Total Environment Advances, Journal Year: 2024, Volume and Issue: 11, P. 200113 - 200113
Published: Aug. 16, 2024
Language: Английский
Nature Biotechnology, Journal Year: 2023, Volume and Issue: 42(5), P. 715 - 718
Published: July 27, 2023
Abstract Studies using 16S rRNA and shotgun metagenomics typically yield different results, usually attributed to PCR amplification biases. We introduce Greengenes2, a reference tree that unifies genomic databases in consistent, integrated resource. By inserting sequences into whole-genome phylogeny, we show metagenomic data generated from the same samples agree principal coordinates space, taxonomy phenotype effect size when analyzed with tree.
Language: Английский
Citations
197
Nature Communications, Journal Year: 2023, Volume and Issue: 14(1)
Published: June 8, 2023
Factors driving microbial community composition and diversity are well established but the relationship with functioning is poorly understood, especially at large scales. We analysed biodiversity metrics distribution of potential functional groups along a gradient increasing land-use perturbation, detecting over 79,000 bacterial 25,000 fungal OTUs in 715 sites across 24 European countries. found lowest less-disturbed environments (woodlands) compared to grasslands highly-disturbed (croplands). Highly-disturbed contain significantly more chemoheterotrophs, harbour higher proportion plant pathogens saprotrophs, have less beneficial symbionts woodlands extensively-managed grasslands. Spatial patterns communities predicted functions best explained when interactions among major determinants (vegetation cover, climate, soil properties) considered. propose guidelines for environmental policy actions argue that taxonomical should be considered simultaneously monitoring purposes.
Language: Английский
Citations
142
ACS Chemical Neuroscience, Journal Year: 2023, Volume and Issue: 14(10), P. 1717 - 1763
Published: May 8, 2023
Gut microbiota includes a vast collection of microorganisms residing within the gastrointestinal tract. It is broadly recognized that gut and brain are in constant bidirectional communication, which its metabolic production major component, form so-called microbiome–brain axis. Disturbances homeostasis caused by imbalance their functional composition activities, known as dysbiosis, cause dysregulation these pathways trigger changes blood–brain barrier permeability, thereby causing pathological malfunctions, including neurological disorders. In turn, can affect structure function through autonomic nervous system regulating motility, intestinal transit secretion, permeability. Here, we examine data from CAS Content Collection, largest published scientific information, analyze publication landscape recent research. We review advances knowledge related to human microbiome, complexity functionality, communication with central system, effect axis on mental health. discuss correlations between various diseases, specifically also explore metabolites regard impact associated diseases. Finally, assess clinical applications gut-microbiota-related substances development pipelines. hope this serve useful resource understanding current emerging field an effort further solving remaining challenges fulfilling potential.
Language: Английский
Citations
97
Soil Biology and Biochemistry, Journal Year: 2024, Volume and Issue: 193, P. 109382 - 109382
Published: March 12, 2024
Soil is an extremely complex and dynamic matrix, in part, due to the wide diversity of organisms living within it. organic matter (SOM) fundamental substrate on which delivery ecosystem services depends, providing metabolic fuel drive soil function. As such, studying metabolome (the concentration low molecular weight metabolites), as a subset SOM, holds potential greatly expand our understanding behaviour, fate, interaction functional significance small molecules soil. Encompassing range chemical classes (including amino acids, peptides, lipids carbohydrates) large number individual (ca. n = 105 106), resultant (indirect) output several layers biological hierarchy, namely metagenome, metatranscriptome metaproteome. it may also provide support validation for these "multi-omics" datasets. We present case increased use untargeted metabolomics biochemistry, particularly furthering functions driving SOM composition biogeochemical cycling. Further, we discuss scale challenge terms metabolite extraction, analysis interpretation plant-soil-microbial systems. Lastly, highlight key knowledge gaps currently limit metabolomic approaches better understand processes, including: (i) datasets; (ii) source, emission fate soil-derived volatile compounds (VOCs), (iii) assessing temporal fluxes metabolites, (iv) monitoring ecological interactions rhizosphere. While application science still its relative infancy, importance biochemical system relation regulation, management underpinning further elucidating links between organisms, well ability community process cycle nutrients.
Language: Английский
Citations
20
Nature Biotechnology, Journal Year: 2023, Volume and Issue: 41(12), P. 1820 - 1828
Published: March 16, 2023
Language: Английский
Citations
30
Cell, Journal Year: 2024, Volume and Issue: 187(19), P. 5195 - 5216
Published: Sept. 1, 2024
Language: Английский
Citations
15
Natural Product Reports, Journal Year: 2024, Volume and Issue: 41(6), P. 885 - 904
Published: Jan. 1, 2024
In this review we discuss emerging functional metabolomics strategies and their potential use to reveal mechanistic insights in large-scale natural product discovery studies.
Language: Английский
Citations
11
Journal of Allergy and Clinical Immunology, Journal Year: 2024, Volume and Issue: 153(4), P. 954 - 968
Published: Jan. 29, 2024
Language: Английский
Citations
9
Microbiome, Journal Year: 2024, Volume and Issue: 12(1)
Published: Sept. 7, 2024
Language: Английский
Citations
9
Nature Reviews Methods Primers, Journal Year: 2025, Volume and Issue: 5(1)
Published: Jan. 23, 2025
Language: Английский
Citations
1