Mycobiome and Cancer: What Is the Evidence?

Cancers, Год журнала: 2021, Номер 13(13), С. 3149 - 3149

Опубликована: Июнь 24, 2021

Background: To date, most researchhas focused on the bacterial composition of human microbiota. In this review, we synopsize recent data mycobiome and cancer, highlighting specific cancer types based current available evidence, presenting interesting perspectives limitations studies laboratory methodologies. Recent findings: Head neck carcinoma (HNCC), colorectal (CRC) pancreatic ductal adenocarcinoma (PDA) have been associated with dissimilarities in mycobiota between cases non-cancer participants. Overall, fungal dysbiosis decreased richness diversity was common patients; however, a mycobiotic signature HNSCC or CRC has not emerged. Different strains Candida albicans identified among HNCC, whilst Lichtheimia corymbifera, member Mucoraceae family, shown to predominate patients oral tongue cancer. Virulence factors spp. include formation biofilm filamentation, secretion toxins metabolites. present dysregulated ratio Basidiomycota/Ascomycota. Abundance Malassezia linked occurrence progression PDA, particularly animal models PDA. Interestingly, Schizophyllum, component mycobiome, may exhibit anti-cancer potential. Conclusion: The per se, along its interactions bacteriome host, be implicated promotion carcinogenesis. Fungi used as diagnostic prognostic/predictive tools treatment targets for coming years. More large-scale, prospective, multicentric longitudinal an integrative multi-omics methodology are required examine precise contribution etiopathogenesis delineate whether changes that occur causal consequent

Язык: Английский

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Comparing eDNA metabarcoding primers for assessing fish communities in a biodiverse estuary

PLoS ONE, Год журнала: 2022, Номер 17(6), С. e0266720 - e0266720

Опубликована: Июнь 17, 2022

Metabarcoding of environmental DNA is increasingly used for biodiversity assessments in aquatic communities. The efficiency and outcome these efforts are dependent upon either de novo primer design or selecting an appropriate set from the dozens that have already been published. Unfortunately, there a lack studies directly compared efficacy different metabarcoding primers marine estuarine systems. Here we evaluate five commonly sets designed to amplify rRNA barcoding genes fishes compare their performance using water samples collected sites highly biodiverse Indian River Lagoon Florida. Three portion mitochondrial 12S gene (MiFish_12S, 171bp; Riaz_12S, 106 bp; Valentini_12S, 63 bp), one amplifies 219 bp 16S (Berry_16S), other 271 nuclear 18S (MacDonald_18S). vast majority reads (> 99%) generated assigned non-target (non-fish) taxa therefore this was omitted most analyses. Using conservative 99% similarity threshold species level assignments, detected comparable number (55 49, respectively) similarly high Shannon's diversity values Riaz_12S Berry_16S sets. Meanwhile, just 34 32 were MiFish_12S Valentini_12S sets, respectively. We able both bony cartilaginous four with (>99%) former. greatest elasmobranchs (six species) suggesting it may be suitable candidate detection sharks rays. Of total 76 fish identified across all datasets, combined three 85.5% (65 while combination 93.4% (71 species). These results highlight importance employing multiple as well target genomic regions. Moreover, our suggest widely adopted not best choice, rather found effective eDNA-based surveys system.

Язык: Английский

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Role of Plants and Urban Soils in Carbon Stock: Status, Modulators, and Sustainable Management Practices

Plants, Год журнала: 2025, Номер 14(4), С. 546 - 546

Опубликована: Фев. 10, 2025

Urban soils are vital components of urban ecosystems, significantly influenced by anthropogenic activities and environmental factors. Despite misconceptions about their quality, play a pivotal role in carbon (C) cycling storage, impacting global emissions sequestration. However, challenges such as soil contamination, land use changes, expansion pose significant threats to quality C storage capacity. Over the last two decades, there has been an increasing interest potential part climate change mitigation strategies. In this review, bibliometric analysis covering twenty years (2004-2024) was performed offer insights into research trends, mainly Mediterranean region. This paper also identifies gaps proposes essential solutions for mitigating negative impacts urbanization on biodiversity functions. Key modulators, including plants, microbes, features, highlighted dynamics, emphasizing importance effective vegetation management enhance sequestration ecosystem services. Strategies reintroducing nature areas applying organic amendments promising improving microbial diversity. Further awareness maximize effectiveness these strategies, ensuring sustainable resilience.

Язык: Английский

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Flooding Causes Dramatic Compositional Shifts and Depletion of Putative Beneficial Bacteria on the Spring Wheat Microbiota

Frontiers in Microbiology, Год журнала: 2021, Номер 12

Опубликована: Ноя. 5, 2021

Flooding affects both above- and below-ground ecosystem processes, it represents a substantial threat for crop cereal productivity under climate change. Plant-associated microbiota play crucial role in plant growth fitness, but we still have limited understanding of the response crop-microbiota complex extreme weather events, such as flooding. Soil microbes are highly sensitive to abiotic disturbance, shifts microbial community composition, structure functions expected when soil conditions altered due flooding events (e.g., anoxia, pH alteration, changes nutrient concentration). Here, established pot experiment determine effects stress on spring wheat-microbiota complex. Since phenology could be an important factor hydrological stress, was induced only once at different stages (PGSs), tillering, booting flowering. After each event, measured control flooded pots several edaphic properties characterized bacterial associated rhizosphere roots wheat using metabarcoding approach. In our study, caused significant reduction development observed dramatic composition PGS which induced. However, more pronounced disruption assembly always shown younger plants. Generally, (i) increase taxa with anaerobic respiratory capabilities, members Firmicutes Desulfobacterota, (ii) Actinobacteria Proteobacteria, (iii) depletion putative plant-beneficial taxa, (iv) increases abundance potential detrimental bacteria. These differences between samples were correlated by total N soil, S, Na, Mn, Ca concentrations root most influencing assemblage mircobiota stress. Collectively, findings demonstrated restructuring microbiota, highlighted effect this fitness performance.

Язык: Английский

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New-Generation Sequencing Technology in Diagnosis of Fungal Plant Pathogens: A Dream Comes True?

Journal of Fungi, Год журнала: 2022, Номер 8(7), С. 737 - 737

Опубликована: Июль 16, 2022

The fast and continued progress of high-throughput sequencing (HTS) the drastic reduction its costs have boosted new unpredictable developments in field plant pathology. cost whole-genome sequencing, which, until few years ago, was prohibitive for many projects, is now so affordable that a branch, phylogenomics, being developed. Fungal taxonomy deeply influenced by genome comparison, too. It easier to discover genes as potential targets an accurate diagnosis or emerging pathogens, notably those quarantine concern. Similarly, with development metabarcoding metagenomics techniques, it possible unravel complex diseases answer crucial questions, such “What’s my soil?”, good approximation, including fungi, bacteria, nematodes, etc. technologies allow redraw approach disease control strategies considering pathogens within their environment deciphering interactions between microorganisms cultivated crops. This kind analysis usually generates big data need sophisticated bioinformatic tools (machine learning, artificial intelligence) management. Herein, examples use research fungal diversity some are reported.

Язык: Английский

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Using nanopore sequencing to identify fungi from clinical samples with high phylogenetic resolution

Scientific Reports, Год журнала: 2023, Номер 13(1)

Опубликована: Июнь 16, 2023

The study of microbiota has been revolutionized by the development DNA metabarcoding. This sequence-based approach enables direct detection microorganisms without need for culture and isolation, which significantly reduces analysis time offers more comprehensive taxonomic profiles across broad phylogenetic lineages. While there an accumulating number researches on bacteria, molecular fungi still remains challenging due to lack standardized tools incompleteness reference databases limiting accurate precise identification fungal taxa. Here, we present a metabarcoding workflow characterizing with high resolution. method involves amplifying longer stretches ribosomal RNA operons sequencing them using nanopore long-read technology. resulting reads were error-polished generate consensus sequences 99.5-100% accuracy, then aligned against genome assemblies. efficacy this was explored polymicrobial mock community patient-derived specimens, demonstrating marked potential combined calling classification. Our powerful tool rapid pathogenic promise improve our understanding role in health disease.

Язык: Английский

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Role of Mineral Nitrogen Nutrition in Fungal Plant Diseases of Cereal Crops

Critical Reviews in Plant Sciences, Год журнала: 2023, Номер 42(3), С. 93 - 123

Опубликована: Апрель 7, 2023

Conventional chemical crop protection with pesticides is increasingly seen as being critical, because of pesticide residues in food and the environment. Integrated alternative management strategies such rotations soil might also involve targeted use certain mineral fertilizers benefits for plant health. A key element required healthy crops nitrogen, which applied at differing dosages various forms, all distinct effects on physiology growth. Here, we review classical more recent evidence disease-protective nitrogen forms. We conclude that simple general statements concerning roles agricultural environments remain elusive, although complex plant-soil microbial interaction networks are becoming understood. The health modern varieties be substantially improved by fertilizer particularly when disease-causing fungal species known.

Язык: Английский

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Culture-Dependent and Metabarcoding Characterization of the Sugar Beet (Beta vulgaris L.) Microbiome for High-Yield Isolation of Bacteria with Plant Growth-Promoting Traits

Microorganisms, Год журнала: 2023, Номер 11(6), С. 1538 - 1538

Опубликована: Июнь 9, 2023

The diversity of plant-associated bacteria is vast and can be determined by 16S rRNA gene metabarcoding. Fewer them have plant-beneficial properties. To harness their benefits for plants, we must isolate them. This study aimed to check whether metabarcoding has predictive power in identifying the majority known with traits that isolated from sugar beet (Beta vulgaris L.) microbiome. Rhizosphere phyllosphere samples collected during one season at different stages plant development were analyzed. Bacteria on rich unselective media plant-based enriched leaves or rhizosphere extracts. isolates identified sequencing tested vitro properties (stimulation germination; exopolysaccharide, siderophore, HCN production; phosphate solubilization; activity against pathogens). highest number co-occurring beneficial was eight, found five species: Acinetobacter calcoaceticus, Bacillus australimaris, B. pumilus, Enterobacter ludwiigi, Pantoea ananatis. These species not detected previously been described as inhabitants beets. Thus, our findings point out necessity a culture-dependent microbiome analysis advocate low-nutrient high-yield isolation taxa multiple traits. A -independent approach required community assessment. Still, best select potential use biofertilizers biopesticides cultivation.

Язык: Английский

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Amorphous silica fertilization ameliorated soil properties and promoted putative soil beneficial microbial taxa in a wheat field under drought

Applied Soil Ecology, Год журнала: 2024, Номер 196, С. 105286 - 105286

Опубликована: Янв. 22, 2024

Increasing water demand from agricultural practices and environmental pollution caused by the intensive use of agrochemicals are among most pressing issues concerning agriculture sustainability. The amorphous silica (ASi) as soil amendment can represent a valid alternative measure to cope with upcoming challenges intensifying drought stress decrease need for phosphorus fertilizer application. In this study, we investigated impact two levels ASi fertilization on edaphic characteristics rhizosphere microbiota winter wheat through field experiment conducted during period. Since plant phenology plays pivotal role in shaping crop microbiota, our research explored response bacteria fungi at three distinct stages growth: pre-planting, tillering, ripening. Firstly, results clearly showed an ameliorative effect properties, notable improvements moisture, particularly higher levels. Secondly, observed that exerted profound influence resulting varying effects bacterial fungal communities. Specifically, comparison control treatment, community composition exhibited greater sensitivity tillering stage, whereas displayed increased dissimilarity ripening stage. Notably, promoted enrichment plant-beneficial microbes putative plant-growth promoting biocontrol capabilities. Overall, findings highlight efficacy effective mitigate stress, enhance availability nutrients, promote beneficial within cereal cropping systems.

Язык: Английский

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Crop host signatures reflected by co-association patterns of keystone Bacteria in the rhizosphere microbiota

Environmental Microbiome, Год журнала: 2021, Номер 16(1)

Опубликована: Окт. 12, 2021

Abstract Background The native crop bacterial microbiota of the rhizosphere is envisioned to be engineered for sustainable agriculture. This requires identification keystone Bacteria and an understanding on how these govern crop-specific microbiome assembly from soils. We identified metabolically active (SSU RNA) inhabiting two compartments wheat ( Triticum aestivum L.), barley Hordeum vulgare rye Secale cereale ), oilseed rape Brassica napus L.) at different growth stages. Results Based metabarcoding analysis was shaped by compartments, i.e. close distant. Thereby implying a spatial extent acquirement cereals species versus rape. derived core each species. Massilia (barley wheat) unclassified Chloroflexi group ‘KD4-96’ (oilseed rape) were as combining LEfSe biomarker network analyses. Subsequently, differential associations between networks species’ revealed host plant-specific interconnections specific genera, such Tepidisphaeraceae ‘WD2101 soil group’. Conclusions Our results provide hosts that cohort subnetworks elucidated effect not evident abundance single genera enriched or unique plant host. Thus, we underline importance co-occurrence patterns within emerge in microbiomes, which will essential modify microbiomes future agriculture develop effective bio-fertilizers.

Язык: Английский

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