Powdery mildew-induced changes in phyllosphere microbial community dynamics of cucumber.

As an important habitat for microorganisms, the phyllosphere has a great impact on plant growth and health, and changes in phyllosphere microorganisms are closely related to the occurrence of leaf diseases. However, there remains a limited understanding regarding alterations to the microbial community in the phyllosphere resulting from pathogen infections. Here, we analyzed and compared the differences in phyllosphere microorganisms of powdery mildew cucumber from three disease severity levels (0% < L1 < 30%, 30% ≤ L2 < 50%, L3 ≥ 50%, the number represents the lesion coverage rate of powdery mildew on leaves). There were significant differences in α diversity and community structure of phyllosphere communities under different disease levels. Disease severity altered the community structure of phyllosphere microorganisms, Rosenbergiella, Rickettsia, and Cladosporium accounted for the largest proportion in the L1 disease grade, while Bacillus, Pantoea, Kocuria, and Podosphaera had the highest relative abundance in the L3 disease grade. The co-occurrence network analysis of the phyllosphere microbial community indicated that the phyllosphere bacterial community was most affected by the severity of disease. Our results suggested that with the development of cucumber powdery mildew, the symbiotic relationship between species was broken, and the entire bacterial community tended to compete.

Shifting mammal communities and declining species richness along an elevational gradient on Mount Kenya.

Conservation areas encompassing elevation gradients are biodiversity hotspots because they contain a wide range of habitat types in a relatively small space. Studies of biodiversity patterns along elevation gradients, mostly on small mammal or bird species, have documented a peak in diversity at mid elevations. Here, we report on a field study of medium and large mammals to examine the impact of elevation, habitat type, and gross primary productivity on community structure. Species richness was observed using a camera trap transect with 219 sites situated across different habitat types from 2329 to 4657 m above the sea level on the western slope of Mt Kenya, the second highest mountain in Africa. We found that the lowest elevation natural habitats had the highest species richness and relative abundance and that both metrics decreased steadily as elevation increased, paralleling changes in gross primary productivity, and supporting the energy richness hypothesis. We found no evidence for the mid-domain effect on species diversity. The lowest elevation degraded Agro-Forestry lands adjacent to the National Park had high activity of domestic animals and reduced diversity and abundance of native species. The biggest difference in community structure was between protected and unprotected areas, followed by more subtle stepwise differences between habitats at different elevations. Large carnivore species remained relatively consistent but dominant herbivore species shifted along the elevation gradient. There was some habitat specialization and turnover in species, such that the elevation gradient predicts a high diversity of species, demonstrating the high conservation return for protecting mountain ecosystems for biodiversity conservation.

The first extensive analysis of species composition and abundance of stink bugs (Hemiptera: Pentatomidae) on soybean crops in Brazil.

BACKGROUND: Soybean is the third-greatest global commodity crop with respect to grain production, Brazil is the largest soybean producer in the world. We performed the first extensive survey including all the five main soybean cultivation regions in Brazil over three seasons (2018/2019, 2019/2020, and 2020/2021). A total of 2386 localities were sampled, corresponding to 145 municipalities in 11 states. Sampling was carried out between the R1 and R8 soybean growth stages, using a beating sheet. RESULTS: Fifteen species were recorded, with five species accounting for more than 99% of the sampled insects. The Neotropical brown stink bug, Euschistus heros (F.), was the most abundant species (82.4% of the adults and 84.1% of the nymphs overall), with differences in the mean abundance between soybean macroregions. The melacanthus green belly stink bug, Diceraeus melacanthus Dallas was the second most abundant species overall, followed by the brown winged stink bug, Edessa meditabunda (F.), the furcatus green belly stink bug, Diceraeus furcatus (F.) and the red-banded green stink bug, Piezodorus guildinii (Westwood). The relative abundance of each species differed between soybean macroregions. The mean abundance of nymphs and adults of Euschistus heros at different soybean reproductive stages showed an increase from early reproductive stages to the beginning of the late reproductive stages (R5 or R6). CONCLUSION: This large-scale assessment of stink bugs provides a basis for outlining integrated pest management programs and drives the development of monitoring and control strategies, as well as future studies investigating population dynamics over time and space in soybean fields. © 2024 Society of Chemical Industry.

Integrating historical and recent information to understand chondrichthyan dynamics in the central Mediterranean.

Chondrichthyans (sharks, rays, and chimaeras) are highly susceptible to the impacts of fisheries due to their vulnerable life-history traits. Over the last 100 years, several cases of local extinction have been documented in heavily fished areas across the Mediterranean Sea. In the Strait of Sicily (SoS), one of the main demersal fishing grounds of the Mediterranean, chondrichthyans constitute a significant component of both commercial and discarded bycatch. In this area, the lack of long-term data series on these species hinders our ability to fully comprehend the extent of changes due to both overfishing and climate variations. Here we aim to use historical data from the end of the 19th century, provided by Döderlein, to uncover evidence of long-term changes in the occurrence and diversity of these fishes. We employ a semi-quantitative approach to compare past data with recent frequency of occurrence estimates, to improve our ability to propose management advice. We report a decline in both the number of species and the frequency of occurrence of sharks and ray species in the study region over the past 150 years. Our findings shed light on the current status of sharks and rays compared to the historical data from the 19th century and highlight the urgent need to develop management strategies to mitigate the impact of harvesting on these vulnerable species.

Foliar phenols and flavonoids level in pteridophytes: an insight to culturable fungal endophyte colonisation.

There are many available reports of secondary metabolites as bioactive molecules from culturable endophytes, nevertheless, there are scarce research pertaining to the levels of metabolites in plants with respect to the incidence and colonisation of fungal endophytes in the same foliar tissues. Therefore, the study was focussed to examine whether fungal endophyte colonisation and the accumulation of secondary metabolites, such as flavonoids and phenols, in the plants are related in any way. For this reason, the study aims to analyse phenols and flavonoids from the fronds of eleven pteridophytes along with the culture-dependent isolation of fungal endophytes from the host plants subsequently assigning them to morphological category and their quantitative analysis and further resolving its identities through molecular affiliation. The results revealed that nine morpho-categories of fungal endophytes were allotted based on culture attributes, hyphal patterns and reproductive structural characters. Highest numbers of species were isolated from Adiantum capillus-veneris and least was recorded from Pteris vittata and Dicranopteris linearis. Maximum phenol content was analysed from the fronds of P. vittata and lowest was recorded in A. capillus-veneris. Highest flavonoid content was measured in D. linearis and lowest was detected in Christella dentata. Significant negative correlation was observed between phenol content of ferns and species richness of fungi. Moreover, significant positive correlation was observed with the relative abundance of Chaetomium globosum and flavonoid content of ferns and negative significant relation was found between relative abundance of Pseudopestalotiopsis chinensis and phenol content of pteridophytes. The occurrence and the quantitative aspects of endophytes in ferns and their secondary metabolites are discussed.

Local and regional-scale effects of hedgerows on grassland- and forest-associated bird populations within agroecosystems.

Linear woody features (LWFs), like hedgerows along field edges, provide wildlife habitat and support biodiversity in agroecosystems. Assessments of LWFs usually focus on community-level indices, such as species richness. However, effective conservation actions need to balance the contrasting habitat preferences of different wildlife species, necessitating a focus on population-level effects in working landscapes. We assessed associations between LWFs and abundance for 45 bird species within an intensive agroecosystem in eastern Ontario, Canada. We used distance- and removal-sampling methods across 4 years (2016-2019) to estimate local bird abundance in habitats representing a range of LWF densities. We also predicted abundance across a subset of the study region with and without LWFs to understand their contribution to regional population density. Associations between local bird abundance and LWFs were variable among species, but overall community effects were clearly positive, particularly for forest and shrubland species. At the site level, 20/45 species (44%) had higher densities associated with greater LWF presence on average, compared to 5/45 (11%) with negative associations. At the regional scale, LWFs had predicted benefits on total abundance for 31 species (69%), contributing to an estimated 20% increase on average. Positive effects were most pronounced in areas with greater agricultural land use (primarily field crops), suggesting LWFs may provide crucial habitat in heavily modified landscapes but have little to no additional benefit for the avian community in areas with greater existing heterogeneity and habitat retention. Species that responded negatively tended to be at risk with strong habitat preferences for intact forests or large, open grasslands and, thus, greater sensitivity to potential edge effects. With rapidly declining songbird populations and a global need for food security, conservation strategies that amplify biodiversity and enhance agricultural productivity through ecosystem services such as pest control, pollination, and water regulation are vital. We demonstrate the benefits of habitat heterogeneity in agroecosystems on songbird densities and highlight the need to integrate local and landscape-level assessments in conservation planning. An effective, balanced strategy includes concentrating LWFs in areas of extensive arable crops, with habitat retention patches where possible, while maintaining heterogeneity through mixtures of natural habitats and pastoral farming in less intensive regions.

Les caractéristiques d'emboisement linéaires (CEL), tels que les haies en bordure de champs, fournissent un habitat à la faune et à la flore et favorisent la biodiversité dans les agroécosystèmes. Les évaluations des caractéristiques d'emboisement linéaires se concentrent généralement sur des indices au niveau de la communauté, tels que la richesse des espèces. Cependant, pour être efficaces, les actions de conservation doivent équilibrer les préférences variables des différentes espèces sauvages en matière d'habitat, ce qui nécessite de se concentrer sur les effets au niveau de la population dans les paysages exploités. Nous avons évalué les associations entre les CEL et l'abondance de 45 espèces d'oiseaux dans un agroécosystème intensif de l'est de l'Ontario, au Canada. Nous avons utilisé des méthodes d'échantillonnage par distance et par enlèvement sur quatre ans (2016­2019) pour estimer l'abondance locale des oiseaux dans des habitats représentant une gamme de densités de CEL. Nous avons également prédit l'abondance dans un sous­ensemble de la région étudiée avec et sans CEL pour comprendre leur contribution à la densité de la population régionale. Les associations entre l'abondance des oiseaux locaux et les CEL étaient variables d'une espèce à l'autre, mais les effets globaux sur les communautés étaient clairement positifs, en particulier pour les espèces des forêts et des zones arbustives. Au niveau du site, 20/45 espèces (44%) avaient des densités plus élevées associées à une plus grande présence de CEL en moyenne, contre 5/45 (11%) avec des associations négatives. À l'échelle régionale, les CEL ont eu des effets bénéfiques sur l'abondance totale de 31 espèces (69%), contribuant à une augmentation estimée à 20% en moyenne. Les effets positifs étaient plus prononcés dans les zones où l'utilisation des terres agricoles était plus importante (principalement les grandes cultures), ce qui suggère que les CEL peuvent fournir un habitat crucial dans les paysages fortement modifiés, mais qu'elles ont peu ou pas d'avantages supplémentaires pour la communauté aviaire dans les zones où l'hétérogénéité existante et la conservation de l'habitat sont plus importantes. Les espèces qui ont répondu négativement avaient tendance à être en danger, avec de fortes préférences d'habitat pour les forêts intactes ou les grandes prairies ouvertes, et donc une plus grande sensibilité aux effets de lisière potentiels. Avec le déclin rapide des populations d'oiseaux chanteurs et le besoin mondial de sécurité alimentaire, les stratégies de conservation qui amplifient la biodiversité et améliorent la productivité agricole grâce aux services écosystémiques tels que la lutte contre les ravageurs, la pollinisation et la régulation de l'eau sont vitales. Nous démontrons les avantages de l'hétérogénéité de l'habitat dans les agroécosystèmes sur les densités de passereaux et soulignons la nécessité d'intégrer les évaluations locales et au niveau du paysage dans la planification de la conservation. Une stratégie efficace et équilibrée consiste à concentrer les CEL dans les zones de cultures arables extensives, avec des parcelles de conservation de l'habitat là où c'est possible, tout en maintenant l'hétérogénéité grâce à des mélanges d'habitats naturels et à l'agriculture pastorale dans les régions moins intensives.

Culicoides Species of the Rain Forest Belt of the Littoral Region of Cameroon: Their Incrimination in the Transmission of Mansonella perstans.

Biting midges belonging to the genus Culicoides are tiny stout-shaped hematophagous insects and are thought to transmit the filarial nematode Mansonella perstans. Little is known about the Culicoides fauna in the rain forest belt of the Littoral Region of Cameroon. This study was designed to investigate the diversity, abundance and distribution of Culicoides spp. and their role as the purported vector(s) of M. perstans. Overnight light trap collections and human landing catches (HLCs) revealed eight species of Culicoides with C. grahamii being the most abundant species followed by C. milnei. Four anthropophilic species (C. inornatipennis, C. grahamii, C. fulvithorax and C. milnei) were determined by the HLCs with a higher abundance in the 4-6 p.m. collections. The drop trap technique and Mp419 LAMP assay confirmed C. milnei to be the most efficient vector in enabling the development of the microfilarial stage to the infective larval form of M. perstans. The LAMP assay also revealed that natural transmission of this nematode is fostered by C. milnei and C. grahamii in the wild. In conclusion, C. milnei was shown to be the main vector of M. perstans in the rain forest belt of the Littoral Region of Cameroon.

Rumen ciliates (Ciliophora, Trichostomatia) in Brazilian domestic cattle feeding on diets with crescent urea levels.

Since their discovery, rumen ciliates of domestic cattle have been reported from various geographic locations. However, until now there is only one taxonomic inventory of ciliates associated with Brazilian cattle. The present study aimed to assess the community composition, relative abundance, richness, and density of rumen ciliates in Brazilian cattle, whose feeding diets were supplemented with crescent urea levels. Across all treatments analyzed, one subclass, two orders, three families, 11 genera, and 31 species of ciliates were identified. The ciliate community composition and species richness varied among the four treatments used. However, the total ciliate density was not affected by the experimental diets. We described a new entodiniid morphotype, Entodinium caudatum m. orbonuclearis, and recorded Oligoisotricha bubali for the second time in Brazil.

Effect of feeding frequency on the anaerobic digestion of berry fruit waste.

On-site anaerobic digesters for small agricultural farms typically have feeding schedules that fluctuate according to farm operations. Shocks in feeding, particularly for putrescible waste can disrupt the stable operation of a digester. The effect of intermittent feeding on the anaerobic digestion of rejected raspberries was investigated in four 3L reactors operated in semicontinuous mode for 350 days at 38 °C with a hydraulic retention time of 25 days and an organic loading rate (OLR) of 1gVS/L/d. During the acclimatisation period (147 days) the organic loading was 5 feeds per week. The feeding regime of two reactors was then changed while maintaining the same OLR and HRT to one weekly feed event in one reactor and 3 equal feeds per week in another. The feeding regime did not significantly affect specific methane yield (369 ± 47 L/kgVS on average) despite very different weekly patterns in methane production. Volatile fatty acids (VFA) comprised >83 % of the organics in the effluent, while the rest included non-inhibitory concentrations of phenolic compounds (515-556 mg gallic acid/L). The microbial composition and relative abundance of predominant groups in all reactors were the archaeal genera Methanobacterium and Methanolinea and the bacterial phyla Bacteridota and Firmicutes. Increasing the OLR to 2gVS/L/d on day 238 resulted in failure of all reactors, attributed to the insufficient alkalinity to counterbalance the VFA produced, and the pH decrease below 6. Overall results suggests that optimal digestion of raspberry waste is maintained despite variations in feeding frequency, but acidification can occur with OLR changes.

Gut microbiome in diabetic retinopathy: A systematic review and meta-analysis.

CONTEXT: Changes in the gut microbiome are linked with Type 2diabetes mellitus (T2DM) development, but alterations in patients with diabetic retinopathy (DR) are still being debated. OBJECTIVE: To investigate the differences in biodiversity and relative abundance of gut microbiome between patients with DR and T2DM. METHODS: A comprehensive search was performed in five electronic databases (PubMed, EMBASE, Cochrane Central Register of Controlled Trials, Web of Science, and CNKI) from the inception of each database through to August 2023. The standardized mean difference (SMD) and its 95% confidence interval (CI) were estimated using Stata 15.1. Furthermore, the alpha diversity index and relative abundance of the gut microbiome were calculated. The Egger test determined publication bias in the literature. RESULTS: Seven case-control studies were included in the final dataset, comprising 195 patients with DR and 211 patients with T2DM. Compared to T2DM patients, patients in the DR group had a reduced but not significantly different α-diversity. The analysis of microbial composition at the phylum level revealed a marked increase in the relative abundance of Bacteroidetes(ES = 23.27, 95%CI[8.30, 38.23], P = 0.000) and a decline in Firmicutes(ES = 47.05, 95%CI[36.58, 57.52], P = 0.000), Proteobacteria (ES = 11.08, 95%CI[6.08, 16.07], P = 0.000) and Actinobacteria (ES = 10.43, 95%CI[1.64, 19.22], P = 0.001) in patients with DR when compared to those with T2DM. CONCLUSIONS: An association exists between alterations in the gut microbiome of T2DM and the development and progression of DR. This suggests that re-establishing homeostasis of the gut microbiome could be a potential way to prevent or treat DR and requires further confirmation in future studies. REGISTRATION DATABASE: Prospero. REGISTRATION NUMBER: CRD42023455280.

Both evenness and dominant species identity have effects on litter decomposition.

Exploring how interactions between species evenness and dominant species identity affect litter decomposition processes is vital to understanding the relationship between biodiversity and ecosystem functioning in the context of global changes. We carried out a 127-day litter decomposition experiment under controlled conditions, with interactions of four species evenness types (high, medium, low and single species) and three dominant species identity (Leymus chinensis, Serratula centauroides, Artemisia capillaris). After collecting the remaining litter, we estimated how evenness and dominant species identity affected litter mass loss rate, carbon (C) loss rate, nitrogen (N) loss rate and remaining litter C/N directly or indirectly, and assessed relative mixture effects (RMEs) on litter mass loss. The main results are shown as follows. (1) By generalized linear models, litter mass loss rate was significantly affected by evenness after 69-day decomposition; N loss rate was affected by dominant species identity after 69-day decomposition, with treatment dominated by Serratula centauroides being at least 9.26% higher than that dominated by any of other species; and remaining litter C/N was affected by the interactions between evenness and dominant species identity after 30-, 69- and 127-day decomposition. (2) Twenty-three out of 27 RMEs were additive, and dominant species identity showed a significant effect on RMEs after 127-day decomposition. (3) By confirmatory path analyses, litter mass loss rate was affected by dominant species identity directly after 127-day decomposition, and by both species evenness and dominant species identity indirectly which was mediated by initial litter functional dispersion (FDis) after 30- and 69-day decomposition; remaining litter C/N was affected by evenness indirectly which was mediated by initial litter FDis after 127-day decomposition. These findings highlight the importance of evenness and dominant species identity on litter decomposition. The study provides insights into communities during retrogressive successions in semi-arid grasslands in the context of global changes.

The effects of co-invasion by three Asteraceae invasive alien species on plant taxonomic and functional diversity in herbaceous ruderal communities in southern Jiangsu, China.

Invasive alien species can affect plant taxonomic and functional diversity. Multiple invasive alien species can co-invade the same plant community. However, the effects of such co-invasion on plant taxonomic and functional diversity are currently unclear. Our study aimed to estimate the effects of co-invasion by three Asteraceae invasive alien species (i.e., Conyza canadensis (L.) Cronquist, Conyza sumatrensis (S.F. Blake) Pruski and G. Sancho, and Solidago canadensis L.) on plant taxonomic and functional diversity in herbaceous ruderal communities in southern Jiangsu, China. The effects of these three invasive alien species under seven invasion combinations (including invasion by one invasive alien species, co-invasion by two invasive alien species, and co-invasion by these three invasive alien species) on plant taxonomic and functional diversity were investigated in a comparative field study of herbaceous ruderal communities. Niche differentiation mediated the functional divergence between these three invasive alien species and natives under all invasion combinations. These three invasive alien species significantly increased plant taxonomic diversity (especially plant diversity and richness) and plant functional diversity (especially Rao's quadratic entropies) under all invasion combinations. The relative abundance of invasive alien species was significantly positively associated with plant functional diversity (especially community-weighted mean trait values and Rao's quadratic entropy). The number of invasive alien species was significantly positively associated with plant taxonomic diversity (especially plant diversity and richness) and plant functional diversity (especially Rao's quadratic entropies). Thus, co-invasion by these three invasive alien species may synergistically increase plant taxonomic diversity (especially plant diversity and richness) and functional diversity (especially Rao's quadratic entropies).

Species composition, relative abundance, and habitat association of birds in Dodola dry evergreen afro-montane forest and sub-afro-alpine scrubland vegetation, southeast Ethiopia.

Background: Birds' functional groups are useful for maintaining fundamental ecological processes, ecosystem services, and economic benefits. Negative consequences of loss of functional groups are substantial. Birds are usually found at a high trophic level in food webs and are relatively sensitive to environmental change. Methods: The first surveillance bird study was carried out southeast of Ethiopia adjacent to Bale Mountain National Park aimed at investigating the composition, relative abundance, and distribution of Aves. Using regular systematic point transact sampling, the density and species composition were analyzed through the mark recapture distance sampling engine assisted by R statistical software. Results: This study recorded a total of seventy-eight bird species over two distinct seasons. Among these, fifteen species were exclusive to Erica habitats, twenty-six were found in natural forest habitats, and three were specific to plantation forest habitats. The study also discovered three endemic species. Based on the 2018 IUCN Red List categories, six of the species are globally threatened, three are near threatened, and the remaining sixty-nine are classified as least concern. The relative abundance of birds did not significantly differ across habitats and seasons, but variations were observed among blocks. Bird density was found to fluctuate across the three habitats and two seasons; however, these habitat differences were not influenced by seasonal changes. Conclusion: The findings of this study reveal that the differences in composition and relative abundance are not merely seasonal changes in the forest and Erica habitats. Instead, these habitats create microclimates that cater to specific bird species. However, this localized endemism also presents challenges. The concentration of endemic species and potential resource constraints could pose a threat to these habitat-specialist birds.

A user's guide to the bioinformatic analysis of shotgun metagenomic sequence data for bacterial pathogen detection.

Metagenomics, i.e., shotgun sequencing of the total microbial community DNA from a sample, has become a mature technique but its application to pathogen detection in clinical, environmental, and food samples is far from common or standardized. In this review, we summarize ongoing developments in metagenomic sequence analysis that facilitate its wider application to pathogen detection. We examine theoretical frameworks for estimating the limit of detection for a particular level of sequencing effort, current approaches for achieving species and strain analytical resolution, and discuss some relevant modern tools for these tasks. While these recent advances are significant and establish metagenomics as a powerful tool to provide insights not easily attained by culture-based approaches, metagenomics is unlikely to emerge as a widespread, routine monitoring tool in the near future due to its inherently high detection limits, cost, and inability to easily distinguish between viable and non-viable cells. Instead, metagenomics seems best poised for applications involving special circumstances otherwise challenging for culture-based and molecular (e.g., PCR-based) approaches such as the de novo detection of novel pathogens, cases of co-infection by more than one pathogen, and situations where it is important to assess the genomic composition of the pathogenic population(s) and/or its impact on the indigenous microbiome.

Comparative analysis of climate-induced changes in distribution of representative fish species in the Yellow Sea.

Climate changes are posing remarkable impacts on marine fish and fisheries. Although many studies have addressed the distributional effects of climate change on single fish species or taxa in recent years, comparative studies focusing on different types of fish are still lacking. In this study, we applied dynamic bioclimate envelop models (DBEM), based on three earth system models, to predict sea surface and bottom temperature, as well as the spatial and temporal distribution of nine representative fishes in the Yellow Sea, contain two habitats, i.e., continental shelf benthopelagic (CBD) and continental shelf pelagic-neritic (CPN) fishes, and two thermophilies, i.e., warm temperate (WT) and warm water (WW) fishes. Under a low emissions scenario (RCP 2.6) and a high emissions scenario (RCP 8.5) between 1970 and 2060, results reveal that: a) CPN fishes show a distinct tendency to move to higher latitudes than CBD fishes, and WW fishes show a significant tendency to migrate more widely to the north than WT fishes; b) The relative abundance of CPN fishes is expected to be higher than that of CBD fishes, while there is no apparent difference in relative abundance between WW fishes and WT fishes. The main reasons for this difference are presumed to be: variance of temperature rise between the sea surface and bottom layers, divergent adaptations of the species, and disparate degrees of anthropogenic influence.

Impacts of substrate properties and aquatic nutrient concentrations on the relative abundance of nitrifying/denitrifying genes and the associated microbes in epilithic biofilms.

Substrates like sand or gravels and aquatic nutrient concentrations of rivers are highly heterogeneous, influencing the abundance of functional genes in epilithic biofilms where nitrification-denitrification processes take place. To analyze how the relative abundance of nitrifying/denitrifying genes and the associated microbes changes with the physical properties of substrates and aquatic concentrations of nutrients, this paper utilized metagenomics to comprehensively characterize these functional genes (i.e., amoA, hao, and nxrB involved in nitrification, and napA, narG, nirS, norB, and nosZ associated with denitrification) from epilithic biofilms collected along the Shitingjiang River in Southwest China and further obtained the relative abundance of major nitrifiers and denitrifiers. The results show that substrate size most significantly affects the relative abundance of hao and norB by altering the hydrodynamic conditions. In sampling sites with high heterogeneity in substrate size distribution, the relative abundance of most denitrifying genes is also higher. The carbon-nitrogen ratio negatively correlates with the relative abundance of all the nitrifying genes, while ammonium, total inorganic carbon, and total organic carbon concentrations positively affect the relative abundance of amoA and nxrB. As to the relative abundance of nitrifiers and denitrifiers, mainly belonging to phyla Proteobacteria and Actinobacteria, substrate heterogeneity and the aquatic concentrations of nutrients have greater influences than substrate size. Also, the substrate heterogeneity exerted positive influence on functional species of Pseudogemmobacter bohemicus and Paracoccus zhejiangensis. Considering the genes' functions and the dominant species linked to denitrification, nitrous oxide is more likely to occur in rivers with higher heterogeneity and larger substrates.

Microsatellite diversity in four cultivated species of Actinidiaceae and Rutaceae.

Microsatellites or Simple Sequence Repeats (SSRs) are short iterations of 1-6 bp in the genomes of almost all living organisms. Our study aimed to explore the microsatellite diversity in four cultivated species, namely Actinidia chinensis, Actinidia eriantha, Citrus maxima, and Citrus sinensis of the Actinidiaceae and Rutaceae families. We present a comprehensive analysis of microsatellite abundance, distribution, and motif composition in the genomes of these species. The association of microsatellite abundance with genomic features such as genome size, GC content, number of microsatellites, relative abundance, and relative density was also examined. The results revealed significant variations in the frequency and distribution of microsatellites across the genomes of these four species. Notably, a positive correlation was observed between genome size and microsatellite number as well as with GC content, indicating that larger genomes provide more opportunities for the accumulation of microsatellites. Furthermore, a negative correlation of genome size with relative microsatellite abundance and relative density was observed. These findings provide new insights into the microsatellite landscape of Actinidiaceae and Rutaceae, which could be explored for the development of microsatellite markers for diverse applications in the characterization of genetic diversity, molecular plant breeding, and phylogenetic analysis.

Gut microbiome is associated with asthma and race in children with food allergy.

BACKGROUND: The composition of the gut microbiome has been associated with development of atopic conditions such as food allergy (FA) and asthma. African American or Black children with FA have higher rate of asthma compared to their White counterparts. OBJECTIVE: We sought to investigate whether the diversity and relative abundance (RA) of gut microbiota is different between children with FA from different racial backgrounds living in the same cities. Furthermore, we aimed to understand whether the difference in the gut microbiota is associated with asthma in children with FA. METHODS: We analyzed and compared the stool microbiome of a cohort of Black and White children with FA by shotgun genomic sequencing. RESULTS: A total of 152 children with IgE-mediated FA enrolled onto FORWARD (Food Allergy Outcomes Related to White and African American Racial Differences); 30 Black and 122 White children were included. The RA of several bacteria was associated with race and asthma. Most notably the RA of Bacteroides thetaiotaomicron, Chlamydia thrachomatis, Parabacteroides goldsteinii, and Bacteroides eggerthii were significantly higher, while the RA of Bifidobacterium sp CAG:754, Parabacterium johnsonii, Bacteroides intestinalis, and Bifidobacterium breve were significantly lower in stool samples of Black children compared to White children. Asthma was associated with lower RA of B breve, Bifidobacterium catenulatum, Prevotella copri, Veilloella sp CAG:933, and Bacteroides plebius, and higher RA of 3 Bacteroides species. CONCLUSIONS: The observed variations in the gut microbiota of Black and White children such as differences in the Bacteroides and Bifidobacterium species along with their association to history of asthma in our cohort is indicative of their potential role in the higher rate of asthma observed among Black children with FA.

Encounter rate and relative abundance of eight cetaceans off the central Catalan coast (Northwestern Mediterranean sea).

This study provides information on cetacean occurrence in the central Catalan coast (NE Iberian Peninsula), an area characterised by an underwater canyon system. Encounter rates (ER), relative abundances (RA) and seasonality were assessed for eight species. This information was combined with physiographic features of the seafloor to understand their influence on cetacean distribution. Data were collected along 189 surveys from January 2017 to December 2022. In total, 479 sightings of eight species of cetaceans were recorded. Striped, bottlenose and Risso's dolphins and fin whales were the most frequently sighted. ER and RA were similar or higher than in other areas of the Mediterranean Sea. Species were distributed differently according to physiographic features: bottlenose dolphins in coastal waters and Risso's dolphins and fin whales above the Garraf underwater canyon system. These results highlight the importance of the central Catalan coast, particularly the underwater canyon system, for at least four species of cetaceans.

Age-Related Cognitive Decline, Focus on Microbiome: A Systematic Review and Meta-Analysis.

Aging is a complex process influenced by genetics and the environment, leading to physiological decline and increased susceptibility to diseases. Cognitive decline is a prominent feature of aging, with implications for different neurodegenerative disorders. The gut microbiome has gained attention for its potential impact on health and disease, including cognitive function. This systematic review and meta-analysis aimed to investigate the relationship between the gut microbiome and cognitive function in the context of aging. Following PRISMA guidelines, a comprehensive search strategy was employed in PubMed, Scopus, and Web of Science databases. Studies exploring the role of the microbiome in cognition and neurodegenerative disorders, published between 2013 and 2023, were included. Data extraction and quality assessment were performed. Quantitative synthesis using statistical analyses was performed to examine microbial diversity and relative abundance in various cognitive conditions. Sixteen studies involving a total of 1303 participants were included in the analysis. The gut microbiota's relative abundance was different in individuals with cognitive impairments such as Alzheimer's disease, Parkinson's disease, and dementia, compared to the healthy controls. The most prevalent phyla affected were Firmicutes, Bacteroidetes, Actinobacteria, and Proteobacteria. Meta-analyses indicated substantial heterogeneity among studies focusing on Alzheimer's disease. The overall quality of evidence related to microbial analysis was moderate. The gut microbiome's role in cognitive decline and neurodegenerative disorders warrants investigation. Altered microbial abundance, particularly in specific phyla, is associated with cognitive impairments. However, variations in study findings and methodologies highlight the complexity of the relationship between the gut microbiome and cognitive function. Further studies are needed to better understand the mechanisms underlying this connection and its potential implications for aging and cognitive health.