Insights into Bacterial Communities and Diversity of Mangrove Forest Soils along the Upper Gulf of Thailand in Response to Environmental Factors

Biology, Journal Year: 2022, Volume and Issue: 11(12), P. 1787 - 1787

Published: Dec. 8, 2022

The comprehensive data for the dynamic adaptation of bacterial community structure in response to environmental factors is important maintenance mangrove ecosystem. This aspect was investigated with soils and surface water from six forests provinces along Upper Gulf Thailand shoreline. Mangrove were variable respect pH (acidic slightly alkaline) had low amounts organic matter (OM). Illumina next-generation sequencing attested that number observed species as well diversity richness among all sites not significantly different. gamma-, alpha-Proteobacteria, Desulfobacteria, Bacteroidia, Anaerolineae, Bathyarchaeia, Acidobacteriae, Nitrososphaeria, Clostridia, Thermoplasmata more abundant classes present sites. Soil OM major factor mostly modulated structure, while salinity influenced richness. These results provide informative on community, both heavy metal pollutants, prominent sustainable development management forests.

Language: Английский

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Preliminary study of shark microbiota at a unique mix-species shark aggregation site, in the Eastern Mediterranean Sea

Frontiers in Microbiology, Journal Year: 2023, Volume and Issue: 14

Published: Feb. 23, 2023

Sharks, as apex predators, play an essential ecological role in shaping the marine food web and maintaining healthy balanced ecosystems. Sharks are sensitive to environmental changes anthropogenic pressure demonstrate a clear rapid response. This designates them "keystone" or "sentinel" group that may describe structure function of ecosystem. As meta-organism, sharks offer selective niches (organs) for microorganisms can provide benefits their hosts. However, microbiota (due physiological changes) turn symbiosis into dysbiosis affect physiology, immunity ecology host. Although importance within ecosystem is well known, relatively few studies have focused on microbiome aspect, especially with long-term sampling. Our study was conducted at site coastal development Israel where mixed-species shark aggregation (November-May) observed. The includes two species, dusky (Carcharhinus obscurus) sandbar plumbeus) which segregate by sex (females males, respectively). In order characterize bacterial profile examine aspects, samples were collected from different organs (gills, skin, cloaca) both species over 3 years (sampling seasons: 2019, 2020, 2021). composition significantly between individuals surrounding seawater species. Additionally, differences apparent all seawater, skin gills. most dominant groups Flavobacteriaceae, Moraxellaceae, Rhodobacteraceae. specific microbial biomarkers also identified each shark. An unexpected difference diversity 2019-2020 2021 sampling seasons, revealed increase potential pathogen Streptococcus. fluctuations relative abundance Streptococcus months third season reflected seawater. provides initial information Eastern Mediterranean Sea. addition, we demonstrated these methods able episodes robust measure research.

Language: Английский

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Bioindicator responses to extreme conditions: Insights into pH and bioavailable metals under acidic metal environments

Journal of Environmental Management, Journal Year: 2024, Volume and Issue: 356, P. 120550 - 120550

Published: March 26, 2024

Language: Английский

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Microbial diversity and functional profiling in coastal tidal flat sediment with pollution of nutrients and potentially toxic elements

Journal of Soils and Sediments, Journal Year: 2023, Volume and Issue: 23(7), P. 2935 - 2950

Published: April 19, 2023

Language: Английский

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Exploring the diversity and structural response of sediment-associated microbiota communities to environmental pollution at the siangshan wetland in Taiwan using environmental DNA metagenomic approach

Frontiers in Marine Science, Journal Year: 2022, Volume and Issue: 9

Published: Aug. 29, 2022

One of the most crucial struggles for aquatic ecosystem and modern society is environmental pollution. New approaches, such as DNA Metagenomic approach, have become a powerful tool to investigate abundance diversity sediment-associated microbiota communities. Nevertheless, information on response microbial populations heavy metals (HMs) in coastal sediments Taiwan scarce. 44 sediment samples were collected from Siangshan wetland (Taiwan Strait) at two different depths (surface sub-surface) measure various variables viz., metals, total organic matters, composition. Moreover, structure examined using high-throughput 16S rRNA gene (V3-V4) next-generation sequencing, explore community variables. According computed pollution indices quality guidelines (SQGs), enrichment factor (EF), geo-accumulation index (I geo ), (PI), load (PLI), studied sites classified unpolluted, moderately polluted, extremely polluted. Our results revealed that majority high-quality reads assigned bacteria (~ 95.05%), Archaea 4.83%), 0.13% unclassified. Study dominated largely by Proteobacteria with 38.02% across all samples, followed Bacteroidota (7.18%), Desulfobacterota (6.97%), Actinobacterota (6.68%), Cyanobacteria (5.84%), Chloroflexota (4.18%), Planctomycetota (4.16%), Firmicutes (3.69%). Beta (Non-metric dimensional scaling analysis, nMDS) explained surface sub-surface groups had significantly compositions (p = 0.01). Meanwhile, polluted exhibited more richness than unpolluted sites. Redundancy analysis (RDA) illustrated Mn, Cu, Al, Co, Ni, Sand, Cr sizable effect communities (at class level). This work highlights potential responsibility shaping sedimentary via integrating ecological alteration

Language: Английский

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Sustainable control of Microcystis aeruginosa, a harmful cyanobacterium, using Selaginella tamariscina extracts

Ecotoxicology and Environmental Safety, Journal Year: 2024, Volume and Issue: 277, P. 116375 - 116375

Published: April 26, 2024

Eco-friendly reagents derived from plants represent a promising strategy to mitigate the occurrence of toxic cyanobacterial blooms. The use an amentoflavone-containing Selaginella tamariscina extract (STE) markedly decreased number Microcystis aeruginosa cells, thus demonstrating significant anti-cyanobacterial activity. In particular, Microcystis-killing fraction obtained pulverized S. using hot-water-based extraction at temperatures 40 °C induced cell disruption in both axenic and xenic M. aeruginosa. Liquid chromatographic analysis was also conducted measure concentration amentoflavone STE, supporting potential aeruginosa-specific killing effects STE. Bacterial community revealed that STE treatment led reduction relative abundance species while increasing 16S rRNA gene copy NIBR18 bloom samples isolated freshwater environment. Subsequent testing on bacteria, cyanobacteria, algae not for other taxa. Furthermore, ecotoxicology assessment involving Aliivibrio fischeri, Daphnia magna, Danio rerio found high doses immobilized D. magna but did impact organisms, there no change water quality. Overall, due its effective capability low ecotoxicity, aqueous represents practical alternative management

Language: Английский

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DL-TODA: A Deep Learning Tool for Omics Data Analysis

Biomolecules, Journal Year: 2023, Volume and Issue: 13(4), P. 585 - 585

Published: March 24, 2023

Metagenomics is a technique for genome-wide profiling of microbiomes; this generates billions DNA sequences called reads. Given the multiplication metagenomic projects, computational tools are necessary to enable efficient and accurate classification reads without needing construct reference database. The program DL-TODA presented here aims classify using deep learning model trained on over 3000 bacterial species. A convolutional neural network architecture originally designed computer vision was applied modeling species-specific features. Using synthetic testing data simulated with 2454 genomes from 639 species, shown nearly 75% high confidence. accuracy 0.98 at taxonomic ranks above genus level, making it comparable Kraken2 Centrifuge, two state-of-the-art tools. also achieved an 0.97 species which higher than 0.93 by 0.85 Centrifuge same test set. Application human oral cropland soil metagenomes further demonstrated its use in analyzing microbiomes diverse environments. Compared Kraken2, predicted distinct relative abundance rankings less biased toward single taxon.

Language: Английский

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Potential ecological risk from heavy metals in surface sediment of lotic systems in central region Peru

Frontiers in Water, Journal Year: 2024, Volume and Issue: 5

Published: Jan. 11, 2024

High Andean rivers are fragile ecosystems in the face of various threats, including heavy metal contamination. The objective this study was to evaluate potential ecological risk metals surface sediment lotic systems central region Peru. Composite samples sediments were collected from Chía and Miraflores concentrations determined. analysis carried out based on contamination indexes confirmed by modified degree (mCd). concentration river following descending order: Fe > Mn Zn V Pb Cr Ni Cu Mo Hg, y en el río fue: Hg Mo. mean Cu, Cr, Fe, Mn, Mo, Ni, Pb, both did not exceed threshold values continental crust concentration, nor interim quality guidelines Canadian Council Ministers Environment. However, exceeded guideline likely effect (0.7 mg.kg −1 ) adverse effects. enrichment factor (EF), (CF), geoaccumulation index (I geo ), pollution load (PLI) indicated low studied, being Finally, assessment showed that presented a risk.

Language: Английский

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Mine tailings remediation via sulfate-reducing bacteria and iron-reducing bacteria: heavy metals immobilization and biological sealing

Chemistry and Ecology, Journal Year: 2022, Volume and Issue: 38(8), P. 706 - 719

Published: Aug. 16, 2022

Recent years have witnessed a steep rise in the use of SRB and IRB for remediation heavy metal contamination. This study investigated effects on physical chemical properties copper tailings. Besides, altered microbial community structure during process mechanism were also explored. The results showed that bioremediation using increased pH tailing permeation time, reduced ORP concentration metals, resulting friendly environment. biological sealing was created from insoluble precipitates secreted by microbes blocked seepage channels. prevented infiltration rain oxygen leaching metals. These findings never been reported previously. In exudates, resulted change dominant microorganisms oxidised bacteria to IRB. mine tailings, effect varied with depths addition, species significantly different at key SRB, including Desulfosporosinus, Desulfotomaculum Desulfovibrio, mainly existed middle low part

Language: Английский

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Effects of Transplantation and Microhabitat on Rhizosphere Microbial Communities during the Growth of American Ginseng

Agronomy, Journal Year: 2023, Volume and Issue: 13(7), P. 1876 - 1876

Published: July 16, 2023

Transplanting has been widely used in American ginseng (Panax quinquefolium L.) cultivation Northwest China to mitigate the negative effects of continuous cropping obstacles. Because accumulation pathogenic microorganisms and change soil properties, transplanting newly cultivated fields after two years growth become a major planting pattern. Despite improving quality ginseng, properties microbiota on during process are poorly understood. In present study, microbial communities, physico-chemical morpho-physiological parameters were analyzed investigate characteristics both root microhabitats. Results indicated that structure species bacterial fungal communities changed significantly different microhabitats before transplantation. Moreover, assemblage community was dominated by deterministic processes. The stochastic ratio increased niche breadth decreased transplanting. While assembly process, there no significant difference NST, βNTI or Bacterial co-occurrence networks demonstrated higher connectivity but lower aggregation microhabitat, while remained stable Gammaproteobacteria biomarker Alphaproteobacteria, Betaproteobacteria Gemmatimonadetes biomarkers microhabitat. Sordariomycetes with high relative abundance functional important ASVs correlated pH, organic matter, total nitrogen, available phosphorus, potassium fresh weight, taproot diameter stem height ginseng. Partial least squares path modeling showed affected formation specific ASVs. microhabitat had positive effect growth, rare taxa effect. Our results provide good starting point for future studies succession influenced transplantation pattern

Language: Английский

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