Characterization of Fungal Microbiome Structure in Leaf Litter Compost through Metagenomic Profiling of the Nuclear Ribosomal Internal Transcribed Spacer Region DOI Creative Commons
Sophayo Mahongnao, Pooja Sharma, Sarita Nanda

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Oct. 3, 2023

Abstract This study addressed the significant but understudied role of fungal communities in leaf litter and organic waste compost ecosystems, using advanced ITS metagenomic profiling. The research aims to comprehensively characterize these better understand their diversity, composition, potential functions, with practical implications for optimizing composting processes promoting sustainable management practices. Various samples were collected, including composts other matured composts, from different sources Delhi-National Capital Region, India. DNA was extracted amplified PCR obtain sequence internal transcribed spacer (ITS) region. It followed by sequencing bioinformatics analysis microbiome assess diversity within ecosystems. Results revealed that cow dung manure had highest read counts, while kitchen lowest. Alpha indices, Chao1 Shannon, exhibited differences species richness among though statistical significance limited. also identified dominant phyla such as Ascomycota, Basidiomycota, Mucoromycota , Zoopagomycota across composts. presence beneficial genera like Pichia, Trichoderma, Mortierella, Basidiobolus well pathogenic viz. Alternaria, Fusarium Acremonium underscored need proper practices source selection optimize soil fertility minimize disease risks agriculture. Overall, findings contribute processes, advancing practices, enhancing use a bio-organic fertilizer. results highlighted monitoring quality its impact on health agricultural

Language: Английский

Assessing microbial diversity in open-pit mining: Metabarcoding analysis of soil and pit microbiota across operational and restoration stages DOI Creative Commons

Priscila Heredia Reto,

Rosita Castillo Rogel,

Gabriela Palomino Lucano

et al.

PLoS ONE, Journal Year: 2025, Volume and Issue: 20(4), P. e0320923 - e0320923

Published: April 7, 2025

Mine closure operations aim to restore the ecosystem a near-original state. Microorganisms are indispensable for soil equilibrium and restoration. Metabarcoding was employed characterize bacterial fungal composition in pristine soils, stockpiled soils (topsoils), enriched (technosoils), revegetated (revegetated technosoils), pit ecosystems an open gold mine. Chao1 analysis revealed highest richness topsoils, followed by technosoils (-17.5%) pits (-63%). Bacterial diversity surpassed (-40%) samples, but OTUs were more abundant samples (+73.4%). The findings identified dominant microbial communities conducted comparative of shared microbiota. Dominant genera differed notably between pristine, topsoil, technosoil bacteria fungi. ecological indices’ results indicated that distinct from those revealing significant alterations during stockpiling process. showed similarity topsoil than freshly prepared technosoil, suggesting restoration is ongoing phenomenon. Microbial recover faster highlighting potential managing physicochemical parameters enhance recovery similar found soils. Runoff water contribute this rebalancing transporting microorganisms ecosystem. All exhibited differences their composition, with moisture rock representing primary axes dissimilarity. greater community complexity observed related availability nutrients, variations, possibility interaction other microbes. Pits represent extreme limit growth most microorganisms. presented research provides scientific basis future strategies improve resilience altered landscapes.

Language: Английский

Citations

0
Tropical Forest Soil Microbiome Modulates Leaf Heat Tolerance More Strongly Under Warming Than Ambient Conditions DOI Creative Commons
Gabriela Hernandes Villani, Iana F. Grullón‐Penkova,

Parker Bartz

et al.

Ecology and Evolution, Journal Year: 2025, Volume and Issue: 15(5)

Published: May 1, 2025

ABSTRACT It is unclear how plants respond to increasing temperatures. Leaf heat tolerance (LHT) often at its upper limit in tropical forests, suggesting that climate change might negatively impact these forests. We hypothesized intraspecific variation LHT be associated with changes the soil microbiome, which also climate. warming would increase through microbiome: we combined an situ experiment a shade house Puerto Rico. The consisted of growing seedlings Guarea guidonia , dominant forest species, under different microbiome treatments (reduced arbuscular mycorrhizal fungi, reduced plant pathogens, microbes, and unaltered) inoculum from field experiment. Heat was determined using chlorophyll fluorescence ( F V /F m ) on individual groups (per pot) house. sequenced fungal DNA analyze impacts microbiome. In field, ambient temperature plots showed higher values high temperatures (0.648 46°C 0.067 52°C) than (0.535 0.031 52°C). house, significantly influenced community composition T crit ). Reduction pathogen abundance diversity altered before 50 for grown but after plots. Our findings emphasize plays important role modulating plants. Understanding harnessing this relationship vital mitigating effects emphasizing need further research microbial responses change.

Language: Английский

Citations

0
Thyridium livistonae sp. nov. from Yunnan Province, China, with two new combinations DOI
Jing Song,

Samantha C. Karunarathna,

Indunil C. Senanayake

et al.

New Zealand Journal of Botany, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 15

Published: Aug. 5, 2024

An ascomycetous fungus was collected and isolated from dead leaves of Livistona chinensis in Lincang City, Yunnan Province, China, morphology multi-gene phylogenetic analyses LSU, ITS, Actin, β-tub were carried out to identify it. The multigene phylogeny revealed that this is a distinct species Thyridium. Therefore, described introduced as Thyridium livistonae sp. nov. In addition, two new combinations T. hipposidericola xishuangbannaense are proposed based on for Phialemoniopsis Karun., Tibpromma & X.F. Liu P. xishuangbannaensis respectively. A detailed description, illustrations, results provided the combinations.

Language: Английский

Citations

3
Impacts of long-term irrigation of municipally-treated wastewater to the soil microbial and nutrient properties DOI
Ashvini Chauhan, Amita Jain, Max Kolton

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 959, P. 178143 - 178143

Published: Dec. 24, 2024

Language: Английский

Citations

3
Phylogenetic and functional analyses of N 6 -methyladenosine RNA methylation factors in the wheat scab fungus Fusarium graminearum DOI Creative Commons

Hyeonjae Kim,

Jianzhong Hu, Hunseung Kang

et al.

mSphere, Journal Year: 2023, Volume and Issue: 9(1)

Published: Dec. 12, 2023

In eukaryotes,

Language: Английский

Citations

7
Biodiversity, Distribution and Functional Differences of Fungi in Four Species of Corals from the South China Sea, Elucidated by High-Throughput Sequencing Technology DOI Creative Commons

Wenyu Dong,

Jiatao Chen,

Xinyu Liao

et al.

Journal of Fungi, Journal Year: 2024, Volume and Issue: 10(7), P. 452 - 452

Published: June 27, 2024

Recent studies have predominantly spotlighted bacterial diversity within coral microbiomes, leaving coral-associated fungi in the shadows of scientific inquiry. This study endeavors to fill this knowledge gap by delving into biodiversity, distribution and functional differences associated with soft corals Cladiella krempfi Sarcophyton tortuosum, gorgonian Dichotella gemmacea stony Favia speciosa from South China Sea. Leveraging high-throughput sequencing fungal internal transcribed spacer-1 (ITS1) region rRNA gene, a total 431 amplicon sequence variants (ASVs) were identified study, which indicated that large number communities harbored Sea corals. Noteworthy among our findings is 10 genera are reported for first time corals, Candolleomyces, Exophiala, Fomitopsis, Inaequalispora, Kneiffiella, Paraphaeosphaeria, Yamadazyma belonging Ascomycota, Cystobasidium, Psathyrella, Solicoccozyma Basidiomycota. Moreover, significant (p < 0.05) observed various species. In particular, D. emerged as veritable haven diversity, boasting 307 unique ASVs. Contrastingly, S. tortuosum C. exhibited modest 36 21 ASVs, respectively, while F. hosted comparatively sparse community, merely ASVs total. These not only provide basic data on function but also underscore imperative nuanced conservation management strategies reef ecosystems worldwide.

Language: Английский

Citations

2
Origins of lineage‐specific elements via gene duplication, relocation, and regional rearrangement in Neurospora crassa DOI Creative Commons

Zheng Wang,

Yen‐Wen Wang, Takao Kasuga

et al.

Molecular Ecology, Journal Year: 2023, Volume and Issue: 33(24)

Published: Oct. 16, 2023

The origin of new genes has long been a central interest evolutionary biologists. However, their novelty means that they evade reconstruction by the classical tools modelling. This evasion deep ancestral investigation necessitates intensive study model species within well-sampled, recently diversified, clades. One such clade is genus Neurospora, members which lack recent gene duplications. Several Neurospora are comprehensively characterized organisms apt for studying evolution lineage-specific (LSGs). Using synteny, we documented 78% LSG clusters located adjacent to telomeres featuring extensive tracts non-coding DNA and duplicated genes. Here, report several instances LSGs likely from regional rearrangements potentially rebirth. To broadly investigate functions LSGs, assembled transcriptomics data 68 experimental points identified co-regulatory modules using Weighted Gene Correlation Network Analysis, revealing widely but peripherally involved in known regulatory machinery diverse functions. status mas-1, with roles cell-wall integrity cellular sensitivity antifungal toxins, was investigated detail alongside its genomic neighbours, indicating it arose an ancient lysophospholipase precursor ubiquitous lineages Sordariomycetes. Our discoveries illuminate "rummage region" N. crassa genome enables formation arise via duplication relocation, followed fast mutation recombination facilitated sequence repeats unconstrained sequences.

Language: Английский

Citations

5
Lineage-specific genes are clustered with HET-domain genes and respond to environmental and genetic manipulations regulating reproduction in Neurospora DOI Creative Commons

Zheng Wang,

Yen‐Wen Wang, Takao Kasuga

et al.

PLoS Genetics, Journal Year: 2023, Volume and Issue: 19(11), P. e1011019 - e1011019

Published: Nov. 7, 2023

Lineage-specific genes (LSGs) have long been postulated to play roles in the establishment of genetic barriers intercrossing and speciation. In genome Neurospora crassa , most 670 LSGs that are aggregated adjacent telomeres clustered with 61% HET-domain genes, some which regulate self-recognition define vegetative incompatibility groups. contrast, LSG-encoding proteins possess few no domains would help identify potential functional roles. Possible were further assessed by performing transcriptomic profiling mutants response environmental alterations, as well examining gene knockouts for phenotypes. Among 342 dynamically expressed during both asexual sexual phases, 64% detectable on unusual carbon sources such furfural, a wildfire-produced chemical is strong inducer development, structurally-related furan 5-hydroxymethyl furfural (HMF). Expression significant portion was sensitive light temperature, factors also switch from reproduction. Furthermore, expression significantly affected adv-1 pp-1 hyphal communication, more than one quarter perturbation mating locus. These observations encouraged investigation lineage-specific ecology reproduction regulation especially growth reproduction, dramatic conditions changes.

Language: Английский

Citations

2
The complete mitochondrial genome of the rice blast fungus Pyricularia oryzae Cavara 1892 strain Guy11 and phylogenetic analysis DOI Creative Commons
Fei Xu, Xiaohong Liu, Jiaoyu Wang

et al.

Mitochondrial DNA Part B, Journal Year: 2023, Volume and Issue: 8(10), P. 1036 - 1040

Published: Oct. 3, 2023

The complete mitochondrial genome of Pyricularia oryzae Cavara 1892 strain Guy11 is 34,865 bp in length (GenBank accession number OP095391), containing 29 tRNA genes, 2 rRNA and 15 protein-coding genes (PCGs). gene order orientation are novel compared to other Sordariomycetes species with sequenced mitogenomes the GenBank database. Phylogenetic analysis suggests that P. 19 form a monophyletic group. sequence will be valuable resource for identification, population genetics, phylogenetics, comparative genomics studies Magnaporthales.

Language: Английский

Citations

1
Transcription factor-dependent regulatory networks of sexual reproduction in Fusarium graminearum DOI Creative Commons
Wonyong Kim, Da‐Woon Kim,

Zheng Wang

et al.

mBio, Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 26, 2024

ABSTRACT Transcription factors (TFs) involved in sexual reproduction filamentous fungi have been characterized. However, we little understanding of how these TFs synergize within regulatory networks resulting development. We investigated 13 Fusarium graminearum , whose knockouts exhibited abortive or arrested phenotypes during development to elucidate the transcriptional cascade underlying fruiting bodies. A Bayesian network was inferred based on transcriptomic data from key stages evaluated silico knockout impacts developmental among and guided transcriptomics experiments properly assess roles genes with same phenotypes. Additional transcriptome were collected for TF by stage at which their appeared cognate prediction. Global revealed that mating-type locus ( MAT genes) trigger a involving affected early Notably, PNA1 mutants produced exceptionally small protoperithecia, shown be an upstream activator several essential ascospore production. In addition, SUB1 excessive numbers wherein pheromone-related dysregulated expression. conclude play central suppressive initiating reproduction, respectively. This comprehensive investigation contributes our framework governing multicellular body plan F. . IMPORTANCE Understanding regulation is crucial elucidation complex reproductive biology performed gene transcription (TFs), demonstrating affecting distinct Using across development, robustness interactions using systems approach. discovered initiates cascade, identified as Conversely, found role, exhibiting protoperithecia due abnormally high expression genes. These findings highlight regulating other activity related contributing deeper mechanisms multiple regulate

Language: Английский

Citations

0