{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,1]],"date-time":"2026-05-01T04:38:51Z","timestamp":1777610331776,"version":"3.51.4"},"reference-count":102,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2024,10,1]],"date-time":"2024-10-01T00:00:00Z","timestamp":1727740800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:p>Agricultural soils are responsible for ecological functions and services that include primary production of food, fiber and fuel, nutrient cycling, carbon cycling and storage, water infiltration and purification, among others. Fungi are important drivers of most of those ecosystem services. Given the importance of fungi in agricultural soils, in this study, we aimed to characterize and analyse the changes of the soil fungal communities of three cropping systems from Madeira Island, where family farming is predominant, and investigate the response of fungi and its functional groups to soil physicochemical properties. To achieve that, we sequenced amplicons targeting the internal transcribed spacer 1 (ITS1) of the rRNA region, to analyse soil samples from 18 agrosystems: 6 vineyards (V), 6 banana plantations (B) and 6 vegetable plantations (H). Our results showed that alpha diversity indices of fungal communities are similar in the three cropping systems, but fungal composition and functional aspects varied among them, with more pronounced differences in B. Ascomycota, Basidiomycota, and Mortierellomycota were the main phyla found in the three cropping systems. Agaricomycetes and Sordariomycetes are the predominant classes in B, representing 23.8 and 22.4%, respectively, while Sordariomycetes (27.9%) followed by Eurotiomycetes (12.3%) were the predominant classes in V and Sordariomycetes (39.2%) followed by Tremellomycetes (8.9%) in the H. Saprotrophs are the fungal group showing higher relative abundance in the three cropping systems, followed by plant pathogens. Regarding symbionts, endophytes were highly observed in B, while mycorrhizal fungi was predominant in V and H. The structure of fungal communities was mainly correlated with soil content of P, K, N, Fe, and Cu. In addition, we identified bioindicators for each cropping system, which means that cultivated crops are also drivers of functional groups and the composition of communities. Overall, the three cropping systems favored diversity and growth of taxa that play important roles in soil, which highlights the importance of conservative management practices to maintain a healthy and resilient agrosystem.<\/jats:p>","DOI":"10.3389\/fmicb.2024.1426957","type":"journal-article","created":{"date-parts":[[2024,10,1]],"date-time":"2024-10-01T04:43:10Z","timestamp":1727757790000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":7,"title":["Variations in the structure and function of the soil fungal communities in the traditional cropping systems from Madeira Island"],"prefix":"10.3389","volume":"15","author":[{"given":"Maria Cristina O.","family":"Oliveira","sequence":"first","affiliation":[]},{"given":"Artur","family":"Alves","sequence":"additional","affiliation":[]},{"given":"C\u00e1tia","family":"Fidalgo","sequence":"additional","affiliation":[]},{"given":"Jos\u00e9 G. R.","family":"de Freitas","sequence":"additional","affiliation":[]},{"given":"Miguel A. A.","family":"Pinheiro de Carvalho","sequence":"additional","affiliation":[]}],"member":"1965","published-online":{"date-parts":[[2024,10,1]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"gkad1039","DOI":"10.1093\/nar\/gkad1039","article-title":"The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered","author":"Abarenkov","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"ref2","doi-asserted-by":"crossref","first-page":"791033","DOI":"10.3389\/fpls.2021.791033","article-title":"Endophytic fungi: from symbiosis to secondary metabolite communications or vice versa?","volume":"12","author":"Alam","year":"2021","journal-title":"Front. Plant Sci."},{"key":"ref3","doi-asserted-by":"publisher","first-page":"160","DOI":"10.5897\/JHF.9000035","article-title":"Effect of NPK fertilizer on growth and yield of banana in northern Oman","volume":"1","author":"Al-Harthi","year":"2009","journal-title":"JHF"},{"key":"ref4","doi-asserted-by":"publisher","first-page":"000059","DOI":"10.1525\/elementa.2021.000059","article-title":"Fungal community and functional responses to soil warming are greater than for soil nitrogen enrichment","volume":"9","author":"Anthony","year":"2021","journal-title":"Elementa"},{"key":"ref5","unstructured":"A rea\u00e7\u00e3o do solo e o n\u00edvel de fertilidade dos solos agr\u00edcolas na Regi\u00e3o Aut\u00f3noma da Madeira. DICAs - Informa\u00e7\u00f5es da Agricultura e do Desenvolvimento Rural\n            AzevedoA.\n          2023"},{"key":"ref6","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.agee.2018.05.028","article-title":"Effects of agricultural management practices on soil quality: a review of long-term experiments for Europe and China","volume":"265","author":"Bai","year":"2018","journal-title":"Agric. Ecosyst. Environ."},{"key":"ref7","doi-asserted-by":"publisher","first-page":"90","DOI":"10.1186\/s40168-018-0470-z","article-title":"Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2\u2019s q2-feature-classifier plugin","volume":"6","author":"Bokulich","year":"2018","journal-title":"Microbiome"},{"key":"ref8","doi-asserted-by":"publisher","first-page":"852","DOI":"10.1038\/s41587-019-0209-9","article-title":"Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2","volume":"37","author":"Bolyen","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"ref9","doi-asserted-by":"publisher","first-page":"48","DOI":"10.1038\/ncomms1046","article-title":"Mechanisms underlying beneficial plant\u2013fungus interactions in mycorrhizal symbiosis","volume":"1","author":"Bonfante","year":"2010","journal-title":"Nat. Commun."},{"key":"ref10","doi-asserted-by":"publisher","first-page":"581","DOI":"10.1038\/nmeth.3869","article-title":"DADA2: high-resolution sample inference from Illumina amplicon data","volume":"13","author":"Callahan","year":"2016","journal-title":"Nat. Methods"},{"key":"ref11","doi-asserted-by":"publisher","first-page":"95","DOI":"10.3390\/jof9010095","article-title":"Soil microbial community responses to different management strategies in almond crop","volume":"9","author":"Camacho-Sanchez","year":"2023","journal-title":"J. Fungi (Basel)"},{"key":"ref12","doi-asserted-by":"publisher","first-page":"1211","DOI":"10.1111\/nph.15205","article-title":"Soil microclimate changes affect soil fungal communities in a Mediterranean pine forest","volume":"220","author":"Casta\u00f1o","year":"2018","journal-title":"New Phytol."},{"key":"ref13","doi-asserted-by":"publisher","first-page":"i884","DOI":"10.1093\/bioinformatics\/bty560","article-title":"Fastp: an ultra-fast all-in-one FASTQ preprocessor","volume":"34","author":"Chen","year":"2018","journal-title":"Bioinformatics"},{"key":"ref14","doi-asserted-by":"publisher","first-page":"13","DOI":"10.3389\/fmicb.2022.986519","article-title":"Climate-smart agricultural practices influence the fungal communities and soil properties under major agri-food systems","author":"Choudhary","year":"2022","journal-title":"Front. Microbiol."},{"key":"ref15","doi-asserted-by":"publisher","first-page":"956","DOI":"10.1111\/jac.12556","article-title":"A novel raffinose biological pathway is observed by symbionts of cotton\u2261Verticillium dahliae to improve salt tolerance genetically on cotton","volume":"207","author":"Cui","year":"2021","journal-title":"J. Agron. Crop Sci."},{"key":"ref16","doi-asserted-by":"publisher","first-page":"12540","DOI":"10.1038\/s41598-017-12895-2","article-title":"Fungal endophyte-induced salidroside and tyrosol biosynthesis combined with signal cross-talk and the mechanism of enzyme gene expression in Rhodiola crenulata","volume":"7","author":"Cui","year":"2017","journal-title":"Sci. Rep."},{"key":"ref17","doi-asserted-by":"publisher","first-page":"9890","DOI":"10.1038\/s41598-019-46106-x","article-title":"Peat substrate amended with chitin modulates the N-cycle, siderophore and chitinase responses in the lettuce rhizobiome","volume":"9","author":"De Tender","year":"2019","journal-title":"Sci. Rep."},{"key":"ref18","doi-asserted-by":"publisher","first-page":"633","DOI":"10.1007\/s00572-007-0141-6","article-title":"Species richness and community composition of mat-forming ectomycorrhizal fungi in old-and second-growth Douglas-fir forests of the HJ Andrews experimental Forest, Oregon, USA","volume":"17","author":"Dunham","year":"2007","journal-title":"Mycorrhiza"},{"key":"ref19","doi-asserted-by":"publisher","first-page":"337","DOI":"10.1038\/nature10452","article-title":"Solutions for a cultivated planet","volume":"478","author":"Foley","year":"2011","journal-title":"Nature"},{"key":"ref20","doi-asserted-by":"publisher","first-page":"707","DOI":"10.3389\/fmicb.2018.00707","article-title":"Fungal biodiversity and their role in soil health","volume":"9","author":"Fr\u0105c","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref21","doi-asserted-by":"publisher","first-page":"13","DOI":"10.3389\/fmicb.2022.1033824","article-title":"Soil mycobiome in sustainable agriculture","author":"Fr\u0105c","year":"2022","journal-title":"Front. Microbiol."},{"key":"ref22","doi-asserted-by":"publisher","first-page":"239","DOI":"10.17221\/2218-PSE","article-title":"Soil conditions and evolution of aluminium resistance among cultivated and wild plant species on the Island of Madeira","volume":"53","author":"Ganan\u00e7a","year":"2007","journal-title":"Plant Soil Environ."},{"key":"ref23","first-page":"1701","article-title":"Fungal community associated with Arctic moss, Tetraplodon mimoides and its rhizosphere: bioprospecting for production of industrially useful enzymes","volume":"100","author":"Gawas-Sakhalkar","year":"2011","journal-title":"Curr. Sci."},{"key":"ref24","doi-asserted-by":"publisher","first-page":"6960","DOI":"10.1111\/mec.14414","article-title":"Environmental filtering by pH and soil nutrients drives community assembly in fungi at fine spatial scales","volume":"26","author":"Glassman","year":"2017","journal-title":"Mol. Ecol."},{"key":"ref25","doi-asserted-by":"publisher","first-page":"241","DOI":"10.1038\/s42003-022-03202-5","article-title":"A global microbiome survey of vineyard soils highlights the microbial dimension of viticultural terroirs","volume":"5","author":"Gobbi","year":"2022","journal-title":"Commun. Biol."},{"key":"ref26","doi-asserted-by":"publisher","first-page":"390","DOI":"10.1111\/sum.12270","article-title":"Soil acidification and the importance of liming agricultural soils with particular reference to the United Kingdom","volume":"32","author":"Goulding","year":"2016","journal-title":"Soil Use Manag."},{"key":"ref27","doi-asserted-by":"publisher","first-page":"447","DOI":"10.1111\/nph.17306","article-title":"Crop diversity enriches arbuscular mycorrhizal fungal communities in an intensive agricultural landscape","volume":"231","author":"Guzman","year":"2021","journal-title":"New Phytol."},{"key":"ref28","doi-asserted-by":"publisher","first-page":"2199","DOI":"10.1038\/ismej.2012.84","article-title":"Significant and persistent impact of timber harvesting on soil microbial communities in northern coniferous forests","volume":"6","author":"Hartmann","year":"2012","journal-title":"ISME J."},{"key":"ref29","doi-asserted-by":"publisher","first-page":"4","DOI":"10.1038\/s43017-022-00366-w","article-title":"Soil structure and microbiome functions in agroecosystems","volume":"4","author":"Hartmann","year":"2023","journal-title":"Nat. Rev. Earth Environ."},{"key":"ref30","doi-asserted-by":"publisher","first-page":"113","DOI":"10.1016\/j.apsoil.2018.11.008","article-title":"Influence of seasonality and management practices on diversity and composition of fungal communities in vineyard soils","volume":"135","author":"Hernandez","year":"2019","journal-title":"Appl. Soil Ecol."},{"key":"ref31","doi-asserted-by":"crossref","first-page":"373","DOI":"10.1007\/978-3-642-55318-9_14","article-title":"14 Agaricomycetes","volume-title":"Systematics and Evolution: Part A. The Mycota","author":"Hibbett","year":"2014"},{"key":"ref32","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1023\/A:1013351617532","article-title":"Bioavailability of soil inorganic P in the rhizosphere as affected by root-induced chemical changes: a review","volume":"237","author":"Hinsinger","year":"2001","journal-title":"Plant Soil"},{"key":"ref33","doi-asserted-by":"publisher","first-page":"464","DOI":"10.1016\/j.cell.2016.02.028","article-title":"Root endophyte Colletotrichum tofieldiae confers plant fitness benefits that are phosphate status dependent","volume":"165","author":"Hiruma","year":"2016","journal-title":"Cell"},{"key":"ref34","doi-asserted-by":"publisher","first-page":"10","DOI":"10.1016\/j.fbio.2015.07.003","article-title":"In vitro starch digestibility of bread with banana (Musa acuminata X balbisiana ABB cv. Awak) pseudo-stem flour and hydrocolloids","volume":"12","author":"Ho","year":"2015","journal-title":"Food Biosci."},{"key":"ref35","doi-asserted-by":"publisher","first-page":"178","DOI":"10.1080\/00275514.2023.2180975","article-title":"Association of soil fungal community composition with incidence of fusarium wilt of banana in Malaysia","volume":"115","author":"Jamil","year":"2023","journal-title":"Mycologia"},{"key":"ref36","doi-asserted-by":"publisher","first-page":"1122","DOI":"10.3390\/d14121122","article-title":"Factors in the distribution of mycorrhizal and soil fungi","volume":"14","author":"Janowski","year":"2022","journal-title":"Diversity"},{"key":"ref37","doi-asserted-by":"publisher","first-page":"100950","DOI":"10.1016\/j.rhisph.2024.100950","article-title":"Synergistic changes in bacterial community composition, function, and soil characteristics of tomato rhizosphere soil under long-term monoculture conditions","volume":"31","author":"Jiang","year":"2024","journal-title":"Rhizosphere"},{"key":"ref38","first-page":"197","article-title":"Humicola phialophoroides sp. nov. from soil with potential for biological control of plant diseases","author":"Ko","year":"2011","journal-title":"Bot. Stud."},{"key":"ref39","doi-asserted-by":"publisher","first-page":"779","DOI":"10.3390\/agronomy9120779","article-title":"Agricultural and other biotechnological applications resulting from trophic plant-endophyte interactions","volume":"9","author":"Ku\u017aniar","year":"2019","journal-title":"Agronomy"},{"key":"ref40","doi-asserted-by":"publisher","first-page":"191","DOI":"10.1007\/s00374-011-0617-6","article-title":"Control of cotton Verticillium wilt and fungal diversity of rhizosphere soils by bio-organic fertilizer","volume":"48","author":"Lang","year":"2012","journal-title":"Biol. Fertil. Soils"},{"key":"ref41","doi-asserted-by":"publisher","first-page":"2407","DOI":"10.1016\/j.soilbio.2008.05.021","article-title":"The influence of soil properties on the structure of bacterial and fungal communities across land-use types","volume":"40","author":"Lauber","year":"2008","journal-title":"Soil Biol. Biochem."},{"key":"ref42","doi-asserted-by":"publisher","first-page":"9","DOI":"10.3389\/fmicb.2018.01521","article-title":"Diversity and co-occurrence patterns of soil bacterial and fungal communities in seven intercropping systems","volume":"9","author":"Li","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref43","doi-asserted-by":"publisher","first-page":"1239","DOI":"10.3389\/fmicb.2019.01239","article-title":"Characterizing the intra-vineyard variation of soil bacterial and fungal communities","volume":"10","author":"Liang","year":"2019","journal-title":"Front. Microbiol."},{"key":"ref44","doi-asserted-by":"publisher","first-page":"104503","DOI":"10.1016\/j.still.2019.104503","article-title":"Long-term continuous cropping of soybean is comparable to crop rotation in mediating microbial abundance, diversity and community composition","volume":"197","author":"Liu","year":"2020","journal-title":"Soil Tillage Res."},{"key":"ref45","doi-asserted-by":"publisher","first-page":"11","DOI":"10.3389\/fmicb.2020.00829","article-title":"Effects of different vegetable rotations on fungal community structure in continuous tomato cropping matrix in greenhouse","author":"Lyu","year":"2020","journal-title":"Front. Microbiol."},{"key":"ref46","doi-asserted-by":"publisher","first-page":"296","DOI":"10.14393\/RCG217349287","article-title":"Zoneamento agroclim\u00e1tico da cultura da videira para a Ilha da Madeira-Portugal","volume":"21","author":"Macedo","year":"2020","journal-title":"RCG"},{"key":"ref47","doi-asserted-by":"publisher","first-page":"2957","DOI":"10.1093\/bioinformatics\/btr507","article-title":"FLASH: fast length adjustment of short reads to improve genome assemblies","volume":"27","author":"Mago\u010d","year":"2011","journal-title":"Bioinformatics"},{"key":"ref48","doi-asserted-by":"publisher","first-page":"10","DOI":"10.14806\/ej.17.1.200","article-title":"Cutadapt removes adapter sequences from high-throughput sequencing reads","volume":"17","author":"Martin","year":"2011","journal-title":"EMBnet.journal"},{"key":"ref49","first-page":"57","article-title":"The Fungi (Fungi) of the Madeira and Selvagens archipelagos","volume-title":"A list of the terrestrial Fungi, Flora and Fauna of Madeira and Selvagens archipelagos","author":"Melo","year":"2008"},{"key":"ref50","doi-asserted-by":"publisher","first-page":"217","DOI":"10.1016\/j.jssas.2021.01.008","article-title":"Cultivable soil fungi community response to agricultural management and tillage system on temperate soil","volume":"20","author":"Moreno","year":"2021","journal-title":"J. Saudi Soc. Agric. Sci."},{"key":"ref51","doi-asserted-by":"publisher","first-page":"2101","DOI":"10.1111\/brv.12550","article-title":"Fungal evolution: diversity, taxonomy and phylogeny of the Fungi","volume":"94","author":"Naranjo-Ortiz","year":"2019","journal-title":"Biol. Rev."},{"key":"ref52","doi-asserted-by":"publisher","first-page":"241","DOI":"10.1016\/j.funeco.2015.06.006","article-title":"FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild","volume":"20","author":"Nguyen","year":"2016","journal-title":"Fungal Ecol."},{"key":"ref53","unstructured":"Vegan: community ecology package\n            OksanenJ.\n            SimpsonG. L.\n            BlanchetF. G.\n            KindtR.\n            LegendreP.\n            MinchinP. R.\n          2022"},{"key":"ref54","doi-asserted-by":"publisher","first-page":"12","DOI":"10.3389\/fmicb.2021.634325","article-title":"How tillage and crop rotation change the distribution pattern of fungi","author":"Orr\u00f9","year":"2021","journal-title":"Front. Microbiol."},{"key":"ref55","doi-asserted-by":"publisher","first-page":"481","DOI":"10.1007\/s00374-012-0763-5","article-title":"Phosphate desorption from the surface of soil mineral particles by a phosphate-solubilizing fungus","volume":"49","author":"Osorio","year":"2013","journal-title":"Biol. Fertil. Soils"},{"key":"ref56","doi-asserted-by":"publisher","first-page":"7","DOI":"10.3390\/agriculture11010007","article-title":"Mortierella species as the plant growth-promoting Fungi present in the agricultural soils","volume":"11","author":"Ozimek","year":"2021","journal-title":"Agriculture"},{"key":"ref57","doi-asserted-by":"crossref","DOI":"10.1007\/3-540-28904-6_1","article-title":"Soil sampling and storage","volume-title":"Manual for soil analysis: Monitoring and assessing soil bioremediation. Soil biology","author":"Paetz","year":"2005"},{"key":"ref58","doi-asserted-by":"publisher","first-page":"73","DOI":"10.1139\/cjm-2013-0792","article-title":"Soybean fungal soil-borne diseases: a parameter for measuring the effect of agricultural intensification on soil health","volume":"60","author":"P\u00e9rez-Brand\u00e1n","year":"2014","journal-title":"Can. J. Microbiol."},{"key":"ref59","doi-asserted-by":"publisher","first-page":"310","DOI":"10.32614\/RJ-2021-041","article-title":"Finding optimal normalizing transformations via best normalize","volume":"13","author":"Peterson","year":"2021","journal-title":"R Journal"},{"key":"ref60","doi-asserted-by":"publisher","first-page":"2312","DOI":"10.1080\/02664763.2019.1630372","article-title":"Ordered quantile normalization: a semiparametric transformation built for the cross-validation era","volume":"47","author":"Peterson","year":"2020","journal-title":"J. Appl. Stat."},{"key":"ref61","doi-asserted-by":"publisher","first-page":"10","DOI":"10.17221\/34\/2015-PPS","article-title":"Antifungal activities of Chaetomium spp. against fusarium wilt of tea","volume":"52","author":"Phong","year":"2016","journal-title":"Plant Prot. Sci."},{"key":"ref62","doi-asserted-by":"publisher","first-page":"3568","DOI":"10.1038\/s41598-023-30338-z","article-title":"Disentangling the mixed effects of soil management on microbial diversity and soil functions: a case study in vineyards","volume":"13","author":"Pingel","year":"2023","journal-title":"Sci. Rep."},{"key":"ref63","volume-title":"Agrodiversidade, Variedades Regionais da Madeira","author":"Pinheiro De Carvalho","year":"2021"},{"key":"ref64","doi-asserted-by":"publisher","first-page":"2201","DOI":"10.3390\/agronomy12092201","article-title":"Anticipating the climate change impacts on Madeira\u2019s agriculture: the characterization and monitoring of a vine agrosystem","volume":"12","author":"Pinheiro de Carvalho","year":"2022","journal-title":"Agronomy"},{"key":"ref65","doi-asserted-by":"publisher","first-page":"776","DOI":"10.1080\/03235408.2018.1560652","article-title":"Rainforest fungal endophytes for the bio-enhancement of banana toward fusarium oxysporum f. sp. cubense tropical race 4","volume":"52","author":"Puig","year":"2019","journal-title":"Arch. Phytopathol. Plant Protect."},{"key":"ref66","doi-asserted-by":"publisher","first-page":"754","DOI":"10.1080\/17429145.2014.930524","article-title":"Characterization of plant growth-promoting traits of Penicillium species against the effects of high soil salinity and root disease","volume":"9","author":"Radhakrishnan","year":"2014","journal-title":"J. Plant Interact."},{"key":"ref67","doi-asserted-by":"publisher","first-page":"1902","DOI":"10.3390\/agronomy12081902","article-title":"Sewage sludge fertilization\u2014a case study of sweet potato yield and heavy metal accumulation","volume":"12","author":"Ragonezi","year":"2022","journal-title":"Agronomy"},{"key":"ref68","doi-asserted-by":"publisher","first-page":"85","DOI":"10.17660\/ActaHortic.1998.490.6","article-title":"Preliminary studies of Cavendish Banana cultivars under the edaphoclimatic conditions of Madeira Island","volume":"490","author":"Ribeiro","year":"1998","journal-title":"Acta Hortic."},{"key":"ref69","doi-asserted-by":"publisher","first-page":"e2584","DOI":"10.7717\/peerj.2584","article-title":"VSEARCH: a versatile open source tool for metagenomics","volume":"4","author":"Rognes","year":"2016","journal-title":"PeerJ"},{"key":"ref70","doi-asserted-by":"publisher","first-page":"20200179","DOI":"10.1098\/rstb.2020.0179","article-title":"Role of soil in the regulation of human and plant pathogens: soils\u2019 contributions to people","volume":"376","author":"Samaddar","year":"1834","journal-title":"Philos. Trans. R. Soc. B Biol. Sci."},{"key":"ref71","doi-asserted-by":"publisher","first-page":"409","DOI":"10.1146\/annurev-ecolsys-110617-062614","article-title":"Life in dry soils: effects of drought on soil microbial communities and processes","volume":"49","author":"Schimel","year":"2018","journal-title":"Annu. Rev. Ecol. Evol. Syst."},{"key":"ref72","doi-asserted-by":"publisher","first-page":"99","DOI":"10.1016\/j.soilbio.2018.11.010","article-title":"Cover cropping and no-till increase diversity and symbiotroph:saprotroph ratios of soil fungal communities","volume":"129","author":"Schmidt","year":"2019","journal-title":"Soil Biol. Biochem."},{"key":"ref73","doi-asserted-by":"publisher","first-page":"45","DOI":"10.1016\/j.envsci.2013.10.002","article-title":"Functional land management: a framework for managing soil-based ecosystem services for the sustainable intensification of agriculture","volume":"38","author":"Schulte","year":"2014","journal-title":"Environ. Sci. Pol."},{"key":"ref74","doi-asserted-by":"publisher","first-page":"R60","DOI":"10.1186\/gb-2011-12-6-r60","article-title":"Metagenomic biomarker discovery and explanation","volume":"12","author":"Segata","year":"2011","journal-title":"Genome Biol."},{"key":"ref75","doi-asserted-by":"publisher","first-page":"587","DOI":"10.1186\/2193-1801-2-587","article-title":"Phosphate solubilizing microbes: sustainable approach for managing phosphorus deficiency in agricultural soils","volume":"2","author":"Sharma","year":"2013","journal-title":"Springerplus"},{"key":"ref76","doi-asserted-by":"publisher","first-page":"866419","DOI":"10.3389\/fbioe.2022.866419","article-title":"Fungal inhibition of agricultural soil pathogen stimulated by nitrogen-reducing fertilization","volume":"10","author":"Shen","year":"2022","journal-title":"Front. Bioeng. Biotechnol."},{"key":"ref77","first-page":"1","article-title":"Application of Chaetomium species (Ketomium(R)) as a new broad spectrum biological fungicide for plant disease control: a review article","volume":"7","author":"Soytong","year":"2001","journal-title":"Fungal Divers."},{"key":"ref78","doi-asserted-by":"publisher","first-page":"13","DOI":"10.3389\/fpls.2022.879076","article-title":"Biostimulant effects of Chaetomium globosum and Minimedusa polyspora culture filtrates on Cichorium intybus plant: growth performance and Metabolomic traits","author":"Spinelli","year":"2022","journal-title":"Front. Plant Sci."},{"key":"ref79","doi-asserted-by":"publisher","first-page":"474","DOI":"10.32614\/RJ-2016-060","article-title":"Ggfortify: unified Interface to visualize statistical result of popular R packages","volume":"8","author":"Tang","year":"2016","journal-title":"R Journal"},{"key":"ref80","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4020-2976-9","volume-title":"Plant analysis procedures","author":"Temminghoff","year":"2004"},{"key":"ref81","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1016\/j.soilbio.2015.06.012","article-title":"Soil conditions and land use intensification effects on soil microbial communities across a range of European field sites","volume":"88","author":"Thomson","year":"2015","journal-title":"Soil Biol. Biochem."},{"key":"ref82","doi-asserted-by":"publisher","first-page":"1231","DOI":"10.1007\/s11557-019-01519-w","article-title":"Are Trechisporales ectomycorrhizal or non-mycorrhizal root endophytes?","volume":"18","author":"Vanegas-Le\u00f3n","year":"2019","journal-title":"Mycol. Prog."},{"key":"ref83","doi-asserted-by":"publisher","first-page":"e39524","DOI":"10.1371\/journal.pone.0039524","article-title":"Novel root-fungus Symbiosis in Ericaceae: sheathed ericoid mycorrhiza formed by a hitherto undescribed basidiomycete with affinities to Trechisporales","volume":"7","author":"Vohn\u00edk","year":"2012","journal-title":"PLoS One"},{"key":"ref84","doi-asserted-by":"publisher","first-page":"2","DOI":"10.3389\/fhort.2023.1061456","article-title":"Diversity and abundance of bacterial and fungal communities in rhizospheric soil from smallholder banana producing agroecosystems in Kenya","author":"Wahome","year":"2023","journal-title":"Front. Horticult."},{"key":"ref85","doi-asserted-by":"publisher","first-page":"103253","DOI":"10.1016\/j.ejsobi.2020.103253","article-title":"The impact of cropping system, tillage and season on shaping soil fungal community in a long-term field trial","volume":"102","author":"Wang","year":"2021","journal-title":"Eur. J. Soil Biol."},{"key":"ref86","doi-asserted-by":"publisher","first-page":"14","DOI":"10.3389\/fmicb.2023.1036905","article-title":"Fungal diversities and community assembly processes show different biogeographical patterns in forest and grassland soil ecosystems","author":"Wang","year":"2023","journal-title":"Front. Microbiol."},{"key":"ref87","doi-asserted-by":"publisher","first-page":"229","DOI":"10.3390\/agronomy12020229","article-title":"Investigating the responses of microbial communities to Banana fusarium wilt in suppressive and conducive soils based on soil particle-size differentiation","volume":"12","author":"Wang","year":"2022","journal-title":"Agronomy"},{"key":"ref88","doi-asserted-by":"publisher","first-page":"8598","DOI":"10.1038\/s41598-017-08974-z","article-title":"Mortierella alpina CS10E4, an oleaginous fungal endophyte of Crocus sativus L. enhances apocarotenoid biosynthesis and stress tolerance in the host plant","volume":"7","author":"Wani","year":"2017","journal-title":"Sci. Rep."},{"key":"ref89","first-page":"315","article-title":"Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics","volume-title":"PCR Protocols","author":"White","year":"1990"},{"key":"ref90","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-319-24277-4","volume-title":"Ggplot2: Elegant graphics for data analysis","author":"Wickham","year":"2016"},{"key":"ref91","doi-asserted-by":"publisher","first-page":"703","DOI":"10.3390\/jof7090703","article-title":"Current insight into culture-dependent and culture-independent methods in discovering Ascomycetous taxa","volume":"7","author":"Wijayawardene","year":"2021","journal-title":"J. Fungi"},{"key":"ref92","doi-asserted-by":"publisher","first-page":"1890","DOI":"10.1111\/jam.15067","article-title":"The effect of a consortium of Penicillium sp. and Bacillus spp. in suppressing banana fungal diseases caused by fusarium sp. and Alternaria sp","volume":"131","author":"Win","year":"2021","journal-title":"J. Appl. Microbiol."},{"key":"ref93","doi-asserted-by":"publisher","first-page":"8","DOI":"10.3389\/fmicb.2017.02198","article-title":"Links between soil fungal diversity and plant and soil properties on the loess plateau","author":"Yang","year":"2017","journal-title":"Front. Microbiol."},{"key":"ref94","doi-asserted-by":"publisher","first-page":"40","DOI":"10.1186\/1999-3110-55-40","article-title":"Multiple resistance-activating substances produced by Humicola phialophoroides isolated from soil for control of Phytophthora blight of pepper","volume":"55","author":"Yang","year":"2014","journal-title":"Bot. Stud."},{"key":"ref95","doi-asserted-by":"publisher","first-page":"40","DOI":"10.1251\/bpo6","article-title":"Methods for microbial DNA extraction from soil for PCR amplification","volume":"1","author":"Yeates","year":"1998","journal-title":"Biol. Proced Online"},{"key":"ref96","doi-asserted-by":"publisher","first-page":"369","DOI":"10.1002\/yea.3310","article-title":"Yeasts of the soil \u2013 obscure but precious","volume":"35","author":"Yurkov","year":"2018","journal-title":"Yeast"},{"key":"ref97","doi-asserted-by":"publisher","first-page":"137","DOI":"10.1016\/S0167-8809(01)00249-3","article-title":"Impacts of agricultural practices on soil and water quality in the Mediterranean region and proposed assessment methodology","volume":"88","author":"Zalidis","year":"2002","journal-title":"Agric. Ecosyst. Environ."},{"key":"ref98","doi-asserted-by":"publisher","first-page":"182","DOI":"10.1093\/femsre\/fuv045","article-title":"Friends or foes? Emerging insights from fungal interactions with plants","volume":"40","author":"Zeilinger","year":"2016","journal-title":"FEMS Microbiol. Rev."},{"key":"ref99","doi-asserted-by":"publisher","first-page":"754","DOI":"10.3390\/agronomy10050754","article-title":"Mortierella elongata increases plant biomass among non-leguminous crop species","volume":"10","author":"Zhang","year":"2020","journal-title":"Agronomy"},{"key":"ref100","doi-asserted-by":"publisher","first-page":"7","DOI":"10.3389\/fmicb.2016.00227","article-title":"Soil pH is a key determinant of soil fungal community composition in the Ny-\u00c5lesund region, Svalbard (high Arctic)","volume":"7","author":"Zhang","year":"2016","journal-title":"Front. Microbiol."},{"key":"ref101","doi-asserted-by":"publisher","first-page":"543","DOI":"10.1007\/s00374-011-0563-3","article-title":"Interactions between arbuscular mycorrhizal fungi and phosphate-solubilizing fungus (Mortierella sp.) and their effects on Kostelelzkya virginica growth and enzyme activities of rhizosphere and bulk soils at different salinities","volume":"47","author":"Zhang","year":"2011","journal-title":"Biol. Fertil. Soils"},{"key":"ref102","doi-asserted-by":"publisher","first-page":"3170","DOI":"10.3390\/foods11203170","article-title":"The valorization of Banana by-products: nutritional composition, bioactivities, applications, and future development","volume":"11","author":"Zou","year":"2022","journal-title":"Food Secur."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2024.1426957\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,1]],"date-time":"2024-10-01T04:43:17Z","timestamp":1727757797000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/articles\/10.3389\/fmicb.2024.1426957\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,10,1]]},"references-count":102,"alternative-id":["10.3389\/fmicb.2024.1426957"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2024.1426957","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,10,1]]},"article-number":"1426957"}}