Diversity and assembly of active bacteria and their potential function along soil aggregates in a paddy field

Unveiling Microbial Dynamics: How Forest Aging Shapes the Microbial Communities of Pinus massoniana

Plants host diverse microbial communities essential for nutrient acquisition, growth, and responses to biotic and abiotic stresses. Despite their importance, the variation and stability of these communities during forest succession remain poorly understood. This study investigated the microbial communities in Pinus massoniana forests at different stand ages (12, 22, 30, and 40 years). Results showed that the phyllosphere and roots of P. massoniana harbor diverse microbial communities, which shift dynamically with forest aging. Bacterial species diversity consistently surpassed fungal diversity across all habitats. Forest aging significantly influenced the alpha diversity of phyllosphere and soil microbes, whereas root-associated microbial diversity remained stable. Co-occurrence network analysis revealed that bacterial communities formed more complex networks than fungal communities and exhibited greater stability. Functional annotation confirmed that bacterial communities were functionally more stable, predominantly involving metabolic processes. In contrast, endophytes dominated the phyllosphere fungi, while ectomycorrhizal fungi were prevalent in root and soil fungal communities. Environmental factors, including total nitrogen, total phosphorus, available potassium, and pH, emerged as key drivers of microbial dynamics. These findings provide novel insights into the differing responses of bacterial and fungal communities to forest aging, highlighting the critical role of ecological niches in shaping microbial dynamics.

Heavy metal migration dynamics and solid-liquid distribution strategy in abandoned tailing soils

The tailings soil originating from an abandoned sulfur-iron mine in Sichuan Province, China, exhibits elevated concentrations of heavy metals (HMs) and possesses limited soil conservation capacity. Variability soil particle size fractions (PSFs) contributes to an increased risk of HMs ion migration. Existing research on HMs behavior has focused on the bulk soil scale, resulting in a dearth of comprehensive information concerning different particle sizes and colloid scales. We collected soil samples from upstream source (XWA), migration path (XWB), and downstream farmland (XWC) of an abandoned tailing and categorized into sand, silt, clay, colloid and dissolved, respectively. The investigation primarily aimed to elucidate the solid-liquid distribution trade-off strategies of soil HMs along migration pathway. Results show that PSFs composition predominantly influences HMs solid-liquid distribution. In the mining area, large particles serve as the principal component for HMs enrichment. However, along the migration pathway, the proportion of highly mobile fine particles increases, shifting HMs from solid to liquid phase. Furthermore, inorganic elements such as Mg, Al, and Fe influence on HMs distribution within PSFs through various reactions, whereas organic matter and glomalin-related soil protein (GRSP) also exert regulatory roles. Increasing the proportion of large particles can reduce the risk of HMs migration.

Development of a novel sequence based real-time PCR assay for specific and sensitive detection of Burkholderia pseudomallei in clinical and environmental matrices

BACKGROUND

Melioidosis, caused by the category B biothreat agent Burkholderia pseudomallei, is a disease with a high mortality rate and requires an immediate culture-independent diagnosis for effective disease management. In this study, we developed a highly sensitive qPCR assay for specific detection of Burkholderia pseudomallei and melioidosis disease diagnosis based on a novel target sequence.

METHODS

An extensive in-silico analysis was done to identify a novel and highly conserved sequence for developing a qPCR assay. The specificity of the developed assay was analyzed with 65 different bacterial cultures, and the analytical sensitivity of the assay was determined with the purified genomic DNA of B. pseudomallei. The applicability of the assay for B. pseudomallei detection in clinical and environmental matrices was evaluated by spiking B. pseudomallei cells in the blood, urine, soil, and water along with suitable internal controls.

RESULTS

A novel 85-nucleotide-long sequence was identified using in-silico tools and employed for the development of the highly sensitive and specific quantitative real-time PCR assay S664. The assay S664 was found to be highly specific when evaluated with 65 different bacterial cultures related and non-related to B. pseudomallei. The assay was found to be highly sensitive, with a detection limit of 3 B. pseudomallei genome equivalent copies per qPCR reaction. The detection limit in clinical matrices was found to be 5 × 102 CFU/mL for both human blood and urine. In environmental matrices, the detection limit was found to be 5 × 101 CFU/mL of river water and 2 × 103 CFU/gm of paddy field soil.

CONCLUSIONS

The findings of the present study suggest that the developed assay S664 along with suitable internal controls has a huge diagnostic potential and can be successfully employed for specific, sensitive, and rapid molecular detection of B. pseudomallei in various clinical and environmental matrices.