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  • Article
  • Open Access
13 Citations
5,941 Views
19 Pages

Metagenomic Analyses of the Soybean Root Mycobiome and Microbiome Reveal Signatures of the Healthy and Diseased Plants Affected by Taproot Decline

  • Sorina C. Popescu,
  • Maria Tomaso-Peterson,
  • Teresa Wilkerson,
  • Aline Bronzato-Badial and ,
  • Uyen Wesser and
  • George V. Popescu
  • + 1 author+ 0 author

Invading pathogens interact with plant-associated microbial communities, which can be altered under the pressure of pathogen infection. Limited information exists on plant–microbe interactions occurring during natural outbreaks in agricultural...

(This article belongs to the Special Issue Bacterial Plant Communities: Diversity, Molecular Interactions, and Plant Growth Promotion-2nd Edition)
  • Article
  • Open Access
9 Citations
2,667 Views
14 Pages

Alhagi sparsifolia Harbors a Different Root-Associated Mycobiome during Different Development Stages

  • Zhihao Zhang,
  • Xutian Chai,
  • Yanju Gao,
  • Bo Zhang and ,
  • Yan Lu,
  • Yi Du,
  • Yulin Zhang,
  • Ya Ding,
  • Akash Tariq and
  • Fanjiang Zeng
  • + 7 authors+ 2 authors

The mycobiome in the rhizosphere and within the roots benefits the nutrition and function of host plants. However, compared with the bacterial community, root-associated mycobiomes of desert plants and the forces that drive their assemblage are limit...

(This article belongs to the Section Environmental Microbiology)
  • Article
  • Open Access
2,235 Views
12 Pages

24 October 2023

Relatively little is known about whole-plant fungal communities (mycobiome) and associated soil nematodes, especially with respect to woody plant seedlings and disturbance caused by forest harvesting. In a growth chamber experiment, we tested simulat...

(This article belongs to the Section Forest Soil)
  • Article
  • Open Access
12 Citations
5,445 Views
27 Pages

Root-Associated Mycobiome Differentiate between Habitats Supporting Production of Different Truffle Species in Serbian Riparian Forests

  • Žaklina Marjanović,
  • Ali Nawaz,
  • Katarina Stevanović,
  • Elmira Saljnikov and ,
  • Irena Maček,
  • Fritz Oehl and
  • Tesfaye Wubet
  • + 2 authors+ 0 author

Balkan lowlands bordering with the Pannonia region are inhabited by diverse riparian forests that support production of different truffle species, predominantly the most prized white truffle of Piedmont (Tuber magnatum Pico), but also other commercia...

(This article belongs to the Section Environmental Microbiology)
  • Article
  • Open Access
890 Views
21 Pages

Habitat Characteristics and Root Mycobiome Diversity of Cypripedium shanxiense S. C. Chen in the Changbai Mountains

  • Yuze Shan,
  • Jiahui Yu,
  • Nan Jiang,
  • Yiting Xiao and ,
  • Qingtao Cao,
  • Sulei Wu,
  • Qi Wang,
  • Shizhuo Wang,
  • Mayi Zhao and
  • Lifei Chen
  • + 8 authors+ 3 authors

Cypripedium shanxiense S. C. Chen has high ornamental value; it relies on specific habitats and fungi. Wild C. shanxiense populations need urgent conservation because they are declining rapidly. This study investigated three wild C. shanxiense popula...

(This article belongs to the Special Issue Sustainable Practices in Ornamental Horticulture Through Biotechnology)
  • Article
  • Open Access
8 Citations
3,034 Views
23 Pages

The soil microbiome is crucial for maintaining the sustainability of the agricultural environment. Concerning the role of diverse mycobiomes and their abundance toward the suppression of root-knot nematode (RKN) infection in vegetable crops, our unde...

(This article belongs to the Special Issue Research on Plant—Bacteria Interactions)
  • Article
  • Open Access
4 Citations
1,901 Views
22 Pages

Stable Diversity but Distinct Metabolic Activity of Microbiome of Roots from Adult and Young Chinese Fir Trees

  • Qingao Wang,
  • Zhanling Wang,
  • Wenjun Du,
  • Yuxin Liu and ,
  • Liang Hong,
  • Pengfei Wu,
  • Xiangqing Ma and
  • Kai Wang
  • + 3 authors+ 0 author

4 December 2024

The tree-associated microbiome is vital for both individual trees and the forest ecosystem. The microbiome is dynamic; however, it is influenced by the developmental stages and environmental stresses experienced by host trees. Chinese fir (Cunningham...

(This article belongs to the Section Forest Biodiversity)
  • Article
  • Open Access
18 Citations
6,294 Views
12 Pages

Does Inoculation with Arbuscular Mycorrhizal Fungi Reduce Trunk Disease in Grapevine Rootstocks?

  • Taylor Holland,
  • Patricia Bowen,
  • Vasilis Kokkoris,
  • Jose Ramon Urbez-Torres and
  • Miranda Hart

Ilyonectria is a weak pathogen known for causing black foot disease in young vines, infecting roots and vascular tissues at the basal end of the rootstock and restricting the movement of water and nutrients. This negatively impacts vine establishment...

(This article belongs to the Section Protected Culture)
  • Article
  • Open Access
544 Views
24 Pages

The Resilient and the Vulnerable: Root-Associated Fungal Communities in the Regeneration of Nothofagus pumilio Forest Eight Years After Fire

  • Camila Fernández-Urrutia,
  • Leonardo Almonacid-Muñoz,
  • Bernardita Díaz-Mons,
  • Héctor Herrera and ,
  • Patricia Silva-Flores,
  • Alejandra Fuentes-Quiroz,
  • Cristiane Sagredo-Sáez,
  • Rodrigo Vargas-Gaete,
  • Giovanni Larama and
  • Andrés Fuentes-Ramirez
  • + 5 authors+ 0 author

5 August 2026

Wildfires are increasing in frequency and severity worldwide, with long-lasting effects on forest vegetation and fungal communities essential for seedling establishment and forest resilience. Nothofagus pumilio, the dominant tree of South American te...

(This article belongs to the Section Forest Ecology and Management)
  • Article
  • Open Access
9 Citations
3,675 Views
11 Pages

28 October 2022

Plants harbor a variety of fungal symbionts both above- and belowground, yet little is known about how these fungi interact within hosts, especially in a world where resource availability is changing due to human activities. Systemic vertically trans...

(This article belongs to the Special Issue Fungal Endophytes of Grasses)
  • Article
  • Open Access
79 Citations
7,010 Views
17 Pages

Mineral and Organic Fertilizers Distinctly Affect Fungal Communities in the Crop Rhizosphere

  • Mikhail V. Semenov,
  • George S. Krasnov,
  • Vyacheslav M. Semenov and
  • Ariena van Bruggen

1 March 2022

Fungi represent a diverse group of organisms that play an essential role in maintaining soil health and ecosystem functioning. Plant root exudates form nutrient-rich niches that harbor specific fungal communities, or so-called rhizosphere mycobiomes....

(This article belongs to the Special Issue Roles of Soil and Roots Biotic and Abiotic Conditions in Fungal-Plant Interactions and Plant Performance)
  • Article
  • Open Access
12 Citations
3,275 Views
19 Pages

Baseline Data of the Fungal Phytobiome of Three Sorghum (Sorghum bicolor) Cultivars in South Africa using Targeted Environmental Sequencing

  • Gilmore T. Pambuka,
  • Tonjock Rosemary Kinge,
  • Soumya Ghosh,
  • Errol D. Cason and ,
  • Martin M. Nyaga and
  • Marieka Gryzenhout
  • + 1 author+ 0 author

17 November 2021

Plant-associated fungi, or the mycobiome, inhabit plant surfaces above ground, reside in plant tissues as endophytes, or are rhizosphere in the narrow zone of soil surrounding plant roots. Studies have characterized mycobiomes of various plant specie...

(This article belongs to the Section Fungi in Agriculture and Biotechnology)
  • Article
  • Open Access
11 Citations
3,741 Views
20 Pages

Pruning Wound Protection Products Induce Alterations in the Wood Mycobiome Profile of Grapevines

  • Giovanni Del Frari,
  • Marie Rønne Aggerbeck,
  • Alex Gobbi,
  • Chiara Ingrà and ,
  • Lorenzo Volpi,
  • Teresa Nascimento,
  • Alessandra Ferrandino,
  • Lars Hestbjerg Hansen and
  • Ricardo Boavida Ferreira
  • + 4 authors+ 0 author

19 April 2023

Fungal pathogens involved in grapevine trunk diseases (GTDs) may infect grapevines throughout their lifetime, from nursery to vineyard, via open wounds in stems, canes or roots. In vineyards, pruning wound protection products (PWPPs) offer the best m...

(This article belongs to the Special Issue Biocontrol of Grapevine Diseases)
  • Article
  • Open Access
6 Citations
2,713 Views
17 Pages

Addition of Organic Matter to Pine Plantations on Agricultural Land Positively Alters the Mycobiome of Agricultural Soils

  • Tadeusz Malewski,
  • Piotr Borowik,
  • Ireneusz Olejarski,
  • Artur Rutkiewicz and ,
  • Adam Okorski and
  • Tomasz Oszako
  • + 1 author+ 0 author

8 May 2023

Afforestation of former agricultural land poses a real challenge for foresters because soil life is often severely limited by the loss of natural soil fungal diversity. In addition, former agricultural soils have low levels of fungal species typical...

(This article belongs to the Special Issue Advances in Pests and Pathogens Treatment and Biological Control)
  • Article
  • Open Access
6 Citations
4,736 Views
15 Pages

Early Stage Root-Associated Fungi Show a High Temporal Turnover, but Are Independent of Beech Progeny

  • Kezia Goldmann,
  • Silke Ammerschubert,
  • Rodica Pena,
  • Andrea Polle and ,
  • Bin-Wei Wu,
  • Tesfaye Wubet and
  • François Buscot
  • + 2 authors+ 0 author

The relationship between trees and root-associated fungal communities is complex. By specific root deposits and other signal cues, different tree species are able to attract divergent sets of fungal species. Plant intraspecific differences can lead t...

(This article belongs to the Special Issue Ecology and Genomics of Forest Fungi and Their Interactions)
  • Article
  • Open Access
13 Citations
3,629 Views
17 Pages

Characterization of the Urinary Metagenome and Virome in Healthy Children

  • Eman Wehedy,
  • Selvasankar Murugesan,
  • Chinnu Reeba George,
  • Ibrahim F. Shatat and
  • Souhaila Al Khodor

27 September 2022

Recent advances in next-generation sequencing and metagenomic studies have provided insights into the microbial profile of different body sites. However, research on the microbial composition of urine is limited, particularly in children. The goal of...

(This article belongs to the Special Issue Molecular and Translational Research of the Microbiome in Infectious and Non-infectious Diseases)
  • Article
  • Open Access
50 Citations
9,662 Views
19 Pages

First Insights into the Microbiome of a Mangrove Tree Reveal Significant Differences in Taxonomic and Functional Composition among Plant and Soil Compartments

  • Witoon Purahong,
  • Dolaya Sadubsarn,
  • Benjawan Tanunchai,
  • Sara Fareed Mohamed Wahdan and ,
  • Chakriya Sansupa,
  • Matthias Noll,
  • Yu-Ting Wu and
  • François Buscot
  • + 3 authors+ 0 author

Mangrove forest trees play important ecological functions at the interface between terrestrial and marine ecosystems. However, despite playing crucial roles in plant health and productivity, there is little information on microbiomes of the tree spec...

(This article belongs to the Section Environmental Microbiology)
  • Article
  • Open Access
11 Citations
4,061 Views
12 Pages

The Effects of Salinity and Genotype on the Rhizospheric Mycobiomes in Date Palm Seedlings

  • Mahmoud W. Yaish,
  • Aya Al-Busaidi,
  • Bernard R. Glick,
  • Talaat Ahmed and
  • Juha M. Alatalo

15 March 2024

Salinity severely affects the health and productivity of plants, with root-associated microbes, including fungi, potentially playing a crucial role in mitigating this effect and promoting plant health. This study employed metagenomics to investigate...

(This article belongs to the Collection Plant Growth-Promoting Bacteria: Mechanisms and Applications)
  • Article
  • Open Access
3 Citations
2,450 Views
19 Pages

Native and Alien Antarctic Grasses as a Habitat for Fungi

  • Sebastian Piłsyk,
  • Urszula Perlińska-Lenart,
  • Anna Janik,
  • Patrycja Skalmowska and ,
  • Anna Znój,
  • Jan Gawor,
  • Jakub Grzesiak and
  • Joanna S. Kruszewska
  • + 3 authors+ 0 author

Biological invasions are now seen as one of the main threats to the Antarctic ecosystem. An example of such an invasion is the recent colonization of the H. Arctowski Polish Antarctic Station area by the non-native grass Poa annua. This site was prev...

(This article belongs to the Section Molecular Microbiology)
  • Article
  • Open Access
378 Views
34 Pages

23 September 2026

Perfluorotetradecanoic acid (PA) is a long-chain perfluorocarboxylic acid belonging to the group of per- and polyfluoroalkyl substances (PFASs), whose exceptional chemical stability promotes their persistence and accumulation in the environment. Desp...

(This article belongs to the Special Issue Green Chemistry and Molecular Tools in Agriculture)
  • Article
  • Open Access
4 Citations
3,680 Views
19 Pages

6 May 2022

The effective management of grapevine trunk diseases (GTDs) is an ongoing challenge. Hot water treatment (HWT) is an environmentally friendly and economically viable option; however, the short-term effects of HWT on grapevine (Vitis vinifera L.) heal...

(This article belongs to the Special Issue Application of Omics Technologies for a Deeper Insight into the Study of Fungal Trunk Pathogens of Grapevine)
  • Article
  • Open Access
14 Citations
3,546 Views
15 Pages

What If Root Nodules Are a Guesthouse for a Microbiome? The Case Study of Acacia longifolia

  • Joana G. Jesus,
  • Cristina Máguas,
  • Ricardo Dias,
  • Mónica Nunes and ,
  • Pedro Pascoal,
  • Marcelo Pereira and
  • Helena Trindade
  • + 2 authors+ 0 author

24 August 2023

Acacia longifolia is one of the most aggressive invaders worldwide whose invasion is potentiated after a fire, a common perturbation in Mediterranean climates. As a legume, this species establishes symbioses with nitrogen-fixing bacteria inside root...

(This article belongs to the Special Issue Beneficial Microorganisms for Plants)
  • Review
  • Open Access
629 Citations
52,063 Views
28 Pages

19 February 2022

Rhizosphere filamentous fungi of the genus Trichoderma, a dominant component of various soil ecosystem mycobiomes, are characterized by the ability to colonize plant roots. Detailed knowledge of the properties of Trichoderma, including metabolic acti...

(This article belongs to the Special Issue Interaction between Plants, Microorganisms, and Soils in Different Ecosystems)
  • Article
  • Open Access
9 Citations
4,568 Views
15 Pages

25 February 2022

Cowpea is an important crop for small-scale farmers in poor areas but is also being developed for commercial agriculture as a possible substitute for commercial legumes. Endophytic fungi are omnipresent and play crucial but diverse roles in plants. T...

(This article belongs to the Section Crop Protection, Diseases, Pests and Weeds)
  • Article
  • Open Access
18 Citations
6,382 Views
17 Pages

Penicillium citrinum Provides Transkingdom Growth Benefits in Choy Sum (Brassica rapa var. parachinensis)

  • Keyu Gu,
  • Cheng-Yen Chen,
  • Poonguzhali Selvaraj,
  • Shruti Pavagadhi and ,
  • Yoon Ting Yeap,
  • Sanjay Swarup,
  • Wenhui Zheng and
  • Naweed I. Naqvi
  • + 3 authors+ 0 author

29 March 2023

Soil-borne beneficial microbes establish symbioses with plant hosts and play key roles during growth and development therein. In this study, two fungal strains, FLP7 and B9, were isolated from the rhizosphere microbiome associated with Choy Sum (Bras...

(This article belongs to the Section Fungal Cell Biology, Metabolism and Physiology)
  • Article
  • Open Access
15 Citations
2,960 Views
18 Pages

This study investigated the effects of various titanium nanoparticles (TiO2NPs) on the structure, function, and trophic levels of the wheat rhizobiome. In contrast to the typically toxic effects of small nanoparticles (~10 nm), this research focused...

(This article belongs to the Section Molecular Informatics)
  • Feature Paper
  • Article
  • Open Access
15 Citations
4,976 Views
22 Pages

Mycobiome of Post-Agricultural Soils 20 Years after Application of Organic Substrates and Planting of Pine Seedlings

  • Tadeusz Malewski,
  • Piotr Borowik,
  • Ireneusz Olejarski,
  • Daria Berezovska and ,
  • Valentyna Dyshko,
  • Jolanta Behnke-Borowczyk,
  • Wojciech Pusz,
  • Slavica Matic and
  • Tomasz Oszako
  • + 4 authors+ 0 author

25 December 2022

A 20-year study of a pine stand on post-agricultural land showed that woody debris in the form of organic matter can be successfully used to restore symbiotic mycorrhizal communities, as is the case with forest soils. Woody substrates restored organi...

(This article belongs to the Special Issue Biological Control in Forests Protection)
  • Article
  • Open Access
10 Citations
4,844 Views
26 Pages

Stochastic Inoculum, Biotic Filtering and Species-Specific Seed Transmission Shape the Rare Microbiome of Plants

  • David Johnston-Monje,
  • Janneth P. Gutiérrez and
  • Luis Augusto Becerra Lopez-Lavalle

2 September 2022

A plant’s health and productivity is influenced by its associated microbes. Although the common/core microbiome is often thought to be the most influential, significant numbers of rare or uncommon microbes (e.g., specialized endosymbionts) may...

(This article belongs to the Special Issue Interactions between Microorganisms, Their Environment and Host)
  • Article
  • Open Access
1 Citations
903 Views
18 Pages

Effects of Wood Biomass Combustion Residues on the Structure, Diversity, and Trophic Functions of Soil Fungi

  • Jadwiga Wyszkowska,
  • Edyta Boros-Lajszner,
  • Małgorzata Baćmaga and
  • Jan Kucharski

Substances derived from the combustion of Carpinus betulus and Salix viminalis wood may have the potential to selectively modulate the structure and diversity of soil fungi. Therefore, the aim of this study was to evaluate their effects on the struct...

(This article belongs to the Section Molecular Microbiology)
  • Feature Paper
  • Article
  • Open Access
24 Citations
7,730 Views
24 Pages

19 July 2019

Zostera marina (eelgrass) is a marine foundation species with key ecological roles in coastal habitats. Its bacterial microbiota has been well studied, but very little is known about its mycobiome. In this study, we have isolated and identified 13 fu...

  • Article
  • Open Access
2 Citations
3,204 Views
15 Pages

Characterization of Culturable Mycobiome of Newly Excavated Ancient Wooden Vessels from the Archeological Site of Viminacium, Serbia

  • Ivana Djokić,
  • Aleksandar Knežević,
  • Željko Savković,
  • Milica Ljaljević Grbić and ,
  • Ivica Dimkić,
  • Danka Bukvički,
  • Dragana Gavrilović and
  • Nikola Unković
  • + 3 authors+ 0 author

9 May 2024

Two ancient wooden vessels, specifically a monoxyle (1st century BCE to 1st century CE) and shipwreck (15th to 17th century CE), were excavated in a well-preserved state east of the confluence of the old Mlava and the Danube rivers (Serbia). The vess...

(This article belongs to the Special Issue Fungal Biodegradation: Strategies, Current Understanding, and Future Prospects: 2nd Edition)
  • Article
  • Open Access
4 Citations
2,143 Views
20 Pages

Effect of Paulownia and Buckwheat Intercropping on Soil Microbial Biodiversity, Dehydrogenase Activity, and Glomalin-Related Soil Protein

  • Małgorzata Woźniak,
  • Marek Liszewski,
  • Anna Jama-Rodzeńska,
  • Elżbieta Gębarowska and ,
  • Sylwia Siebielec,
  • Agata Kaczmarek,
  • Bernard Gałka,
  • Dariusz Zalewski and
  • Przemysław Bąbelewski
  • + 4 authors+ 0 author

2 April 2025

Intercropping of trees and classical crops has been proposed as a practice to help adapt to climate change and protect soil against erosion. However, the effects of intercropping on soil biology are not sufficiently quantified. Therefore, the aim of...

(This article belongs to the Section Horticultural and Floricultural Crops)