Improved description of terrestrial habitat types by including microbial communities as indicators

Journal of Environmental Management, Journal Year: 2023, Volume and Issue: 344, P. 118677 - 118677

Published: Aug. 7, 2023

Soils host diverse communities of microorganisms essential for ecosystem functions and soil health. Despite their importance, are not covered by legislation protecting biodiversity or habitats, such as the Habitats Directive. Advances in molecular methods have caused breakthroughs microbial community analysis, recent studies shown that parts habitat-specific. If distinct present habitat types defined Directive, Directive may be improved including these communities. Thus, monitoring reporting conservation status could based only on plant but also In study, bacterial were examined six conducting botanical surveys collecting samples amplicon sequencing across 19 sites Denmark. Furthermore, selected physico-chemical properties expected to differ between explain variations composition bacteria vegetation analysed (pH, electrical conductivity (EC), texture, water repellency, organic carbon content (OC), inorganic nitrogen, in-situ (SWC)). some within same type overlaps types, habitat-specific observed both communities, no correlation was alpha diversity bacteria. PERMANOVA analysis used evaluate variables best able variation Habitat alone 46% 47% respectively. Excluding a variable, model SWC, OC, fine silt, Shannon's index vegetation) 37% For vegetation, EC, ammonium bacteria) 25% variation. Based results, included improve monitoring, more sensitive changes environment compared which current is on.

Language: Английский

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Elucidating potential bioindicators from insights in the diversity and assembly processes of prokaryotic and eukaryotic communities in the Mekong River

Environmental Research, Journal Year: 2023, Volume and Issue: 243, P. 117800 - 117800

Published: Dec. 4, 2023

Drivers for spatio-temporal distribution patterns of overall planktonic prokaryotes and eukaryotes in riverine ecosystem are generally not fully understood. This study employed amplicon metabarcoding to investigate the distributions assembly mechanisms bacterial eukaryotic communities Mekong River. The prevailing bacteria taxa were found be Betaproteobacteria, Actinobacteria, Bacteroidetes, while dominant organisms cryptophytes, chlorophytes, diatoms. community assemblages influenced by a combination stochastic deterministic processes. Drift (DR) dispersal limitation (DL), signifying mechanism, main processes shaping prokaryotic communities. However, homogeneous selection (HoS), indicating played major role process core communities, especially wet season. In contrast, including Opisthokonta, Sar, Chlorophyta dominated significance HoS within was also exhibit decreasing trend from upstream sampling sites (Chiang Saen Chiang Khan, Nong Khai) towards downstream (Mukdahan, Khong Chiam) environmental gradients resulting site-specific variations gradual decrease elevation along river may have potential influence on assembly. Crucial factors that shape phylogenetic structure distinct bins included water depth, temperature, chloride, sodium, sulphate identified, as inferred their correlation with beta Net Relatedness Index (betaNRI) during Overall, these findings enhance understanding complex governing dynamics Finally, insights gained this could provide information further use specific microbial-based bioindicators effective assessment conservation River ecosystem.

Language: Английский

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Harnessing the intragenomic variability of rRNA operons to improve differentiation of Vibrio species

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: April 30, 2024

Although the 16S rRNA gene is frequently used as a phylogenetic marker in analysis of environmental DNA, this often fails to distinguish closely related species, including those genus Vibrio. Here, we investigate whether inclusion and 23S sequence can help overcome intrinsic weaknesses analyses for differentiation Vibrio species. We construct maximum likelihood tree assess use identify clades Within tree, putative informative bases responsible polyphyly, demonstrate association these positions with topology. that concatenation genes increases number nucleotide positions, thereby overcoming ambiguities rRNA-based reconstructions. Finally, experimentally approach considerably improves identification species samples.

Language: Английский

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Variations in bacterial diversity and community structure in the sediments of an alkaline lake in Inner Mongolia plateau, China

PeerJ, Journal Year: 2023, Volume and Issue: 11, P. e15909 - e15909

Published: Aug. 21, 2023

Alkaline lakes are a special aquatic ecosystem that act as important water and alkali resource in the arid-semiarid regions. The primary aim of study is to explore how environmental factors affect community diversity structure, find whether there key microbes can indicate changes alkaline lakes. Therefore, four sediment samples (S1, S2, S3, S4) were collected from Hamatai Lake which an Ordos' desert plateau Inner Mongolia. Samples along salinity alkalinity gradients bacterial compositions investigated by Illumina Miseq sequencing. results revealed richness decreased with increasing (pH) salinity, structure was obviously different for relatively light hyposaline (LAHO; pH < 8.5; 20‰) high hypersaline (HAHR; > 20‰). Firmicutes, Proteobacteria Bacteriodetes observed be dominant phyla. Furthermore, Acidobacteria, Actinobacteria, low salt-tolerant alkaliphilic nitrifying taxa mainly distributed S1 LAHO characteristic. Clostridia, Gammaproteobacteria, denitrifying taxa, haloalkaliphilic sulfur cycling S3 S4, well adapted haloalkaline conditions. Correlation analysis (operational taxonomic unit numbers and/or Shannon index) (Chao1) significantly positively correlated ammonium nitrogen (r = 0.654, p 0.05; r 0.680, 0.05) negatively -0.924, 0.01; -0.800, -0.933, 0.01) -0.615, -0.647, 0.05). A redundancy variation partitioning (explanation degrees 53.5%, pseudo-F 11.5, 0.01), TOC/TN (24.8%, 10.3, (9.2%, 9.5, most significant caused variations structure. suggested alkalinity, nutrient salt jointly one taxon (Acidobacteria), six (Cyanobacteria, Nitrosomonadaceae, Nitrospira, Bacillus, Lactococcus Halomonas) five (Desulfonatronobacter, Dethiobacter, Desulfurivibrio, Thioalkalivibrio Halorhodospira) related carbon, cycles, respectively. Classes Clostridia Gammaproteobacteria might saline-alkali conditions sediments plateau.

Language: Английский

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Role of Microbiology for Sustainable Development in India

Published: Jan. 1, 2024

Language: Английский

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Microbial, holobiont, and Tree of Life eDNA/eRNA for enhanced ecological assessment

Trends in Microbiology, Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 1, 2024

Microbial environmental DNA and RNA (collectively 'eNA') originate from a diverse abundant array of microbes present in samples. These eNA signals, largely representing whole organisms, serve as powerful complement to signals derived fragments or remnants larger organisms. Integrating microbial data into the toolbox ecosystem assessments biotic indices therefore has potential transform how we use understand biodiversity dynamics functions, inform next generation monitoring. Incorporating holobiont Tree Life approaches analyses offers further holistic insight range ecological interactions between other paving way for advancing our understanding of, ultimately manipulating properties pertinent management, conservation, wildlife health, food production.

Language: Английский

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Microbial communities of urban and industrial polluted soils in the Russian Arctic

Geoderma Regional, Journal Year: 2024, Volume and Issue: 39, P. e00890 - e00890

Published: Nov. 6, 2024

Language: Английский

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Microbes and phytoplankton

Elsevier eBooks, Journal Year: 2024, Volume and Issue: unknown, P. 377 - 406

Published: Nov. 15, 2024

Language: Английский

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