Species of epiphytic microbiota are closely associated with the fermentation performance of natural forage silage. This study aimed to evaluate the dynamic microbial communities, fermentation parameters, and aerobic stability of Napier grass silage from the same variety and growth period but harvested from three different regions (NGP1, NGP2, and NGP3). After 60 days of ensiling, triplicate silos were opened for sampling and testing aerobic stability. The epiphytic microbiota with higher relative abundances in fresh Napier grass (NGP1, NGP2, and NGP3) were Weissella, Enterobacter, and Lactococcus, respectively. After 60 days of ensiling, NGP3 exhibited higher fermentation quality, indicated by higher lactic acid (LA) concentration and lower pH than that of NGP1 and NGP2. The NH3–N content of all treatments was lower than 100 g/kg total nitrogen. Compared with NGP1 and NGP2 silage, NGP3 silage exhibited a sharp rise in pH and LA consumption during air exposure. After 7 days of air exposure, NGP3 had higher ethanol concentrations and pH. Ruminiclostridium_5, Pediococcus, and Lactobacillus predominated in NGP1, NGP2, and NGP3 silages, respectively, whereas Candida and Monascus predominated in air-exposed NGP3 silage. The bacterial co-occurrence networks from fresh samples to ensiling and air exposure became more complex; however, NGP3 had a higher negative correlation with co-occurrence after air exposure. Different regions had significant effects on the fermentation patterns, bacterial communities, and aerobic stability of Napier grass silage. This was mainly due to variable epiphytic microbiota. Higher fermentation quality of Napier grass silage may also result in accelerated spoilage due to air exposure. Candida and Monascus were primarily responsible for the lower dry matter recovery and higher ethanol contents and air exposure spoilage of Napier grass silage.

Microplastics (MPs) are carbon-rich polymers that are ubiquitous in the environment. With the increase of plastic production, microplastic pollution may be exacerbated and result in significant changes in microbial communities and biogeochemical processes such as carbon cycling, eventually impacting greenhouse gas emission and carbon storage in terrestrial ecosystems. However, current research on the effect of MPs on soil carbon cycling is still limited, and there is a lack of systematic review of the scattered information obtained from previous studies. Accordingly, this review provides a systematic overview of the current knowledge on the effects of MPs on soil carbon cycling and gives future research suggestions. Emerging evidence indicates that MPs could affect soil carbon stability and CO2 and CH4 emission by modifying soil physicochemical and microbiological properties; though biodegradable MPs often exhibit a greater effect than nonbiodegradable ones, the specific effects are highly dependent on plastic type, size and concentration. The specific mechanisms of MPs’ impact on soil carbon cycles remain elusive, which are discussed mainly from the perspective of microbial changes, including microbial biomass, microbial community composition, and key enzymes and functional genes associated with carbon metabolism. Further research is needed to elucidate whether MPs have a positive priming effect on soil carbon decomposition and the biotic and abiotic mechanisms involved. This review paper helps researchers gain a clearer picture of how and through which way MPs impact carbon cycling in soil ecosystems.

The evaluation of symbiotic microbial communities occurring in the intestinal tract of animals has received great interest in recent years. However, little is known about gut microbial communities in cetaceans, despite their relevance in the ecology of marine communities. Here, we report an investigation using 16S rRNA gene amplicon sequencing of the resident gut microbiota of the two cetacean species Stenella coeruleoalba and Tursiops truncatus by sampling intestinal mucosa from specimens retrieved stranded along the Tyrrhenian coast of Tuscany (Italy). We found an abundance of members from Clostridiaceae and Fusobacteriaceae, which in total accounted for more than 50% of reads, in agreement with gut microbiota composition of other carnivorous mammals. Probably due to the limited number of samples available, sex, preservation status and also species, did not correlate with overall differences in the microbiota. Indeed, a high similarity of the taxonomic (family-level) composition between the gut microbiota of the two species was found. However, Pedobacter spp. was found abundant in amplicon sequencing libraries from S. coeruleoalba, while clostridia were more abundant from T. truncatus samples. Our results shed some light on the gut microbiota composition of two dolphin (S. coeruleoalba and T. truncatus) species, with specimens collected in the wild. Studies with a larger number of individuals are now needed to confirm these first results and evaluate the interspecific differences in relation to sex and age.

Weed seed persistence in soil can be influenced by many factors, including crop management. This research was conducted to determine whether organic management systems with higher organic amendments and soil microbial biomass could reduce weed seed persistence compared with conventional management systems. Seeds of smooth pigweed and common lambsquarters were buried in mesh bags in organic and conventional systems of two long-term experiments, the Farming Systems Project at the Beltsville Agricultural Research Center, Maryland, and the Farming Systems Trial at the Rodale Institute, Pennsylvania. Seed viability was determined after retrieval at half-year intervals for 2 yr. Total soil microbial biomass, as measured by phospholipid fatty acid (PLFA) content, was higher in organic systems than in conventional systems at both locations. Over all systems, locations, and experiments, viable seed half-life was relatively consistent with a mean of 1.3 and 1.1 yr and a standard deviation of 0.5 and 0.3 for smooth pigweed and common lambsquarters, respectively. Differences between systems were small and relatively inconsistent. Half-life of smooth pigweed seeds was shorter in the organic than in the conventional system in two of four location-experiments. Half-life of common lambsquarters was shorter in the organic than in the conventional system in one of four location-experiments, but longer in the organic than in the conventional system in two of four location-experiments. There were few correlations between PLFA biomarkers and seed half-lives in three of four location-experiments; however, there were negative correlations up to −0.64 for common lambsquarters and −0.55 for smooth pigweed in the second Rodale experiment. The lack of consistent system effects on seed persistence and the lack of consistent associations between soil microbial biomass and weed seed persistence suggest that soil microorganisms do not have a dominating role in seed mortality. More precise research targeted to identifying specific microbial functions causing seed mortality will be needed to provide a clearer picture of the role of soil microbes in weed seed persistence.

Due to postglacial isostatic uplift many stratified lakes, at different stages of isolation, are located along the shores of the White Sea. In five lakes, located near the White Sea Biological Station of Moscow State University, salinity, temperature, pH, concentration of dissolved oxygen, redox potential, and illuminance were measured. Distribution of microorganisms and spectral properties of water layers were also studied. All the lakes had a narrow bright coloured layer in the redox zone caused by mass development of phototropic microorganisms. Light absorption and fluorescence spectra indicated algae containing chlorophyll a predominate in the red water layers while the colouration of green and brown layers is caused by green sulphur bacteria with bacteriochlorophylls d and e. Sunlight is completely absorbed in the redox zone because of the high density of algae and/or bacteria, resulting in aphotic conditions below. Coloured layers act as a specific biotope for special communities of microorganisms. Eukaryotes identified by the 18S rRNA gene included different species of mixotrophic algae and ciliates resistant to anoxia. The water layer colour and spectral characteristics (i.e. light absorption and fluorescence) of water in the redox zone can be considered indicators of the stage of lake isolation from the sea, with the red colour caused by cryptophyte alga Rhodomonas sp. bloom found in earlier stages and brown and green colours caused by green sulphur bacteria in later stages.

Nesidiocoris tenuis (Reuter) (Heteroptera: Miridae) is an omnivorous insect used for biological control. Augmentative release and conservation of N. tenuis have been used for pest control in tomato crops. Intracellular bacterial symbionts of arthropods are common in nature and have diverse effects on their hosts; in some cases they can dramatically affect biological control. Fingerprinting methods showed that the symbiotic complex associated with N. tenuis includes Wolbachia and Rickettsia. Rickettsia of N. tenuis was further characterized by sequencing the 16S rRNA and gltA bacterial genes, measuring its amount in different developmental stages of the insect by real-time polymerase chain reaction, and localizing the bacteria in the insect's body by fluorescence in situ hybridization. The Rickettsia in N. tenuis exhibited 99 and 96% similarity of both sequenced genes to Rickettsia bellii and Rickettsia reported from Bemisia tabaci, respectively. The highest amount of Rickettsia was measured in the 5th instar and adult, and the symbionts could be detected in the host gut and ovaries. Although the role played by Rickettsia in the biology of N. tenuis is currently unknown, their high amount in the adults and localization in the gut suggest that they may have a nutritional role in this insect.

This study was conducted to investigate effects of disodium fumarate (DF) on fermentation characteristics and microbial populations in the rumen of Hu sheep fed on high-forage diets. Two complementary feeding trials were conducted. In Trial 1, six Hu sheep fitted with ruminal cannulae were randomly allocated to a 2 × 2 cross-over design involving dietary treatments of either 0 or 20 g DF daily. Total DNA was extracted from the fluid- and solid-associated rumen microbes, respectively. Numbers of 16S rDNA gene copies associated with rumen methanogens and bacteria, and 18S rDNA gene copies associated with rumen protozoa and fungi were measured using real-time PCR, and expressed as proportion of total rumen bacteria 16S rDNA. Ruminal pH decreased in the DF group compared with the control (P < 0.05). Total volatile fatty acids increased (P < 0.001), but butyrate decreased (P < 0.01). Addition of DF inhibited the growth of methanogens, protozoa, fungi and Ruminococcus flavefaciens in fluid samples. Both Ruminococcus albus and Butyrivibrio fibrisolvens populations increased (P < 0.001) in particle-associated samples. Trial 2 was conducted to investigate the adaptive response of rumen microbes to DF. Three cannulated sheep were fed on basal diet for 2 weeks and continuously for 4 weeks with supplementation of DF at a level of 20 g/day. Ruminal samples were collected every week to analyze fermentation parameters and microbial populations. No effects of DF were observed on pH, acetate and butyrate (P > 0.05). Populations of methanogens and R. flavefaciens decreased in the fluid samples (P < 0.001), whereas addition of DF stimulated the population of solid-associated Fibrobacter succinogenes. Population of R. albus increased in the 2nd to 4th week in fluid-associated samples and was threefold higher in the 4th week than control week in solid samples. Analysis of denaturing gradient gel electrophoresis fingerprints revealed that there were significant changes in rumen microbiota after adding DF. Ten of 15 clone sequences from cut-out bands appearing in both the 2nd and the 4th week were 94% to 100% similar to Prevotella-like bacteria, and four sequences showed 95% to 98% similarity to Selenomonas dianae. Another 15 sequences were obtained from bands, which appeared in the 4th week only. Thirteen of these 15 sequences showed 95% to 99% similarity to Clostridium sp., and the other two showed 95% and 100% similarity to Ruminococcus sp. In summary, the microorganisms positively responding to DF addition were the cellulolytic bacteria, R. albus, F. succinogenes and B. fibrisolvens as well as proteolytic bacteria, B. fibrisolvens, P. ruminicola and Clostridium sp.

After birth, development of a normal microbial community occurs gradually, and is affected by factors such as the composition of the maternal gut microbiota, the environment, and the host genome. Diet also has a direct influence, both on composition and activity of this community. This influence begins with the milk, when specific components exert their growth-promoting effect on a beneficial microbiota, thereby suppressing potential pathogens. For example, breast-fed infants compared with formula-fed babies usually have a microbial community dominated by bifidobacteria. When solid food is introduced (weaning), dramatic changes in microbial composition occur, so pathogens can gain access to the disturbed gastrointestinal (GI) ecosystem. However, use of specific dietary components can alter the composition and activity of the microbiota positively. Of all dietary components, fermentable carbohydrates seem to be most promising in terms of promoting proliferation of beneficial bacterial species. Carbohydrate fermentation results in the production of SCFA which are known for their trophic and health-promoting effects. Fermentation of proteins, on the other hand, is often associated with growth of potential pathogens, and results in production of detrimental substances including NH3 and amines. In terms of the GI microbiota, lipids are often associated with the antimicrobial activity of medium-chain fatty acids and their derivatives. The present review aims to provide deeper insights into the composition and development of the neonatal GI microbiota, how this microbiota can be influenced by certain dietary components, and how this might ultimately lead to improvements in host health.

The Regenerative Enclosed Life Support Module Simulator (REMS) was designed to simulate the conditions aboard the International Space Station (ISS). This unique terrestrial, encapsulated environment for humans and their associated organisms allowed investigations into the microbial communities within an enclosed habitat system, primarily with respect to diversity, phylogeny and the possible impact on human health. To assess time- and/or condition-dependent changes in microbial diversity within REMS, a total of 27 air samples were collected during three consecutive months. The microbial burden and diversity were elucidated using culture-dependent and culture-independent molecular methods. The results indicate that during controlled conditions the total microbial burden detected by culture-dependent techniques (below a detectable level to 102 cells m−3 of air) and intracellular ATP assay was significantly low (102–103 cells m−3 of air), but increased during the uncontrolled post-operation phase (∼104 cells m−3 of air). Only Gram-positive and α-proteobacteria grew under tested culture conditions, with a predominant occurrence of Methylobacterium radiotolerans, and Sphingomonas yanoikuyae. Direct DNA extraction and 16S rDNA sequencing methodology revealed a broader diversity of microbes present in the REMS air (51 species). Unlike culture-dependent analysis, both Gram-positive and proteobacteria were equally represented, while members of a few proteobaterial groups dominated (Rhodopseudomonas, Sphingomonas, Acidovorax, Ralstonia, Acinetobacter, Pseudomonas, and Psychrobacter). Although the presence of several opportunistic pathogens warrants further investigation, the results demonstrated that routine maintenance such as controlling the humidity, crew’s daily cleaning, and air filtration were effective in reducing the microbial burden in the REMS.