in an age-, tissue-, and sex-specific manner.

International audience; A key aspect of plant growth is the synthesis and deposition of cell walls. In specific tissues and cell types including xylem and fibre, a thick secondary wall comprised of cellulose, hemicellulose and lignin is deposited. Secondary cell walls provide a physical barrier that protects plants from pathogens, promotes tolerance to abiotic stresses and fortifies cells to withstand the forces associated with water transport and the physical weight of plant structures. Grasses have numerous cell wall features that are distinct from eudicots and other plants. Study of the model species Brachypodium distachyon as well as other grasses has revealed numerous features of the grass cell wall. These include the characterisation of xylosyl and arabinosyltransferases, a mixed-linkage glucan synthase and hydroxycinnamate acyltransferases. Perhaps the most fertile area for discovery has been the formation of lignins, including the identification of novel substrates and enzyme activities towards the synthesis of monolignols. Other enzymes function as polymerising agents or transferases that modify lignins and facilitate interactions with polysaccharides. The regulatory aspects of cell wall biosynthesis are largely overlapping with those of eudicots, but salient differences among species have been resolved that begin to identify the determinants that define grass cell walls.

SUMMARYPlants are continuously exposed to diurnal fluctuations in light and temperature, and spontaneous changes in their physical or biotic environment. The circadian clock coordinates regulation of gene expression with a 24-hour period, enabling the anticipation of these events.We used RNA sequencing to characterize the Brachypodium distachyon transcriptome under light and temperature cycles, as well as under constant conditions.Approximately 3% of the transcriptome was regulated by the circadian clock, a smaller proportion reported in most other species. For most transcripts that were rhythmic under all conditions, including many known clock genes, the period of gene expression lengthened from 24 to 27 h in the absence of external cues. To functionally characterize the cyclic transcriptome in B. distachyon, we used Gene Ontology enrichment analysis, and found several terms significantly associated with peak expression at particular times of the day. Furthermore we identified sequence motifs enriched in the promoters of similarly-phased genes, some potentially associated with transcription factors.When considering the overlap in rhythmic gene expression and specific pathway behavior, thermocycles was the prevailing cue that controlled diurnal gene regulation. Taken together, our characterization of the rhythmic B. distachyon transcriptome represents a foundational resource with implications in other grass species.

Wild-capture fisheries help provide food security to billions of people, yet bycatch of non-target species threatens ecosystem health and fishery sustainability. Appropriate monitoring and fisheries management can mitigate bycatch but require standardized bycatch data to be robustly recorded and effectively disseminated. Here we integrated and analysed 30,473 species-specific bycatch records from 95 US fisheries in 2010–2015. We examined patterns in fish and invertebrate, marine mammal, seabird and sea turtle bycatch and developed a standardized scoring system, the relative bycatch index, to assess bycatch performance of each fishery. The estimated amount of fish and invertebrate discards totalled 1.93 million tonnes (4.26 billion pounds) over the 6-year period. We found that the national discard rate is 10.5%, considerably lower than past estimates. Results from our relative bycatch index analysis can be used to facilitate management intervention strategies for particular fisheries or gear types, such as shrimp and otter trawls and several pelagic longline and gillnet fisheries, which had the poorest bycatch performance. These findings underscore the need for continued, high-quality, easily accessible bycatch information to better support fisheries management in the United States and globally. The sustainability of wild fisheries is limited by the capture of non-target species. This study estimates that such ‘bycatch’ from US fisheries totalled 1.93 million tonnes in 2010–2015, with a 10.5% discard rate. Despite considerable improvements, certain longline, trawl and gillnet fisheries have persistent bycatch issues.

Aim The Irrawaddy dolphin (Orcaella brevirostris) is an endangered cetacean found throughout Southeast Asia. The main threat to this species is human encroachment, led by entanglement in fishing gear. Information on this data‐poor species’ ecology and habitat use is needed to effectively inform spatial management. Location We investigated the habitat of a previously unstudied group of Irrawaddy dolphins in the eastern Gulf of Thailand, between the villages of Laem Klat and Khlong Yai, in Trat Province. This location is important as government groups plan to establish a marine protected area. Methods We carried out boat‐based visual line transect surveys with concurrent oceanographic measurements and used hurdle models to evaluate this species’ patterns of habitat use in this area. Results Depth most strongly predicted dolphin presence, while temperature was a strong predictor of group size. The highest probability of dolphin presence occurred at around 10.0 m with an optimal depth range of 7.50 to 13.05 m. The greatest number of dolphins was predicted at 24.93°C with an optimal range between 24.93 and 25.31°C. Dolphins are most likely to occur in two primary locations, one large region in the center of the study area (11o54′18′′N to 11o59′23′′N) and a smaller region in the south (11o47′28′′N to 11o49′59′′N). Protections for this population will likely have the greatest chance of success in these two areas. Main Conclusions The results of this work can inform management strategies within the immediate study area by highlighting areas of high habitat use that should be considered for marine spatial planning measures, such as the creation of marine protected areas. Species distribution models for this species in Thailand can also assist conservation planning in other parts of the species’ range by expanding our understanding of habitat preferences., We investigated the habitat of a previously unstudied group of endangered Irrawaddy dolphins (Orcaella brevirostris) in the eastern Gulf of Thailand. Depth and temperature emerged as the most important predictors of dolphin presence and group size. Using our results, we generated a map of dolphin high‐use areas that can be used to inform conservation.

Urinary tract infections (UTIs) are common diseases that are associated with significant morbidities. Multiple studies have indicated that multiple species of uropathogenesis bacteria invade and persist within bladder epithelial cells as a necessary step of uropathogenesis. Interestingly, many of these species are not canonically associated with intracellular infections. Although the first study describing bacteria within the urothelium was published two decades ago, this critical step of uropathogenesis remains relatively understudied.I established a murine model of community-acquired A. baumannii UTI, a previously unstudied manifestation of the disease. While immunocompetent mice resolved their infections quickly, immunocompromised mice displayed high bacterial burdens throughout their urinary tracts for several weeks. I found that mice infected using this model retained A. baumannii intracellular reservoirs (ABIRs) in their urothelium long after the resolution of the initial colonization event. Inserting a catheter into the bladders of these resolved mice triggered a same-strain UTI in over 50% of the mice. Stringent experimental controls suggest that these resurgences came from bacterial reservoirs within the resolved host. Further testing implicates the ABIRs as the most likely source.I have also characterized the intracellular phenotypes of multiple uropathogenic E. coli (UPEC) clinical isolates. While each isolate had unique strain-specific characteristics, all three of the phylogroup A strains proved to be incapable of properly undergoing the intracellular steps of uropathogenesis. I have also studied an important process used by intracellular UPEC, lactose metabolism. UPEC isolates with mutations in their lac operons formed significantly smaller intracellular bacterial communities, and were unable to complete IBC development. However, I found that UPEC strains with deficient lactose permeases were still capable of importing lactose-like sugars.Overall, my dissertation contributes to field of intracellular uropathogenesis in multiple ways. With E. coli, I have identified a potential link between bacterial genetics, specifically when a bacterium is a member of phylogroup A, and intracellular phenotype in the bladder. I have also established that lacY-deficient UPEC isolates are capable of internalizing lactose-like sugars, which suggests the presence of a secondary mechanism. I have also developed a murine model of community-acquired UTI for A. baumannii and have investigated both the pathogenesis and the prevalence of this manifestation. I have also developed the first murine model of resurgent infections for A. baumannii and have identified a potential reservoir bringing novel strains into the hospital in the form of host reservoirs. Previous Acinetobacter UTI research has focused primarily on complicated UTIs. Together, my findings expand our knowledge of Acinetobacter uropathogenesis in the previously unstudied, community-acquired model of infection.

Despite the increasing frequency and magnitude of extreme climate events, little is known about how their impacts flow through social and ecological systems or whether management actions can dampen deleterious effects. We examined how the record 2014–2016 Northeast Pacific marine heatwave influenced trade-offs in managing conflict between conservation goals and human activities using a case study on large whale entanglements in the U.S. west coast's most lucrative fishery (the Dungeness crab fishery). We showed that this extreme climate event diminished the power of multiple management strategies to resolve trade-offs between entanglement risk and fishery revenue, transforming near win–win to clear win–lose outcomes (for whales and fishers, respectively). While some actions were more cost-effective than others, there was no silver-bullet strategy to reduce the severity of these trade-offs. Our study highlights how extreme climate events can exacerbate human–wildlife conflict, and emphasizes the need for innovative management and policy interventions that provide ecologically and socially sustainable solutions in an era of rapid environmental change.

Reported here is a coding-complete genome sequence of a SARS CoV-2 variant obtained from raw wastewater samples at the University of Tennessee—Knoxville campus. This sequence provides insight into SARS CoV-2 variants that circulate on large college campuses but remain mostly undetected.

BACKGROUND Genetics of estrogen synthesis and breast cancer risk has been elusive. The 1245A→C missense-encoding polymorphism in HSD3B1, which is common in White populations, is functionally adrenal permissive and increases synthesis of the aromatase substrate androstenedione. We hypothesized that homozygous inheritance of the adrenal-permissive HSD3B1(1245C) is associated with postmenopausal estrogen receptor–positive (ER-positive) breast cancer. METHODS A prospective study of postmenopausal ER-driven breast cancer was done for determination of HSD3B1 and circulating steroids. Validation was performed in 2 other cohorts. Adrenal-permissive genotype frequency was compared between postmenopausal ER-positive breast cancer, the general population, and postmenopausal ER-negative breast cancer. RESULTS Prospective and validation studies had 157 and 538 patients, respectively, for the primary analysis of genotype frequency by ER status in White female breast cancer patients who were postmenopausal at diagnosis. The adrenal-permissive genotype frequency in postmenopausal White women with estrogen-driven breast cancer in the prospective cohort was 17.5% (21/120) compared with 5.4% (2/37) for ER-negative breast cancer (P = 0.108) and 9.6% (429/4451) in the general population (P = 0.0077). Adrenal-permissive genotype frequency for estrogen-driven postmenopausal breast cancer was validated using Cambridge and The Cancer Genome Atlas data sets: 14.4% (56/389) compared with 6.0% (9/149) for ER-negative breast cancer (P = 0.007) and the general population (P = 0.005). Circulating androstenedione concentration was higher with the adrenal-permissive genotype (P = 0.03). CONCLUSION Adrenal-permissive genotype is associated with estrogen-driven postmenopausal breast cancer. These findings link genetic inheritance of endogenous estrogen exposure to estrogen-driven breast cancer. FUNDING National Cancer Institute, NIH (R01CA236780, R01CA172382, and P30-CA008748); and Prostate Cancer Foundation Challenge Award.

The molecular mechanisms by which dietary fruits and vegetables confer cardiometabolic benefits remain poorly understood. Historically, these beneficial properties have been attributed to the antioxidant activity of flavonoids. Here, we reveal that the host metabolic benefits associated with flavonoid consumption actually hinge on gut microbial metabolism. We show that a single gut microbial flavonoid catabolite is sufficient to reduce diet-induced cardiometabolic disease burden in mice. Dietary supplementation with elderberry extract attenuated obesity and continuous delivery of the catabolite 4-hydroxphenylacetic acid was sufficient to reverse hepatic steatosis. Analysis of human gut metagenomes revealed that under one percent contains a flavonol catabolic pathway, underscoring the rarity of this process. Our study will impact the design of dietary and probiotic interventions to complement traditional cardiometabolic treatment strategies.One-Sentence SummarySelect gut microbes can metabolize flavonoids from a fruit and vegetable diet to monophenolic acids, which improve fatty liver disease.Graphical abstract

Oligoarticular juvenile idiopathic arthritis (oligo JIA) is the most common form of chronic inflammatory arthritis in children, yet the cause of this disease remains unknown. To understand immune responses in oligo JIA, we immunophenotyped synovial fluid T cells with flow cytometry, bulk RNA-Seq, single-cell RNA-Seq (scRNA-Seq), DNA methylation studies, and Treg suppression assays. In synovial fluid, CD4+, CD8+, and gamma delta T cells expressed Th1-related markers, whereas Th17 cells were not enriched. Th1 skewing was prominent in CD4+ T cells, including Tregs, and was associated with severe disease. Transcriptomic studies confirmed a Th1 signature in CD4+ T cells from synovial fluid. The regulatory gene expression signature was preserved in Tregs, even those exhibiting Th1 polarization. These Th1-like Tregs maintained Treg-specific methylation patterns and suppressive function, supporting the stability of this Treg population in the joint. Although synovial fluid CD4+ T cells displayed an overall Th1 phenotype, scRNA-Seq uncovered heterogeneous effector and regulatory subpopulations, including IFN-induced Tregs, peripheral helper T cells, and cytotoxic CD4+ T cells. In conclusion, oligo JIA is characterized by Th1 polarization that encompasses Tregs but does not compromise their regulatory identity. Targeting Th1-driven inflammation and augmenting Treg function may represent important therapeutic approaches in oligo JIA. Joint Biology Consortium [P30 AR070253]; NIH National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIAMS)United States Department of Health & Human ServicesNational Institutes of Health (NIH) - USANIH National Institute of Arthritis & Musculoskeletal & Skin Diseases (NIAMS) [K08 AR077037, T32 HL007633-35]; NIHUnited States Department of Health & Human ServicesNational Institutes of Health (NIH) - USA [5T32AI007512-34]; NIAMSUnited States Department of Health & Human ServicesNational Institutes of Health (NIH) - USANIH National Institute of Arthritis & Musculoskeletal & Skin Diseases (NIAMS) [P30 AR070253, R01 AR075906, R01 AR073201, K08 AR073339]; Fundacion Bechara; Arbuckle Family Fund for Arthritis Research; Rheumatology Research Foundation; Arthritis National Research Foundation; Office of Faculty Development at Boston Children's Hospital Published version We thank the patients and volunteers for participation in this study. We thank Steve Moskowit for support in preparing the graphical abstract for this study. The graphical abstract makes use of images available at Servier Medical Art (https://smart.servier.com).AMJ was supported in part by a microgrant from the Joint Biology Consortium (P30 AR070253). KW is supported by NIH National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIAMS) K08 AR077037. JN was funded by T32 HL007633-35. JER was supported by the NIH grant 5T32AI007512-34. PAN was funded by NIAMS awards R01 AR075906, R01 AR073201, P30 AR070253; the Fundacion Bechara; and the Arbuckle Family Fund for Arthritis Research. LAH was funded by NIAMS K08 AR073339, NIAMS P30 AR070253, an Investigator Award of the Rheumatology Research Foundation, an All Arthritis grant from the Arthritis National Research Foundation, and a Career Development Award from the Office of Faculty Development at Boston Children's Hospital.

Bile acids (BAs) serve multiple biological functions, ranging from the absorption of lipids and fat-soluble vitamins to serving as signaling molecules through the direct activation of dedicated cellular receptors. Synthesized by both host and microbial pathways, BAs are increasingly understood as participating in the regulation of numerous pathways relevant to metabolic diseases, including lipid and glucose metabolism, energy expenditure, and inflammation. Quantitative analyses of BAs in biological matrices can be problematic due to their unusual and diverse physicochemical properties, making optimization of a method that shows good accuracy, precision, efficiency of extraction, and minimized matrix effects across structurally distinct human and murine BAs challenging. Herein we develop and clinically validate a stable-isotope-dilution LC/MS/MS method for the quantitative analysis of numerous primary and secondary BAs in both human and mouse biological matrices. We also utilize this tool to investigate gut microbiota participation in the generation of structurally specific BAs in both humans and mice. We examine circulating levels of specific BAs and in a clinical case-control study of age- and gender-matched type 2 diabetes mellitus (T2DM) versus nondiabetics. BAs whose circulating levels are associated with T2DM include numerous 12α-hydroxyl BAs (taurocholic acid, taurodeoxycholic acid, glycodeoxycholic acid, deoxycholic acid, and 3-ketodeoxycholic acid), while taurohyodeoxycholic acid was negatively associated with diabetes. The LC/MS/MS-based platform described should serve as a robust, high-throughput investigative tool for studying the potential involvement of structurally specific BAs and the gut microbiome on both physiological and disease processes.

Juvenile salmon Oncorhynchus spp. experience variable mortality rates during their first few months in the ocean, and high growth during this period is critical to minimize size-selective predation. Examining links between the physical environment and foraging ecology is important to understand mechanisms that drive growth. These mechanisms are complex and include interactions among the physical environment, forage availability, bioenergetics, and salmon foraging behavior. Our objectives were to explore how seascape features (biological and physical) influence juvenile Chinook salmon O. tshawytscha foraging at annual and feeding-event scales in the California Current Ecosystem. We demonstrate that forage abundance was the most influential determinant of mean salmon stomach fullness at the annual scale, while at the feeding-event scale, fullness increased with greater cumulative upwelling during the 10 d prior and at closer distances to thermal fronts. Upwelling promotes nutrient enrichment and productivity, while fronts concentrate organisms, likely resulting in available prey to salmon and increased stomach fullness. Salmon were also more likely to consume krill when there was high prior upwelling, and switched to non-krill invertebrates (i.e. amphipods, decapods, copepods) in weaker upwelling conditions. As salmon size increased from 72-250 mm, salmon were more likely to consume fish, equal amounts of krill, and fewer non-krill invertebrates. Broad seascape processes determined overall prey availability and fullness in a given year, while fine- and meso-scale processes influenced local accessibility of prey to individual salmon. Therefore, processes occurring at multiple scales will influence how marine organisms respond to changing environments.

Climate change and increased variability and intensity of climate events, in combination with recovering protected species populations and highly capitalized fisheries, are posing new challenges for fisheries management. We examine socio-ecological features of the unprecedented 2014–2016 northeast Pacific marine heatwave to understand the potential causes for record numbers of whale entanglements in the central California Current crab fishery. We observed habitat compression of coastal upwelling, changes in availability of forage species (krill and anchovy), and shoreward distribution shift of foraging whales. We propose that these ecosystem changes, combined with recovering whale populations, contributed to the exacerbation of entanglements throughout the marine heatwave. In 2016, domoic acid contamination prompted an unprecedented delay in the opening of California’s Dungeness crab fishery that inadvertently intensified the spatial overlap between whales and crab fishery gear. We present a retroactive assessment of entanglements to demonstrate that cooperation of fishers, resource managers, and scientists could mitigate future entanglement risk by developing climate-ready fisheries approaches, while supporting thriving fishing communities., Climate-driven extreme events may have strong local impacts on marine organisms and fisheries. Here the authors report increased whale entanglements in the northeast Pacific following a marine heatwave, and propose compression of coastal upwelling habitat as the potential driver.

This research was funded in part by grants from the National Science Foundation (IOS-1656676, IOS-1656656; OPP-1644209 and 07-39483), the Office of Naval Research (N000141612477), and a Terman Fellowship from Stanford University. All procedures in USA were conducted under approval of the National Marine Fisheries Service (Permits 781-1824, 16163, 14809, 16111, 19116, 15271, 20430), Canada DFO SARA/MML 2010-01/SARA-106B, National Marine Sanctuaries (MULTI-2017-007), Antarctic Conservation Act (2009-014, 2015-011) and institutional IACUC committee protocols. Fieldwork, data collection and data processing for M. densirostris were funded by the Office of Naval Research grants N00014-07-10988, N00014-07-11023, N00014-08-10990, N00014-18-1-2062, and 00014-15-1-2553, and the U.S. Strategic Environmental Research and Development Program Grant SI-1539. PLT gratefully acknowledges funding from funding the MASTS pooling initiative (The Marine Alliance for Science and Technology for Scotland). MASTS is funded by the Scottish Funding Council (HR09011) and contributing institutions. The largest animals are marine filter feeders, but the underlying mechanism of their large size remains unexplained. We measured feeding performance and prey quality to demonstrate how whale gigantism is driven by the interplay of prey abundance and harvesting mechanisms that increase prey capture rates and energy intake. The foraging efficiency of toothed whales that feed on single prey is constrained by the abundance of large prey, whereas filter-feeding baleen whales seasonally exploit vast swarms of small prey at high efficiencies. Given temporally and spatially aggregated prey, filter feeding provides an evolutionary pathway to extremes in body size that are not available to lineages that must feed on one prey at a time. Maximum size in filter feeders is likely constrained by prey availability across space and time. Postprint

How predators maximize energetic gains while minimizing the costs associated with exploiting heterogeneous prey remains a difficult ecological principle to test in natural systems. Deep‐diving, air‐breathing predators face conflicting demands of oxygen conservation to extend dive time and oxygen usage from the exercise required to find and capture prey. How predators balance these opposing factors is additionally complicated by prey patches that are heterogeneous spatially, temporally and in quality. Tags deployed on foraging fin whales revealed that deeper dives consisted of higher feeding rates (lunges/hr), as generally predicted by optimal foraging theory. By simultaneously measuring prey density and distribution in the local environment, we show that whales increased their dive depths in order to forage on the densest prey patches. Despite the increased travel time needed to find deeper prey during a breath‐hold dive, the increase in feeding rates of fin whales and modelled prey consumption quadrupled compared to shallow foraging. Because the cost of transport is low at this extreme in body size, we posit that feeding on the deep prey patches significantly increases the energetic efficiency of foraging. Given the increasing recognition that anthropogenic disturbance can curtail deep foraging dives in many cetacean species, endangered fin whales may be susceptible to significant energetic losses that may impact individual fitness and population health in some areas. A free Plain Language Summary can be found within the Supporting Information of this article.

Forage fishes are ecologically and economically important in marine ecosystems worldwide and thus are a focal topic for ecosystem-based fisheries management. In the California Current Large Marine Ecosystem (CCLME), the community dynamics of forage populations have been studied at regional spatial scales, but not across regions. To evaluate indicators of the forage community at the ecosystem-wide scale, we examine temporal variability of forage assemblages in Northern (Oregon/Washington), Central (California; Point Reyes to Monterey Bay) and Southern (southern California) regions of the CCLME from 1998 through 2016 which include years with unprecedented climate variability. Forage communities fluctuated greatly between years within each region owing to regionally low abundances of common taxa in at least some years (e.g., rockfishes Sebastes spp. in each region). Comparison of species assemblages among regions indicate that that temporal shifts in assemblage structure were largely synchronous throughout the CCLME. However, dynamics of most individual taxa were out of phase between regions, indicating that different taxa drove the variability in each region. Within regions, taxa with similar adult ecological niches tended to co-vary, suggesting synchronous responses to environmental forcing. Major changes in forage assemblage structure are descriptively linked to large oceanographic perturbations such as the transition from El Nino to La Nina conditions in 1998, anomalous upwelling in 2005, and the onset of a large marine heatwave in fall-winter 2013–2014. Changes in forage assemblage structure are reflected in prey switching in the diet of California sea lions, Zalophus californianus, in the Southern region. The multivariate forage indices that we develop can serve as effective indicators of regional forage community composition shifts in the CCLME and provide managers with context on spatio-temporal changes in the structure of forage fish communities important to top predators in this system.

AIM: Advances in ecological and environmental modelling offer new opportunities for estimating dynamic habitat suitability for highly mobile species and supporting management strategies at relevant spatiotemporal scales. We used an ensemble modelling approach to predict daily, year‐round habitat suitability for a migratory species, the blue whale (Balaenoptera musculus), and demonstrate an application for evaluating the spatiotemporal dynamics of their exposure to ship strike risk. LOCATION: The California Current Ecosystem (CCE) and the Southern California Bight (SCB), USA. METHODS: We integrated a long‐term (1994–2008) satellite tracking dataset on 104 blue whales with data‐assimilative ocean model output to assess year‐round habitat suitability. We evaluated the relative utility of ensembling multiple model types compared to using single models, and selected and validated candidate models using multiple cross‐validation metrics and independent observer data. We quantified the spatial and temporal distribution of exposure to ship strike risk within shipping lanes in the SCB. RESULTS: Multi‐model ensembles outperformed single‐model approaches. The final ensemble model had high predictive skill (AUC = 0.95), resulting in daily, year‐round predictions of blue whale habitat suitability in the CCE that accurately captured migratory behaviour. Risk exposure in shipping lanes was highly variable within and among years as a function of environmental conditions (e.g., marine heatwave). MAIN CONCLUSIONS: Daily information on three‐dimensional oceanic habitats was used to model the daily distribution of a highly migratory species with high predictive power and indicated that management strategies could benefit by incorporating dynamic environmental information. This approach is readily transferable to other species. Dynamic, high‐resolution species distribution models are valuable tools for assessing risk exposure and targeting management needs.

Early-life antibiotic exposure perturbs the intestinal microbiota and accelerates type 1 diabetes (T1D) development in the NOD mouse model. Here, we found that maternal cecal microbiota transfer (CMT) to NOD mice after early-life antibiotic perturbation largely rescued the induced T1D enhancement. Restoration of the intestinal microbiome was significant and persistent, remediating the antibiotic-depleted diversity, relative abundance of particular taxa, and metabolic pathways. CMT also protected against perturbed metabolites and normalized innate and adaptive immune effectors. CMT restored major patterns of ileal microRNA and histone regulation of gene expression. Further experiments suggest a gut-microbiota-regulated T1D protection mechanism centered on Reg3γ, in an innate intestinal immune network involving CD44, TLR2, and Reg3γ. This regulation affects downstream immunological tone, which may lead to protection against tissue-specific T1D injury.

Over the past three decades the United States has experienced a devastating opioid epidemic. One of the many debilitating side effects of chronic opioid use is opioid-induced bowel dysfunction. We investigated the impact of methadone maintenance treatment (MMT) on the gut microbiome, the gut bacterial metabolite profile, and intestinal barrier integrity. An imbalance in key bacterial communities required for production of short-chain fatty acids (SCFAs), mucus degradation, and maintenance of barrier integrity was identified. Consistent with dysbiosis, levels of fecal SCFAs were reduced in MMT. We demonstrated that metabolites synthesized by Akkermansia muciniphila modulate intestinal barrier integrity in vitro by strengthening the pore pathway and regulating tight junction protein expression. This study provides essential information about the therapeutic potential of A. muciniphila and warrants development of new clinical strategies that aim to normalize the gut microbiome in individuals affected by chronic opioid use.

There are six described pathotypes of Escherichia coli that cause significant clinical illness in humans. Enteroinvasive E. coli (EIEC) strains have been shown to be separated into three phylogenomic clades. To add to a limited body of EIEC genomic data, we report two high-quality draft genomes representing different EIEC phylogenomic clades.

Earth‐observing satellites are a major research tool for spatially explicit ecosystem nowcasting and forecasting. However, there are practical challenges when integrating satellite data into usable real‐time products for stakeholders. The need of forecast immediacy and accuracy means that forecast systems must account for missing data and data latency while delivering a timely, accurate, and actionable product to stakeholders. This is especially true for species that have legal protection. Acipenser oxyrinchus oxyrinchus (Atlantic sturgeon) were listed under the United States Endangered Species Act in 2012, which triggered immediate management action to foster population recovery and increase conservation measures. Building upon an existing research occurrence model, we developed an Atlantic sturgeon forecast system in the Delaware Bay, USA. To overcome missing satellite data due to clouds and produce a 3‐d forecast of ocean conditions, we implemented data interpolating empirical orthogonal functions (DINEOF) on daily observed satellite data. We applied the Atlantic sturgeon research model to the DINEOF output and found that it correctly predicted Atlantic sturgeon telemetry occurrences over 90% of the time within a 3‐d forecast. A similar framework has been utilized to forecast harmful algal blooms, but to our knowledge, this is the first time a species distribution model has been applied to DINEOF gap‐filled data to produce a forecast product for fishes. To implement this product into an applied management setting, we worked with state and federal organizations to develop real‐time and forecasted risk maps in the Delaware River Estuary for both state‐level managers and commercial fishers. An automated system creates and distributes these risk maps to subscribers’ mobile devices, highlighting areas that should be avoided to reduce interactions. Additionally, an interactive web interface allows users to plot historic, current, future, and climatological risk maps as well as the underlying model output of Atlantic sturgeon occurrence. The mobile system and web tool provide both stakeholders and managers real‐time access to estimated occurrences of Atlantic sturgeon, enabling conservation planning and informing fisher behavior to reduce interactions with this endangered species while minimizing impacts to fisheries and other projects.

Aims Inflammation plays an important role in cardiovascular disease (CVD) development. The NOD-like receptor protein-3 (NLRP3) inflammasome contributes to the development of atherosclerosis in animal models. Components of the NLRP3 inflammasome pathway such as interleukin-1β can therapeutically be targeted. Associations of genetically determined inflammasome-mediated systemic inflammation with CVD and mortality in humans are unknown. Methods and results We explored the association of genetic NLRP3 variants with prevalent CVD and cardiovascular mortality in 538 167 subjects on the individual participant level in an explorative gene-centric approach without performing multiple testing. Functional relevance of single-nucleotide polymorphisms on NLRP3 inflammasome activation has been evaluated in monocyte-enriched peripheral blood mononuclear cells (PBMCs). Genetic analyses identified the highly prevalent (minor allele frequency 39.9%) intronic NLRP3 variant rs10754555 to affect NLRP3 gene expression. rs10754555 carriers showed significantly higher C-reactive protein and serum amyloid A plasma levels. Carriers of the G allele showed higher NLRP3 inflammasome activation in isolated human PBMCs. In carriers of the rs10754555 variant, the prevalence of coronary artery disease was significantly higher as compared to non-carriers with a significant interaction between rs10754555 and age. Importantly, rs10754555 carriers had significantly higher risk for cardiovascular mortality during follow-up. Inflammasome inducers (e.g. urate, triglycerides, apolipoprotein C3) modulated the association between rs10754555 and mortality. Conclusion The NLRP3 intronic variant rs10754555 is associated with increased systemic inflammation, inflammasome activation, prevalent coronary artery disease, and mortality. This study provides evidence for a substantial role of genetically driven systemic inflammation in CVD and highlights the NLRP3 inflammasome as a therapeutic target.

Typical enteropathogenic E. coli (tEPEC) is a leading cause of diarrhea and associated death in children worldwide. Atypical EPEC (aEPEC) lacks the plasmid encoding bundle-forming pili and is considered less virulent, but the molecular mechanisms of virulence is poorly understood. We recently identified kittens as a host for aEPEC where intestinal epithelial colonization was associated with diarrheal disease and death. The purpose of this study was to (1) determine the genomic similarity between kitten aEPEC and human aEPEC isolates and (2) to identify genotypic or phenotypic traits associated with virulence in kitten aEPEC. We observed no differences between kitten and human aEPEC in core genome content or gene cluster sequence identities and no distinguishing genomic content was observed between aEPEC isolates from kittens with nonclinical colonization (NC) versus lethal infection (LI). Variation in adherence pattern and ability to aggregate actin in cultured cells mirrored descriptions of human aEPEC. The aEPEC isolated from kittens with LI were significantly more motile than isolates from kittens with NC. Kittens may serve as a reservoir for aEPEC that are indistinguishable from human aEPEC isolates and may provide a needed comparative animal model for the study of aEPEC pathogenesis. Motility seems to be an important factor in pathogenesis of LI associated with aEPEC in kittens.

Antibody-mediated rejection (ABMR) continues to be a major problem undermining the success of kidney transplantation. Acute antibody-mediated rejection (ABMR) of kidney grafts is characterized by neutrophil and monocyte margination in the tubular capillaries and by graft transcripts indicating NK cell activation, but the myeloid cell mechanisms required for acute ABMR have remained unclear. Dysregulated donor-specific antibody (DSA) responses with high antibody titers are induced in B6.CCR5-/- mice transplanted with complete MHC mismatched A/J kidneys and are required for rejection of the grafts. This study tested the role of recipient myeloid cell production of myeloperoxidase (MPO) on the cellular and molecular components of acute ABMR. Despite induction of equivalent DSA titers, B6.CCR5-/- recipients rejected A/J kidneys between days 18-25 with acute ABMR whereas B6.CCR5-/-MPO-/- recipients rejected the grafts between days 46-54 with histopathological features of chronic graft injury. On day 15, myeloid cells infiltrating grafts from B6.CCR5-/- and B6.CCR5-/-MPO-/- recipients expressed marked phenotypic and functional transcript differences that correlated with development of acute vs. chronic allograft injury, respectively. Near the time of peak DSA titers, NK cell activation to proliferate and express CD107a was markedly decreased within allografts in B6.CCR5-/-MPO-/- recipients. Despite high titers of DSA, depletion of neutrophils reproduced the inhibition of NK cell activation and decreased macrophage infiltration but increased monocytes producing MPO. Overall, recipient myeloid cells producing MPO regulate graft-infiltrating monocyte/macrophage function and NK cell activation that are required for DSA-mediated acute kidney allograft injury and their absence switches DSA-mediated acute pathology and graft outcomes to chronic ABMR.

Dysregulation of immune responses has been linked to the generation of immunoglobulin G (IgG) autoantibodies that target human β1ARs and contribute to deleterious cardiac outcomes. Given the benefits of β-blockers observed in patients harboring the IgG3 subclass of autoantibodies, we investigated the role of these autoantibodies in human β1AR function. Serum and purified IgG3(+) autoantibodies from patients with onset of cardiomyopathy were tested using human embryonic kidney (HEK) 293 cells expressing human β1ARs. Unexpectedly, pretreatment of cells with IgG3(+) serum or purified IgG3(+) autoantibodies impaired dobutamine-mediated adenylate cyclase (AC) activity and cyclic adenosine monophosphate (cAMP) generation while enhancing biased β-arrestin recruitment and Extracellular Regulated Kinase (ERK) activation. In contrast, the β-blocker metoprolol increased AC activity and cAMP in the presence of IgG3(+) serum or IgG3(+) autoantibodies. Because IgG3(+) autoantibodies are specific to human β1ARs, non–failing human hearts were used as an endogenous system to determine their ability to bias β1AR signaling. Consistently, metoprolol increased AC activity, reflecting the ability of the IgG3(+) autoantibodies to bias β-blocker toward G-protein coupling. Importantly, IgG3(+) autoantibodies are specific toward β1AR as they did not alter β2AR signaling. Thus, IgG3(+) autoantibody biases β-blocker toward G-protein coupling while impairing agonist-mediated G-protein activation but promoting G-protein–independent ERK activation. This phenomenon may underlie the beneficial outcomes observed in patients harboring IgG3(+) β1AR autoantibodies.

Plant growth is mediated by the integration of internal and external cues, perceived by cells and transduced into a developmental program that gives rise to cell division, elongation, and wall thickening. Extra-, inter-, and intra- physical cellular forces contribute to this regulation. Across the plant kingdom thigmomorphogenesis is widely observed to alter plant morphology by reducing stem height and increasing stem diameter. The transcriptome is highly responsive to touch, including components of calcium signaling pathways and cell wall modification. One aspect of this cascade involves gibberellins (GA) and bZIP family transcription factors. Here, we present data connecting thigmomorphogenesis with secondary cell wall synthesis by GA inactivation and bZIP translocation into the nucleus. Brachypodium distachyon SECONDARY WALL INTERACTING bZIP (SWIZ) protein translocated into the nucleus in response to mechanical stimulation. This translocation was mitigated by supplementing with exogenous bioactive GA, and induced by chemical inhibition of GA synthesis. Misregulation of SWIZ expression resulted in plants with reduced stem and root elongation, and following mechanical stimulation, increased secondary wall thickness. Classical touch responsive genes were upregulated in B. distachyon following touch, and we observe significant induction of the glycoside hydrolase 17 family, which may be indicative of a facet of grass thigmomorphogenesis. SWIZ protein binding to an E-box variant in exons and introns was associated with immediate activation followed by repression of gene expression. Thus, SWIZ is a transcriptional regulatory component of thigmomorphogenesis, which includes the thickening of secondary cell walls.

Our study goal was to investigate the impact of biocides and nanoparticles (NPs) on the microbial diversity in a hydraulic fracturing impacted stream. Biocides and NPs are known for their antimicrobial properties and controlling microbial growth. Previous work has shown that biocides can alter the microbial community composition of stream water and may select for biocide-resistant bacteria. Additional studies have shown that nanoparticles can also alter microbial community composition. However, previous work has often focused on the response to a single compound. Here we provide a more thorough analysis of the microbial community response to three different biocides and three different nanoparticles. A microcosm-based study was undertaken that exposed stream microbial communities to either biocides or NPs. Our results showed a decrease in bacterial abundance with different types of nanoparticles, but an increase in microbial abundance in biocide-amended treatments. The microbial community composition (MCC) was distinct from the controls in all biocide and NP treatments, which resulted in differentially enriched taxa in the treatments compared to the controls. Our results indicate that NPs slightly altered the MCC compared to the biocide-treated microcosms. After 14 days, the MCC in the nanoparticle-treated conditions was similar to the MCC in the control. Conversely, the MCC in the biocide-treated microcosms was distinct from the controls at day 14 and distinct from all conditions at day 0. This finding may point to the use of NPs as an alternative to biocides in some settings.

Plastic pollution has pervaded almost every facet of the biosphere, yet we lack an understanding of consumption risk by marine species at the global scale. To address this, we compile data from research documenting plastic debris ingestion by marine fish, totaling 171,774 individuals of 555 species. Overall, 386 marine fish species have ingested plastic debris including 210 species of commercial importance. However, 148 species studied had no records of plastic consumption, suggesting that while this evolutionary trap is widespread, it is not yet universal. Across all studies that accounted for microplastics, the incidence rate of plastic ingested by fish was 26%. Over the last decade this incidence has doubled, increasing by 2.4 ± 0.4% per year. This is driven both by increasing detection of smaller sized particles as a result of improved methodologies, as well as an increase in fish consuming plastic. Further, we investigated the role of geographic, ecological, and behavioral factors in the ingestion of plastic across species. These analyses revealed that the abundance of plastic in surface waters was positively correlated to plastic ingestion. Demersal species are more likely to ingest plastic in shallow waters; in contrast, pelagic species were most likely to consume plastic below the mixed layer. Mobile predatory species had the highest likelihood to ingest plastic; similarly, we found a positive relationship between trophic level and plastic ingestion. We also find evidence that surface ingestion‐deep sea egestion of microplastics by mesopelagic myctophids is likely a key mechanism for the export of microplastics from the surface ocean to the seafloor, a sink for marine debris. These results elucidate the role of ecology and biogeography underlying plastic ingestion by marine fish and point toward species and regions in urgent need of study., Our global analysis found 386 marine fish species that have ingested plastic debris, including 210 species of commercial importance. However, 148 species studied had no records of plastic consumption. Over the last decade the prevalence of plastic ingestion by marine fish has doubled, increasing by 2.4% per year, as a result of improved detection methodologies as well as an increase in fish consuming plastic. The projected increase in plastic production and disposal in the coming decades is expected to exacerbate this issue globally.

Early-life antibiotic exposure perturbs the intestinal microbiota, alters innate intestinal immunity, and accelerates type 1 diabetes (T1D) development in the NOD mouse model. Here we found that maternal cecal microbiota transfer (CMT) to NOD mice with early-life antibiotic perturbation partially rescued the induced T1D acceleration. The restoration effects on the intestinal microbiome were substantial and persistent, remediating the antibiotic-depleted diversity, relative abundance of particular taxa, and metabolic pathways. CMT also protected against perturbed cecal and serum metabolites and normalized innate and adaptive immune effectors. CMT restored patterns of ileal microRNA and histone regulation of gene expression and exon-splicing. Based on analyses of experimental data, we propose an innate intestinal immune network involving CD44, TLR2, and Reg3γ, as well as their multiple microRNA and epigenetic regulators that sense intestinal signaling by the gut microbiota. This regulation affects downstream immunological tone, leading to protection against the tissue-specific T1D injury.

WOS:000658681300001; International audience; Little is known about the effects of large-scale breeding range expansions on the ecology of top marine predators. We examined the effects of a recent range expansion on the breeding and foraging ecology of Laysan albatrosses (Phoebastria immutabilis). Laysan albatrosses expanded from historical breeding colonies in the Central Pacific Ocean to the Eastern Pacific Ocean around central Baja California, Mexico, leading to a 4,000-km shift from colonies located adjacent to the productive transition zone in the Central Pacific to colonies embedded within the eastern boundary current upwelling system of the Eastern Pacific California Current. We use electronic tagging and remote sensing data to examine the consequences of this range expansion on at-sea distribution, habitat use, foraging habitat characteristics, and foraging behavior at sea by comparing birds from historic and nascent colonies. We found the expansion resulted in distinct at-sea segregation and differential access to novel oceanographic habitats. Birds from the new Eastern Pacific colony on Guadalupe Island, Mexico have reduced ranges, foraging trip lengths and durations, and spend more time on the water compared to birds breeding in the Central Pacific on Tern Island, United States. Impacts of the range expansion to the post-breeding season were less pronounced where birds maintained some at-sea segregation but utilized similar habitat and environmental variables. These differences have likely benefited the Eastern Pacific colony which has significantly greater reproductive output and population growth rates. Laysan albatrosses have the plasticity to adapt to distinctly different oceanographic habitats and also provide insight on the potential consequences of range shifts to marine organisms.

Patients with chronic kidney disease (CKD) have elevated circulating levels of trimethylamine N-oxide (TMAO), a metabolite derived from gut microbes and associated with cardiovascular diseases. High circulating levels of TMAO and its dietary precursor, choline, predict increased risk for development of CKD in apparently healthy subjects, and studies in mice fed TMAO or choline suggest that TMAO can contribute to kidney impairment and renal fibrosis. Here we examined the interactions between TMAO, kidney disease, and cardiovascular disease in mouse models. We observed that while female hyperlipidemic apoE KO mice fed a 0.2% adenine diet for 14 weeks developed CKD with elevated plasma levels of TMAO, provision of a non-lethal inhibitor of gut microbial trimethylamine (TMA) production, iodomethylcholine (IMC), significantly reduced multiple markers of renal injury (plasma creatinine, cystatin C, FGF23, and TMAO), reduced histopathologic evidence of fibrosis, and markedly attenuated development of microalbuminuria. In addition, while the adenine-induced CKD model significantly increased heart weight, a surrogate marker for myocardial hypertrophy, this was largely prevented by IMC supplementation. Surprisingly, adenine feeding did not increase atherosclerosis and significantly decreased the expression of inflammatory genes in the aorta compared to the control groups, effects unrelated to TMAO levels. Our data demonstrate that inhibition of TMAO production attenuated CKD development and cardiac hypertrophy in mice, suggesting that TMAO reduction may be a novel strategy in treating CKD and its cardiovascular disease complications.

Obesity has repeatedly been linked to reorganization of the gut microbiome, yet to this point obesity therapeutics have been targeted exclusively toward the human host. Here we show that gut microbe-targeted inhibition of the trimethylamine N-oxide (TMAO) pathway protects mice against the metabolic disturbances associated with diet-induced obesity (DIO) or leptin deficiency (ob/ob). Small molecule inhibition of the gut microbial enzyme choline TMA-lyase (CutC) does not reduce food intake, but is instead associated with beneficial remodeling of the gut microbiome, improvement in glucose tolerance, and enhanced energy expenditure. We also show that CutC inhibition is associated with reorganization of host circadian control of both phosphatidylcholine and energy metabolism. This study underscores the relationship between microbe and host metabolism, and provides evidence that gut microbe-derived trimethylamine (TMA) is a key regulator of the host circadian clock. This work also demonstrates that gut microbe-targeted enzyme inhibitors have untapped potential as anti-obesity therapeutics.

16 Pags.- 8 Figs. This article is licensed under a Creative Commons Attribution 4.0 International License., Our understanding of polyploid genome evolution is constrained because we cannot know the exact founders of a particular polyploid. To differentiate between founder effects and post polyploidization evolution, we use a pan-genomic approach to study the allotetraploid Brachypodium hybridum and its diploid progenitors. Comparative analysis suggests that most B. hybridum whole gene presence/absence variation is part of the standing variation in its diploid progenitors. Analysis of nuclear single nucleotide variants, plastomes and k-mers associated with retrotransposons reveals two independent origins for B. hybridum, ~1.4 and ~0.14 million years ago. Examination of gene expression in the younger B. hybridum lineage reveals no bias in overall subgenome expression. Our results are consistent with a gradual accumulation of genomic changes after polyploidization and a lack of subgenome expression dominance. Significantly, if we did not use a pan-genomic approach, we would grossly overestimate the number of genomic changes attributable to post polyploidization evolution., The work conducted by the US DOE Joint Genome Institute is supported by the Office of Science of the US Department of Energy under Contract no. DE-AC02-05CH11231 and User Agreement No. FP00006675 between the University of Zaragoza (User) and the DOE (Community Science Program 503504 proposal); S.J. was supported by the DOE Office of Science Graduate Student Research Program; P.C., B.C.-M., A.D.P., and R.S. were supported by a Spanish Ministry of Economy and Competitiveness grant CGL2016-79790-P; P.C., A.D.P., and R.S. were supported by a Bioflora A01-17 grant co-funded by the Spanish Aragon Government and the European Social Fund. R.H., E.W., and J.L. were supported by the National Science Centre Poland (grants DEC-2012/04/A/NZ3/00572 and DEC-2014/14/M/NZ2/00519). J.H.D. and C.N. were supported by Leverhulme Trust (grant no. 10754). A.C.E. and A.D. were supported by the European Research Council under the European Union’s Seventh Framework Program (FP7/2007-2013)/ERC grant agreement no [GA335691 “Effectomics”], the Austrian Science Fund (FWF): [P27429-B22, P27818-B22, I 3033-B22], and the Austrian Academy of Science (OEAW).

The phenomenon of yeast (Y)⇄ mold (M) dimorphism (morphogenesis) has been observed for many years, but research in this area has intensified over the past 10 years. There are at least two major reasons for the current surge of interest. First, the nuclear complement of genetic material in a haploid fungal nucleus, such as in Saccharomyces cerevisiae, may be only five times that of a typical prokaryote (Hartwell, 1974). The relatively small number of genes in these primitive eukaryotes, coupled with the fact that Y ⇄ M dimorphism can be controlled in the laboratory and is a reversible event, makes fungi one of the simplest morphogenetic models of eukaryotes. It is hoped that clues to regulation and control of morphogenesis in mammalian and plant systems will be uncovered through studies on fungi. Second, several fungi that are capable of causing disease in man undergo a morphogenetic change upon invasion of host tissues. Organisms such as Ajellomyces capsulatus (Histoplasma capsulatum), Ajellomyces {Blastomyces) dermatitidis, Paracoccidioides brasiliensis, and Sporothrix schenckii grow as fluffy molds at room temperature on usual media, but predominate as yeasts when in host tissues or when grown in an appropriate medium at 37°C. Candida species, and most notably Candida albicans, usually grow as yeasts on common laboratory media at 24 and 37°C, but grow as a mixture of yeasts and hyphae (hyphae and pseudohyphae) upon tissue invasion in a susceptible animal host. Because a Y⇄M transformation of these important disease-producing agents of man seems to be a criterion for infectivity, an understanding of dimorphic mechanisms may lead to improved methods of controlling diseases by these fungi.