The Impact of Selenium on the Rhizosphere Microbiome of a Hyperaccumulation Plant Cardamine Violifolia

Abstract Cardamine violifolia is the only selenium hyperaccumulation plant found in China. It has been developed as a source of medicinal and edible products for selenium supplementation of human. It is essential to increase selenium content of C. violifolia for nutrient biofortification and many planting approaches have been developed to achieve this aim. However, the contribution of rhizosphere microbes of C. violifolia to the selenium enrichment has not been investigated. In this study, four types of selenium, i.e., selenate, selenite, nanoparticles element selenium from Bacillus subtilis, and organic selenium from yeast, was added to the soil for the growth of C. violifolia, respectively. Selenate had the highest accumulation in C. violifolia, following by selenite, B. subtilis-Se, and yeast-Se. Except for yeast-Se, the concentration of selenium in C. violifolia is positively correlated with the amount of selenium added in the soil. Furthermore, different exogenous selenium exhibited distinct effects on the rhizosphere microbiome of C. violifolia. Both Alpha diversity and Beta diversity analyses displayed that rhizosphere microbiome were more obviously affected by selenium from B. subtilis and yeast than that of selenate and selenite. Different microbial species were enriched in the rhizosphere of C. violifolia under various exogenous selenium treatments. B. subtilis-Se application enhanced the abundance of Leucobacter, Sporosarcina, Patulibacter, and Denitrobacter, and Yeast-Se application enriched the abundance of Singulishaera, Lactobacillus, Bdellovirio, and Bosea. Bosea and the taxon belonging to the order of Solirubrobacterales was enriched in the samples with selenite and selenite addition, respectively, and their abundance was linearly related to the concentration of selenate and selenite application in the rhizosphere of C. violifolia. In summary, this study revealed the response of the rhizosphere microbiome of C. violifolia to exogenous selenium and it is of help to develop suitable selenium fertilizers to increase selenium hyperaccumulation level of this plant.

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Impact of intrapartum antibiotics on the infant gastrointestinal microbiome: a narrative review

Archives of Disease in Childhood ◽

10.1136/archdischild-2021-322590 ◽

2021 ◽

pp. archdischild-2021-322590

Author(s):

Laura Diamond ◽

Rachel Wine ◽

Shaun K Morris

Keyword(s):

Gestational Age ◽

Beta Diversity ◽

Mode Of Delivery ◽

Alpha Diversity ◽

First Year ◽

Feeding Method ◽

Alpha And Beta Diversity ◽

Ovid Medline ◽

First Year Of Life ◽

The Impact

BackgroundThe composition of the infant gastrointestinal (GI) microbiome has been linked to adverse long-term health outcomes and neonatal sepsis. Several factors are known to impact the composition of the microbiome, including mode of delivery, gestational age, feeding method and exposure to antibiotics. The impact of intrapartum antibiotics (IPAs) on the infant microbiome requires further research.ObjectiveWe aimed to evaluate the impact of IPAs on the infant GI microbiome.MethodsWe searched Ovid MEDLINE and Embase Classic+Embase for articles in English reporting on the microbiome of infants exposed to IPAs from the date of inception to 3 January 2021. Primary outcomes included abundance and colonisation of Bifidobacterium and Lactobacillus, as well as alpha and beta diversity.Results30 papers were included in this review. In the first year of life, following exposure to IPAs, 30% (6/20) of infant cohorts displayed significantly reduced Bifidobacterium, 89% (17/19) did not display any significant differences in Lactobacillus colonisation, 21% (7/34) displayed significantly reduced alpha diversity and 35% (12/34) displayed alterations in beta diversity. Results were further stratified by delivery, gestational age (preterm or full term) and feeding method.ConclusionsIPAs impact the composition of the infant GI microbiome, resulting in possible reductions Bifidobacterium and alpha diversity, and possible alterations in beta diversity. Our findings may have implications for maternal and neonatal health, including interventions to prevent reductions in health-promoting bacteria (eg, probiotics) and IPA class selection.

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Whole Wheat and Bran Cereal Affects Microbiome Stability

Current Developments in Nutrition ◽

10.1093/cdn/nzab054_017 ◽

2021 ◽

Vol 5 (Supplement_2) ◽

pp. 1162-1162

Author(s):

Abigail Johnson ◽

Mo Houtti ◽

Anna Saboe ◽

Katie Koecher ◽

Ravi Menon ◽

...

Keyword(s):

Beta Diversity ◽

Mixed Model ◽

Linear Mixed Model ◽

Alpha Diversity ◽

Dosage Level ◽

Rank Test ◽

Microbiome Composition ◽

Whole Wheat ◽

The Impact ◽

Fiber Cereal

Abstract Objectives Health outcomes in previous fiber intervention studies have been variable, potentially due to differences in gut microbiome composition. This study aimed to determine if the effect of fiber intervention on the microbiome differs by initial microbiome or the quantity of fiber provided. Methods This study was designed as a randomized, un-blinded, cross-over trial of fiber cereal dosage. The cross-over design tested the effect of two 2-week long interventions with a High (28g) and Low (14g) level of daily supplemental fiber from whole wheat and bran cereal. Analysis was also completed on the overall study as a single arm, non-randomized, intervention of fiber cereal. The study enrolled 31 healthy adults. The microbiome was assessed at baseline and after intervention for changes in diversity, composition, and stability. Results Across all individuals, fiber intervention increased microbiome alpha-diversity (paired t-test, P = 0.047), but the microbiome was otherwise resistant to the effects of the intervention. Increasing fiber dose (High v. Low) was not associated with consistent changes in beta-diversity (linear mixed models). Approximately 20% of subjects were identified as responders based on beta diversity effect size. At baseline, responders had higher Prevotella copri and lower Bacteroides abundance than non-responders (Wilcoxon rank sum, qval < 0.05). In responders, fiber intake caused increased abundance of Bacteroides and Alistipes and reduced Prevotella (paired Wilcoxon, q < 0.2). In all subjects, fiber intervention decreased microbiome stability (paired Wilcoxon signed rank test, P = 0.006). In responders, there was a significant effect of the fiber level on stability, with higher fiber further lowering stability (linear mixed model, P = 0.05). Conclusions Our data suggest a responder/non-responder microbiome signature for this whole wheat and bran fiber cereal. We find that many effects were not additive by dosage level. Overall, microbiome diversity was increased and stability was decreased during the fiber cereal intervention and in responders this was dose dependent; the clinical implications of the impact of changes in stability remain unknown, and it is possible that the microbiome would stabilize in a longer intervention study. ClinicalTrials.gov identifier: NCT03623308. Funding Sources General Mills, Inc.

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APOE Genetics Influence Murine Gut Microbiome

10.21203/rs.3.rs-746611/v1 ◽

2021 ◽

Author(s):

Diana J. Zajac ◽

Stefan J. Green ◽

Lance A. Johnson ◽

Steven Estus

Keyword(s):

Gut Microbiome ◽

Beta Diversity ◽

Univariate Analysis ◽

Microbial Community Composition ◽

Alpha Diversity ◽

Amplicon Sequencing ◽

Linear Discriminant ◽

Fecal Microbiome ◽

Female Mice ◽

The Impact

Abstract Background: Apolipoprotein E (APOE) alleles impact pathogenesis and risk for multiple human diseases, making them primary targets for disease treatment and prevention. Previously, we and others reported an association between APOE alleles and the gut microbiome. Here, we tested whether these results are confirmed by using mice that were maintained under ideal conditions for microbiome analyses. Methods: To model human APOE alleles, this study used APOE targeted replacement (TR) mice on a C57Bl/6 background. To minimize genetic drift, APOE3 mice were crossed to APOE2 or APOE4 mice prior to the study, and the resulting heterozygous progeny crossed further to generate the study mice. To maximize environmental homogeneity, mice with mixed genotypes were housed together and used bedding from the cages was mixed and added back as a portion of new bedding. Fecal samples were obtained from mice at three-, five- and seven-months of age, and microbiota analyzed by 16S ribosomal RNA gene amplicon sequencing. APOE2/E2 and APOE2/E3 mice were categorized as APOE2, APOE3/E4 and APOE4/E4 mice were categorized as APOE4, and APOE3/E3 mice were categorized as APOE3. Linear discriminant analysis of Effect Size (LefSe) identified taxa associated with APOE status, depicted as cladograms to show phylogenetic relatedness. The influence of APOE status was tested onalpha-diversity (Shannon H index) and beta-diversity (principal coordinate analyses and PERMANOVA). Individual taxa associated with APOE status were identified by classical univariate analysis. Whether findings in the APOE mice were replicated in humans was evaluated by using published microbiome genome wide association data. Results: Cladograms revealed robust differences with APOE in male mice and limited differences in female mice. The richness and evenness (alpha-diversity) and microbial community composition (beta-diversity) of the fecal microbiome was robustly associated with APOE status in male but not female mice. Classical univariate analysis revealed individual taxa that were significantly increased or decreased with APOE, illustrating a stepwise APOE2-APOE3-APOE4 pattern of association. The Clostridia class, Clostridiales order, Ruminococacceae family and related genera increased with APOE2 status. The Erysipelotrichia phylogenetic branch increased with APOE4 status, a finding that extended to humans.Conclusions: In this study wherein mice were maintained in an ideal fashion for microbiome studies, gut microbiome profiles were strongly and significantly associated with APOE status in male APOE-TR mice. Erysipelotrichia in particular appears to increase with APOE4 in both mice and humans. Further evaluation of these findings in humans, as well as studies evaluating the impact of the APOE-associated microbiota on disease-relevant phenotypes, will be necessary to determine if alterations in the gut microbiome represents a novel mechanism whereby APOE alleles impact disease.

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Organic selenium supplementation increases muscle selenium content in growing lambs compared to inorganic source

Small Ruminant Research ◽

10.1016/j.smallrumres.2019.04.008 ◽

2019 ◽

Vol 175 ◽

pp. 57-64 ◽

Cited By ~ 3

Author(s):

F.A. Paiva ◽

A. Saran Netto ◽

L.B. Corrêa ◽

T.H. Silva ◽

I.C.S.B. Guimarães ◽

...

Keyword(s):

Selenium Supplementation ◽

Selenium Content ◽

Organic Selenium

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Changes in white blood cells in sheep blood during selenium supplementation

Veterinární Medicína ◽

10.17221/1947-vetmed ◽

2008 ◽

Vol 53 (No. 5) ◽

pp. 255-259 ◽

Cited By ~ 10

Author(s):

L. Pisek ◽

J. Travnicek ◽

J. Salat ◽

V. Kroupova ◽

M. Soch

Keyword(s):

Blood Cell ◽

White Blood Cell ◽

Blood Cells ◽

White Blood Cells ◽

Microscopic Analysis ◽

Blood Parameters ◽

Selenium Supplementation ◽

Cell Parameters ◽

Organic Selenium ◽

The Impact

The aim of the experiment was to evaluate the impact of selenium supplementation on white blood cell parameters in the blood of ewes. The total white blood cell (WBC) and differentiation of leukocytes in blood smear were detected by a microscopic analysis, and the CD4<sup>+</sup> and CD8<sup>+</sup> subsets were detected by flow cytometry. A decrease in the count of WBC was recorded during pregnancy; it was statistically significant only in the group supplemented with organic selenium. In the postpartal period there was a statistically significant increase in the percentages of CD4<sup>+</sup> and CD8<sup>+</sup> subsets but differences between the groups were not statistically significant. The results of the experiment documented that the supplementation of different forms of selenium did not markedly influence the dynamics of blood parameters in non-pregnant, pregnant and lactating ewes if the intake of vitamins and other essential microelements was adequate.

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Effects of grazing intensity and the use of veterinary medical products on dung beetle biodiversity in the sub-mountainous landscape of Central Italy

10.7287/peerj.preprints.2358v1 ◽

2016 ◽

Cited By ~ 1

Author(s):

Mattia Tonelli ◽

José R. Verdú ◽

Mario E. Zunino

Keyword(s):

Species Richness ◽

Beta Diversity ◽

Central Italy ◽

Grazing Intensity ◽

Alpha Diversity ◽

Dung Beetle ◽

Dung Beetles ◽

Negative Consequences ◽

Medical Products ◽

The Impact

Grazing extensification and intensification are among the main problems affecting European grasslands. We analyze the impact of grazing intensity (low and moderate) and the use of veterinary medical products (VMPs) on the dung beetle community in the province of Pesaro-Urbino (Italy). Grazing intensity is a key factor in explaining the diversity of dung beetles. In the case of the alpha diversity component, sites with a low level of grazing activity – related in a previous step to the subsequent abandonment of traditional farming – is characterized by a loss of species richness (q = 0) and a reduction in alpha diversity at the levels q = 1 and q = 2. In the case of beta diversity, sites with a different grazing intensity show remarkable differences in terms of the composition of their species assemblages. The use of VMPs is another important factor in explaining changes in dung beetle diversity. In sites with a traditional use of VMPs, a significant loss of species richness and biomass is observed, as is a notable effect on beta diversity. In addition, the absence of indicator species in sites with a historical use of VMPs corroborates the hypothesis that these substances have a ubiquitous effect on dung beetles. However, the interaction between grazing activity and VMPs when it comes to explaining changes in dung beetle diversity is less significant (or is not significant) than the main effects (each factor separately) for alpha diversity, biomass and species composition. This may be explained if we consider that both factors affect the various species differently. In other words, the reduction in dung availability affects several larger species more than it does very small species, although this does not imply that the former are more susceptible to injury caused by the ingestion of dung contaminated with VMPs. Finally, in order to prevent negative consequences for dung beetle diversity, we propose the maintenance of a moderate grazing intensity and the rational use of VMPs. It is our view that organic management can prevent excessive extensification while providing an economic stimulus to the sector. Simultaneously, it can also prevent the abuse of VMPs.

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Resident microbes of lactation rooms and daycares

PeerJ ◽

10.7717/peerj.8168 ◽

2019 ◽

Vol 7 ◽

pp. e8168

Author(s):

Diana H. Taft ◽

Samir Akre ◽

Nicolas Madrid ◽

Andre Knoesen ◽

David A. Mills ◽

...

Keyword(s):

Beta Diversity ◽

Alpha Diversity ◽

Illumina Miseq ◽

Shannon Index ◽

Rrna Gene ◽

Sample Collection ◽

Unifrac Distance ◽

Modern Development ◽

Temperature And Humidity ◽

The Impact

Dedicated lactation rooms are a modern development as mothers return to work while still providing breastmilk to their absent infants. This study describes the built environment microbiome of lactation rooms and daycares, and explores the influence of temperature and humidity on the microbiome of lactation rooms. Sterile swabs were used to collect samples from five different sites in lactation rooms at University of California, Davis and from five different sites in daycares located in Davis, California. DNA from the swabs was extracted and the V4 region of the 16S rRNA gene was sequenced using Illumina MiSeq. Temperature and relative humidity data were collected on a subset of the lactation rooms. Sampled lactation rooms could be either dedicated lactation rooms or could also serve other functions (e.g., combined lactation room and restroom lounge). The majority of sequence reads were identified as belonging to family Moraxellaceae, with 73% of all reads included in analysis identified as an unknown species of Acinetobacter. Alpha diversity was analyzed using the Shannon index, while beta diversity was analyzed using unweighted and weighted UniFrac distance. The Jaccard distance was used to measure amount of change at sampling locations between time points for analysis of the impact of temperature and humidity on the microbiome. There were significant differences in the beta diversity of the microbiome of lactation rooms by room type. There were also significant differences in the beta diversity of the microbiome by sample collection location. There were no significant differences in either alpha or beta diversity associated with room temperature or humidity. Additional studies are needed to understand if the differences in lactation room type may result in differences in the breastmilk microbiome of milk collected in those rooms, and to what extent any such differences may influence the infant microbiome.

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The Impact Of The Vaginal And Endometrial Microbiome Pattern On Assisted Reproduction Outcomes

10.21203/rs.3.rs-22123/v1 ◽

2020 ◽

Author(s):

Concepcion Carratala ◽

María Carmen Díaz Martínez ◽

Andrea Bernabeu García ◽

Belén Lledó Bosch ◽

José Antonio Quesada Rico ◽

...

Keyword(s):

Assisted Reproduction ◽

Relative Abundance ◽

Beta Diversity ◽

Alpha Diversity ◽

Microbial Colonization ◽

Control Group ◽

Implantation Failure ◽

Vaginal Microbiome ◽

Failure Group ◽

The Impact

Abstract Background:The vaginal microbiome plays an important role in maintaining health, and there is evidence that microbial colonization of the upper genital tract can also influence successful embryo transfer. The aim of this study is to determine whether the vaginal and endometrial microbiome in people undergoing assisted reproduction techniques could affect the pregnancy rate.Results:Regarding the microbiome dynamics during the cycle, we observed a decrease in alpha diversity from the follicular to luteal phase in the control group, in contrast to a stable pattern in the repetitive implantation failure group. As for endometrial and vaginal microbiome, alpha diversity was higher in the endometrium (Shannon p = 0.0139, Simpson p = 0.046); differences were also observed in beta diversity (p = 0.001). Compared to the endometrium, the vagina showed a greater relative abundance of Lactobacillus spp. (83.17% vs 84.82%, p < 0.0001), Streptococcus spp. (1.59% vs 7.74%, p = 0.014) and Ureaplasma spp. (0% vs. 0.89%, p = 0.006), and a lower abundance of Delftia spp. (0.95% vs 0%, p = 0.0003), Anaerobacillus spp. (1.59% vs 0%, p = 0.0004), and Ralstonia spp. (3.17% vs 0%, p = 0.0006). We also observed differences in both alpha diversity (Shannon p = 0.0206, Simpson p = 0.0206) and beta diversity between groups, along with differences for Ralstonia spp. (0.09% study group and 0.73% control, p = 0.0012). Finally, the relative abundance of Lactobacillus spp. differed between patients that did not versus did achieve pregnancy (91% vs 99%, p = 0.0445 visit 1, 94.63% vs. 97.69%, p = 0.0268 visit 2, 97.73% vs 99.74%, p = 0.0492 visit 3). The relative abundance of L.reuteri was also different between groups (0.39% vs 0.17%, p = 0.0397 visit 1, 0.15% vs 0.30%, p = 0.0491 visit 3).Conclusions:The vaginal and endometrial microbiome pattern correlates with the pregnancy rate, and it is different in patients who do versus do not have repetitive implantation failures. No significant differences in the composition of the microbiome were observed through the different visits. The lack of dynamism in the microbiome pattern of repetitive implantation failure patients might reflect an impaired adaptation to endometrial changes. A greater relative abundance of Lactobacillus spp. and L. reuteri is correlated with higher chances of pregnancy.*MC Díaz Martínez and A Bernabeu García share equal responsibility for authorship.

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The role of alpha and beta diversity in buffering the effects of intensifying natural disturbance regimes

10.5194/egusphere-egu2020-8248 ◽

2020 ◽

Author(s):

Julius Sebald ◽

Timothy Thrippleton ◽

Werner Rammer ◽

Harald Bugmann ◽

Rupert Seidl

Keyword(s):

Climate Change ◽

Forest Management ◽

Species Diversity ◽

Tree Species ◽

Beta Diversity ◽

Alpha Diversity ◽

Tree Species Diversity ◽

Alpha And Beta Diversity ◽

Disturbance Regimes ◽

The Impact

<div> <div> <div> <p>Forests are strongly affected by climatic changes, but impacts vary between tree species and prevailing site conditions. A number of studies suggest that increasing tree species diversity is a potent management strategy to decrease climate change impacts in general, and increase the resilience of forest ecosystems to changing disturbance regimes. However, most studies to date have focused on stand-level diversity in tree species (alpha diversity), which is often difficult to implement in operational forest management. Inter-species competition requires frequent management interventions to maintain species mixture and complicates the production of high-quality stemwood. An alternative option to increasing alpha diversity is to increase tree species diversity between forest stands (beta diversity). Here we quantify the effects of alpha and beta diversity on the impact of forest disturbances under climate change. We conducted a simulation experiment applying two forest landscape models (i.e. iLand and LandClim) in two landscapes with strongly contrasting environmental conditions in Central Europe. Simulations investigate different levels of tree species diversity (no diversity, low diversity and high diversity) in different spatial arrangements (alpha diversity, beta diversity). Subsequently a standard forest management regime and a series of prescribed disturbances are applied over 200 years. By analyzing biomass values relative to a no-disturbance run, variation in biomass over time and the number of trees > 30 cm dbh per hectare, we isolate the effect of tree species diversity on the resistance of forests to disturbances.</p> </div> </div> </div>

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Contrasting resistance and resilience of the coupled oxic and anoxic components of an experimental microbial ecosystem

10.1101/2021.08.13.456201 ◽

2021 ◽

Author(s):

Marcel Suleiman ◽

Frank Pennekamp ◽

Yves Choffat ◽

Owen L. Petchey

Keyword(s):

Microbial Communities ◽

Oxygen Concentration ◽

Beta Diversity ◽

Alpha Diversity ◽

Bottom Layer ◽

Light Limitation ◽

Delayed Response ◽

Light Conditions ◽

Alpha And Beta Diversity ◽

The Impact

Understanding how microbial communities as key drivers of global biogeochemical cycles respond to environmental change remains a critical challenge in microbial ecology. In this study, we used phototrophic oxic-anoxic micro-ecosystems to understand how aerobic and anaerobic lake analog communities responded towards stressful light removal. Continuous oxygen measurements and four snapshots of full-length 16S rRNA sequencing were performed to detect responses of oxygen concentration, and of alpha and beta diversity. In the top layer, oxygen concentration decreased significantly under light limitation, but showed almost complete resilience after normal light conditions were restored, while the bottom layer remained anoxic throughout the experiment. Microbial communities, however, differed in their response behavior: alpha-diversity of the aerobic communities showed a delayed response after light conditions were restored, and their composition was not resilient during the duration of the experiment. In contrast, alpha-diversity of the anaerobic bottom water communities increased due to the stressor and was resilient. Beta-diversity changed significantly during light removal, showed resilience for the aerobic communities, but stayed significantly affected for the anaerobic communities. We conclude that whole-ecosystem responses and several time-points are needed to fully understand the impact of stressors on microbial ecosystems, since resistance/resilience can differ among and within abiotic and biotic ecosystem components.

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