Determinants of the biodiversity patterns of ammonia-oxidizing archaea community in two contrasting forest stands

Purpose

The variation in soil microbial community patterns is primarily influenced by ecological processes associated with spatial distance and environmental heterogeneities. However, the relative importance of these processes in determining the patterns of soil microbial biodiversity in different successional forests remains unclear.

Materials and methods

Based on the species data from denaturing gradient gel electrophoresis (DGGE) analysis, we described the composition and beta diversity of ammonia-oxidizing archaea (AOA) community, an important functional microbial group in regulating nitrogen cycle, in a middle-succeed stand (60 years of secondary succession) and an undisturbed native stand in a subtropical forest in southern China. The composition pattern was examined using a multi-response permutation procedure (MRPP), and the beta diversity was described using the Sørensen index. The relative influence of edaphic, vegetational, spatial, and topographical factors on AOA composition and beta diversity was assessed by variation partitioning and multiple regression on distance matrices (MRM), respectively.

Results and discussion

We did not find any stand-specific patterns in AOA community composition in the two stands; however, the influential variables were different between the two stands; 7.3 and 4.5 % of the total variation in AOA community composition could be explained by edaphic (i.e., available potassium and total phosphorus) and spatial variables, respectively, in the middle-succeed stand, while 3.7 and 2.8 % of the variation were explained by spatial variable and available phosphorus, respectively, in the native stand. Soil total phosphorus influenced the beta diversity of AOA community most in the middle-succeed stand, while genetic distance of tree species was found to be the most important factor in driving the beta diversity pattern in the native stand.

Conclusions

Soil nutrients influenced the beta diversity of AOA community in the middle-succeed stand more than that in the native stand, while vegetation is more important in the native stand. The substantial unexplained variations were possibly due to the effects of other unmeasured variables. Nevertheless, dispersal process is more important in controlling AOA community composition in the native stand, while processes associated with environmental heterogeneities are more important in the middle-succeed stand in this subtropical forest.

     

Stability of soil organic carbon and potential carbon sequestration at eroding and deposition sites

Purpose

This study aims to explore the dynamics of the factors influencing soil organic carbon (SOC) sequestration and stability at erosion and deposition sites.

Materials and methods

Thermal properties and dissolved aromatic carbon concentration along with Al, Fe concentration and soil specific surface area (SSA) were studied to 1 meter depth at two contrasting sites.

Results and discussion

Fe, Al concentrations and SSA size increased with depth and were negatively correlated with SOC concentration at the erosion site (P?<?0.05), while at the deposition site, these values decreased with increasing depth and were positively correlated with SOC concentration (P?<?0.05). TG mass loss showed that SOC components in the two contrasting sites were similar, but the soils in deposition site contained a larger proportion of labile organic carbon and smaller quantities of stable organic carbon compared to the erosion site. SOC stability increased with soil depth at the erosion site. However, it was slightly variable in the depositional zone. Changes in SUVA₂₅₄ spectroscopy values indicated that aromatic moieties of DOC at the erosion site were more concentrated in the superficial soil layer (0–20 cm), but at the deposition site they changed little with depth and the SUVA₂₅₄ values less than those at the erosion site.

Conclusions

Though large amounts of SOC accumulated in the deposition site, SOC may be vulnerable to severe losses if environmental conditions become more favorable for mineralization in the future due to accretion of more labile carbon. Deep soil layers at the erosion site (>30 cm deep) had a large carbon sink potential.

     

Identification and validation of cold responsive microRNAs of <Emphasis Type="Italic">Hevea brasiliensis</Emphasis> using high throughput sequencing

Cold stress is one of the major abiotic factors that influence the productivity and geographical distribution of many agriculturally important crops like Hevea brasiliensis. Cultivation of H. brasiliensis in India is being extended to northeastern regions, where low temperature during winter adversely affects its survival, growth, and productivity. Developing cold-tolerant genotypes is a primary requisite to maximize the productivity under such challenging environmental conditions. However, lack of methods for early evaluation of cold tolerance in the newly developed clones and the extensive time required for assessing their tolerance in the field are major constraints for clonal selection. The present study was initiated with an objective to identify and characterize cold stress responsive miRNAs from H. brasiliensis that show stronger association with cold tolerance. Next generation sequencing using Illumina HiSeq method revealed the expression of 21 and 29 conserved miRNA (from clone RRIM 600) families in cold-stressed and control samples, respectively. Forty-two novel miRNAs were identified from this study. Upon differential expression analysis, eight conserved miRNAs were found commonly expressed in both the samples. When expression analyses were performed subsequently with six selected miRNAs in two Hevea clones (viz. RRII 105 and RRIM 600), miR169 showed a strong association with cold tolerance. miRNAs such as miR482 and miR159 also exhibited association with cold tolerance. This study suggests the possibility of employing these miRNAs as markers for cold tolerance after validation in more number of genotypes with varying levels of cold tolerance.     

Prevalence of antimicrobial residues in raw table eggs from farms and retail outlets in Enugu State,Nigeria

The use of antimicrobial agents in poultry production results in their accumulation in the body tissues and products such as milk and egg. The subsequent accumulation of these drugs and their metabolites in body cells is known as drug residue. This study was designed to determine the prevalence of antimicrobial residues in eggs from poultry farms and retail outlets in Enugu State, Nigeria. Eggs from 25 selected commercial farms and ten retail outlets were screened for the prevalence of antimicrobial residue. Also, structured questionnaires were administered to 25 commercial farms in the state to determine the management practices and the most widely used antimicrobial drugs in farms and possible association between the management practices and the occurrence of antimicrobial residues in eggs from these farms. All the 25 farms surveyed use oxytetracycline. Eggs from nine of the surveyed farms tested positive for antimicrobial residue and three of the ten surveyed farms also tested positive for antimicrobial residue. No association was observed (p 0.05; Fisher’s exact test) between the occurrence of antibiotic residues in eggs and farm size, feed source and housing systems. This study was able to demonstrate the presence of antimicrobial residues in eggs destined for human consumption. Drugs like nitrofurans which has been banned for use in food animals are still very much in use in Enugu State, Nigeria. Antibiotics given as feed additives may give rise to drug residues in food animals.     

Induced morphological mutants in soybean [<Emphasis Type="Italic">Glycine max</Emphasis> (L.) Merrill]

The seeds of two soybean cultivars viz., Pusa-16 and PK-1042 were treated with 15, 30, and 45 kR of gamma rays, three concentrations of ethyl methane sulphonate (EMS) (0.1%, 0.2%, and 0.3%), and their combinations. Various morphological mutants were recorded in M₂ and M₃ generations. These morphological mutants were named on the basis of the part of the plant body affected. Eight different morphological mutants, i.e., tall, dwarf, gigas, black pod, smooth pod, black spotted seed, bold seeded, and early maturing were isolated. Among them, early maturing and bold seeded mutants had the potential to be incorporated into breeding programs.     

Are Nitric Acid (HNO<Subscript>3</Subscript>) Digestions Efficient in Isolating Microplastics from Juvenile Fish?

A standard method for the detection and isolation of microplastics is required to adequately investigate plastic ingestion by juvenile fish. Dissections of juvenile fish guts require precise handling, which can affect the processing time if sample numbers are high. To investigate the efficacy of nitric acid (HNO₃) in aiding the isolation of microplastics using whole fish, we digested juvenile glassfish, Ambassis dussumieri (Cuvier, 1828), at room temperature and at 80 °C. For a complete digestion, overnight incubation in 10 mL of 55% analytical-reagent (AR) HNO₃ was sufficient for a whole fish of 1 g at room temperature. When coupled with elevated temperature, the digestion time is shortened to a few minutes and larger fish of 3 g can be digested in 30 min. Four of the five types of plastic survived the process, with nylon being the exception. This is a shortfall to the method; however, until a better method replaces it, we still value the use of HNO₃ for its simple, inexpensive, swift and complete digestions of whole fish. Four fish species from two feeding guilds were digested using this method to validate its use. The number of plastic particles ingested did not differ between benthic and pelagic species and microplastic fibres comprised the majority of the plastic types found.     

Vole abundance and reindeer carcasses determine breeding activity of Arctic foxes in low Arctic Yamal,Russia

Background

High latitude ecosystems are at present changing rapidly under the influence of climate warming, and specialized Arctic species at the southern margin of the Arctic may be particularly affected. The Arctic fox (Vulpes lagopus), a small mammalian predator endemic to northern tundra areas, is able to exploit different resources in the context of varying tundra ecosystems. Although generally widespread, it is critically endangered in subarctic Fennoscandia, where a fading out of the characteristic lemming cycles and competition with abundant red foxes have been identified as main threats. We studied an Arctic fox population at the Erkuta Tundra Monitoring site in low Arctic Yamal (Russia) during 10 years in order to determine which resources support the breeding activity in this population. In the study area, lemmings have been rare during the last 15 years and red foxes are nearly absent, creating an interesting contrast to the situation in Fennoscandia.

Results

Arctic fox was breeding in nine of the 10 years of the study. The number of active dens was on average 2.6 (range 0–6) per 100 km² and increased with small rodent abundance. It was also higher after winters with many reindeer carcasses, which occurred when mortality was unusually high due to icy pastures following rain-on-snow events. Average litter size was 5.2 (SD = 2.1). Scat dissection suggested that small rodents (mostly Microtus spp.) were the most important prey category. Prey remains observed at dens show that birds, notably waterfowl, were also an important resource in summer.

Conclusions

The Arctic fox in southern Yamal, which is part of a species-rich low Arctic food web, seems at present able to cope with a state shift of the small rodent community from high amplitude cyclicity with lemming dominated peaks, to a vole community with low amplitude fluctuations. The estimated breeding parameters characterized the population as intermediate between the lemming fox and the coastal fox ecotype. Only continued ecosystem-based monitoring will reveal their fate in a changing tundra ecosystem.

     

Evaluation of Magnetic Coagulant (α-Fe<Subscript>2</Subscript>O<Subscript>3</Subscript>-MO) and its Reuse in Textile Wastewater Treatment

The textile industries are characterized as one of the biggest consumers of potable water and chemical products throughout its process, being responsible for the elevated wastewater generation with intense coloration and wide polluting potential. In this context, the present study proposes the development and application of a new coagulant material for textile wastewater treatment. The proposed coagulant (α-Fe₂O₃-MO) was composed by hematite nanoparticles (α-Fe₂O₃) obtained by a simple non-pollutant methodology, associated with Moringa oleifera (MO) seeds saline extract compounds. Coagulation/flocculation (CF) efficiency was evaluated by removal of physicochemical parameters such as apparent color, turbidity, and compounds with absorption at UV_254nm (UV_254nm) through CF tests carried out on Jar test equipment and sedimentation carried out in the presence and absence of external magnetic field (600 k Am^?1). Kinetics sedimentation was from 0 to 90 min. The use of this new coagulant allowed the removal of 92.37% for apparent color, 91.43% for turbidity, and 46.09% for UV_254nm, indicating that the proposed coagulant association was efficient in the treatment of this type of wastewater under external magnetic field with only 10 min of sedimentation. In addition, the resulting sludge from CF process was tested as base material for a new coagulant synthesis, demonstrating great reuse potential. Therefore, the new proposed coagulant, composed of α-Fe₂O₃ and the compounds present in the seed extract of MO, has applicability for textile wastewater treatment demonstrating high removal rate for all evaluated parameters with cost reduction in the proposed treatment for this wastewater.     

Plant species richness and diversity in urban and peri-urban gardens of Niamey,Niger

Urban and peri-urban agriculture (UPA) significantly contributes to food and nutritional security of urban dwellers in many African countries. Economic and demographic pressures often lead to transformation of subsistence-oriented traditional homegardens into commercial production units. Such transformation is claimed to result in decreasing plant diversity, particularly of local species. A study was therefore undertaken in 51 gardens of Niamey, Niger, to assess the factors determining plant diversity and the suitability of UPA for in situ conservation of plant genetic resources. In each garden, the number and abundance of all human-used plant species were determined, and species density, Shannon index and Shannon evenness were calculated. In the 51 surveyed gardens, a total of 116 plant species were cultivated, most of them for the production of fruits or vegetables. Annual vegetables dominated, particularly exotic species grown for sale. In the cold season, an average of 14 species were cultivated per garden, the Shannon index was 0.96 and evenness was 0.39. Commercial gardens had a species richness similar to that of subsistence gardens, but a lower evenness (P < 0.005), caused by the dominance of a few vegetable species. Gardens of immigrants had a lower Shannon index than those of members of the local Djerma ethnic group. Stepwise multiple regression analysis showed significant influence of various variables on plant species richness and diversity parameters: garden size (richness and Shannon index), ethnicity of the gardener (richness and evenness), gender of the gardener and cash-oriented production (evenness), household size (richness) and garden possession status (Shannon index). Cluster analysis revealed the existence of five garden types. The highest species richness and diversity, particularly of perennial and local species, was found in large, peri-urban, commercial gardens managed by relatively wealthy, elderly gardeners with large families and a regular non-agricultural income.     

Effect of starvation on biochemical composition and gametogenesis in the Pacific oyster <Emphasis Type="Italic">Crassostrea gigas</Emphasis>

The effects of starvation on biochemical composition and gametogenesis were investigated in the Pacific oyster Crassostrea gigas. Histological analysis, combined with oocyte examination and measurements of protein, glycogen and lipid levels and RNA/DNA ratio from gonad, adductor muscle and mantle tissue of each sex were performed. In the starved groups, C. gigas showed gonad development, but the progress was delayed during the experiment. Glycogen was the first substrate used by C. gigas for dealing with lack of food. While glycogen was rapidly consumed, protein and lipid contents decreased gradually. A decrease in the RNA/DNA ratio in the starved groups in all the body components was found during starvation, illustrating that RNA/DNA ratio was a valid indicator of nutritional condition in C. gigas. A significant increase in water and ash contents and a corresponding decrease in condition index were observed in the starved groups, showing that the water and ash content and condition index were related to the usage of glycogen, lipid and protein reserves in body composition. During starvation, energy reserves were mobilized for survival and gonad development, but spawning was arrested. The information obtained in this study is useful for broodstock management in the Pacific oyster industry.