FEMS Microbiology Ecology. 2024; 100(4); fiae032
prof. RNDr. Petr Baldrian, Ph.D.
Head of Laboratory
Publication
Ecology. 2024; 105(6); ecy.4312
Fungal communities are passengers in community development of dune ecosystems; while bacteria are not
Biological Conservation. 2024; 296(August 2024); 110696
How to best detect threatened deadwood fungi Comparing metabarcoding and fruit body surveys
Scientific Reports. 2024; 14(1); 16135
Effects of experimental canopy openness on wood-inhabiting fungal fruiting diversity across succession
Cell Genomics. 2024; 4(7); 100586
Extreme overall mushroom genome expansion in Mycena s.s. irrespective of plant hosts or substrate specializations
Environmental Microbiome. 2024; 19(1); 42
Effect of plant communities on bacterial and fungal communities in a Central European grassland
Environmental Microbiome. 2024; 19(1); 8
Plant effects on microbiome composition are constrained by environmental conditions in a successional grassland
Frontiers in Microbiology. 2024; 15(21 May); 1379825
Variation of carbon; nitrogen and phosphorus content in fungi reflects their ecology and phylogeny
Soil Biology and Biochemistry. 2024; 193(June 2024); 109405
Dominant herbaceous plants contribute to the spatial heterogeneity of beech and riparian forest soils by influencing fungal and bacterial diversity
Applied Soil Ecology. 2024; 193(January 24); 105148
A cryptically diverse microbial community drives organic matter decomposition in forests
Molecular Ecology Resources. 2024; 24(2); 13904
MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy
Global Ecology and Biogeography. 2024; 33(1); 173-188
The spatial patterns of community composition; their environmental drivers and their spatial scale dependence vary markedly between fungal ecological guilds
FEMS Microbiology Ecology. 2024; 100(5); fiae044
Decomposition of Fomes fomentatius fruiting bodies –transition of healthy living fungus into a deca y ed bacteria-ric h ha bita t is primaril y dri v en by Arthropoda
Fungal Diversity. 2024; 125(1); 1-71
Current trends; limitations and future research in the fungi?
Frontiers in Microbiology. 2024; 15(October 2); 1416515
Closing the gap: examining the impact of source habitat proximity on plant and soil microbial communities in post-mining spoil heap succession
Nature Microbiology. 2024; 9(7); 1873-1883
A global atlas of soil viruses reveals unexplored biodiversity and potential biogeochemical impacts
In: Živá zdravá půda. Praha: Středisko společných činností AV ČR; v. v. i.; 2023; s. 44-60
Fototrofní mikroorganismy a houby
Trends in Genetics. 2023; 39(7); 545-559
How genomics can help biodiversity conservation
In: MARTIN; F.; UROZ; S.; eds. Microbial Environmental Genomics (MEG). New York: Humana; 2023; s. 157-168. Methods in Molecular Biology
Investigating the Bacterial and Fungal Communities Involved in Dead Biomass Degradation in Forest Soils
In: PÖGGELE; S.; JAMES; T.; eds. Evolution of Fungi and Fungal-Like Organisms. Cham: Springer Nature; 2023; s. 227-238. The Mycota
Global Fungal Diversity Estimated from High-Throughput Sequencing
Ecology Letters. 2023; 26(7); 1157-1173
Ambient and substrate energy influence decomposer diversity differentially across trophic levels
Soil Biology and Biochemistry. 2023; 187(December 2023); 109187
Continuous microhabitats as crossroads of fungal communities in a primeval temperate forest
New Phytologist. 2023; 240(5); 2151-2163
GlobalAMFungi: a global database of arbuscular mycorrhizal fungal occurrences from high-throughput sequencing metabarcoding studies
Molecular Ecology Resources. 2023; 23(8); 1800-1811
Improved recovery and annotation of genes in metagenomes through the prediction of fungal introns
Applied and Environmental Microbiology. 2023; 89(5); e0036123
Impact of Wood Age on Termite Microbial Assemblages
Applied Soil Ecology. 2023; 191(November 2023); 105026
Post-fire wood mulch negatively affects the moss biocrust cover and its positive effects on microbial diversity in a semi-arid Mediterranean forest
FEMS Microbiology Ecology. 2023; 99(9); fiad098
Defining a core microbial necrobiome associated with decomposing fungal necromass
Ecology Letters. 2023; 26(9); 1523-1534
Symbiotic status alters fungal eco-evolutionary offspring trajectories
Journal of Ecology. 2023; 111(6); 1203-1217
Plant-soil feedbacks in a diverse grassland: Soil remembers; but not too much
Nature Reviews. Microbiology. 2023; 21(8); 487-501
Forest microbiome and global change
Molecular Ecology Resources. 2023; 23(5); 1066-1076
Recovery of 197 eukaryotic bins reveals major challenges for eukaryote genome reconstruction from terrestrial metagenomes
FEMS Microbiology Ecology. 2023; 99(5); fiad041
Climate-driven shifts in plant and fungal communities can lead to topsoil carbon loss in alpine ecosystems
Global Change Biology. 2023; 29(6); 1437-1450
Enhancing the structural diversity between forest patches-A concept and real-world experiment to study biodiversity; multifunctionality and forest resilience across spatial scales
FEMS Microbiology Ecology. 2023; 99(4); fiad023
Bacterial; but not fungal; communities show spatial heterogeneity in European beech (Fagus sylvatica L.) deadwood
Science of the Total Environment. 2023; 875(June 1); 162676
Co-responses of bacterial and fungal communities to fire management treatments in Mediterranean pyrophytic ecosystems
Forest Ecology and Management. 2023; 530(15 February); 120751
Soil fungal and bacterial community structure in monocultures of fourteen tree species of the temperate zone
mSystems. 2022; 7(6); e00829-22
Global Distribution of Carbohydrate Utilization Potential in the Prokaryotic Tree of Life
Studies in Mycology. 2022; 103(21 September); 1-24
Fungal communities in soils under global change
Soil Biology and Biochemistry. 2022; 171(AUG 2022); 108696
Specific utilization of biopolymers of plant and fungal origin reveals the existence of substrate-specific guilds for bacteria in temperate forest soils
Applied Soil Ecology. 2022; 176(August 2022); 104487
The invasive tree Piper aduncum alters soil microbiota and nutrient content in fallow land following small scale slash-and-burn farming in tropical lowland forest in Papua New Guinea
Cell Reports. 2022; 39(12); 110984
Thousands of small; novel genes predicted in global phage genomes
Microorganisms. 2022; 10(10); 1920
The effect of microbial diversity and biomass on microbial respiration in two soils along the soil chronosequence
Nature Microbiology. 2022; 7(11); 1717-1725
Defending Earth’s terrestrial microbiome
Fungal Ecology. 2022; 59(OCT 2022); 101116
Successional development of wood-inhabiting fungi associated with dominant tree species in a natural temperate floodplain forest
FEMS Microbiology Ecology. 2022; 98(11); fiac118
Bacterial community in soil and tree roots of Picea abies shows little response to clearcutting
Trends in Ecology & Evolution. 2022; 37(3); 197-202
The era of reference genomes in conservation genomics
Scientific Reports. 2022; 12(1); 16150
Quantifying wood decomposition by insects and fungi using computed tomography scanning and machine learning
Science of the Total Environment. 2022; 846(November 10); 157467
Moss biocrust accelerates the recovery and resilience of soil microbial communities in fire-affected semi-arid Mediterranean soils
Environmental Microbiology. 2022; 24(9); 3985-4000
Microbial phylogenetic relatedness links to distinct successional patterns of bacterial and fungal communities
Soil Biology and Biochemistry. 2022; 173(October 2022); 108786
Microbial utilization of simple and complex carbon compounds in a temperate forest soil
Biological Conservation. 2022; 270(JUN 2022); 109569
Snags; logs; stumps; and microclimate as tools optimizing deadwood enrichment for forest biodiversity
Journal of Fungi. 2022; 8(7); 673
Factors Controlling Dead Wood Decomposition in an Old-Growth Temperate Forest in Central Europe
Fungal Diversity. 2022; 114(1); 539-547
High-throughput sequencing view on the magnitude of global fungal diversity
Frontiers in Microbiology. 2022; 13(APR 13 2022); 835274
Fungal Community Development in Decomposing Fine Deadwood Is Largely Affected by Microclimate
Soil Biology and Biochemistry. 2022; 168(May 2022); 108628
Soil compartments (bulk soil; litter; root and rhizosphere) as main drivers of soil protistan communities distribution in forests with different nitrogen deposition
FEMS Microbiology Ecology. 2022; 98(3); fiac025
Composition and functioning of the soil microbiome in the highest altitudes of the Italian Alps and potential effects of climate change
Yeast. 2022; 39(1-2); 4-24
Yeasts from temperate forests
Waste and Biomass Valorization. 2022; 13(3); 1523-1534
Actinobacterial Strains as Genomic Candidates for Characterization of Genes Encoding Enzymes in Bioconversion of Lignocellulose
Journal of Proteomics. 2022; 252(FEB 10 2022); 104428
Functional soil mycobiome across ecosystems
Frontiers in Microbiology. 2021; 12(SEP 3 2021); 660603
Distribution of Soil Extracellular Enzymatic; Microbial; and Biological Functions in the C and N-Cycle Pathways Along a Forest Altitudinal Gradient
Ecology Letters. 2021; 24(12); 2726-2738
Temporal turnover of the soil microbiome composition is guild-specific
Nature Biotechnology. 2021; 39(4); 499
A genomic catalog of Earth’s microbiomes (November; 10.1038/s41587-020-0718-6; 2020)
Environmental Microbiology. 2021; 23(10); 5716-5732
Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay
Soil Biology and Biochemistry. 2021; 161(OCT 2021); 108366
Predictors of soil fungal biomass and community composition in temperate mountainous forests in Central Europe
Journal of Fungi. 2021; 7(6); 412
Successional Development of Fungal Communities Associated with Decomposing Deadwood in a Natural Mixed Temperate Forest
Biology and Fertility of Soils. 2021; 57(1); 77-88
Litter-inhabiting fungi show high level of specialization towards biopolymers composing plant and fungal biomass
Frontiers in Microbiology. 2021; 12(JUN 17); 685303
Deadwood-Inhabiting Bacteria Show Adaptations to Changing Carbon and Nitrogen Availability During Decomposition
Scientific Data. 2021; 8(1); 198
Metagenomes; metatranscriptomes and microbiomes of naturally decomposing deadwood
Frontiers in Microbiology. 2021; 12(JUN 11 2021); 668644
Ecological Divergence Within the Enterobacterial Genus Sodalis: From Insect Symbionts to Inhabitants of Decomposing Deadwood
Nature. 2021; 597(7874); 77-84
The contribution of insects to global forest deadwood decomposition
Frontiers in Microbiology. 2021; 12(June); 676251
Dynamics of soil bacterial and fungal communities during the secondary succession following swidden agriculture in lowland forests
Science of the Total Environment. 2021; 783(AUG 20 2021); 147012
Microbial activity in alpine soils under climate change
Frontiers in Microbiology. 2021; 12(JAN 28 2021); 541583
Forest Microhabitat Affects Succession of Fungal Communities on Decomposing Fine Tree Roots
mSystems. 2021; 6(1); e01078-20
Complementary Roles of Wood-Inhabiting Fungi and Bacteria Facilitate Deadwood Decomposition
mSystems. 2021; 6(1); e01017-20
Fungal Communities Are Important Determinants of Bacterial Community Composition in Deadwood
Soil Biology and Biochemistry. 2021; 155(APR 2021); 108170
Niche differentiation of bacteria and fungi in carbon and nitrogen cycling of different habitats in a temperate coniferous forest: A metaproteomic approach
Applied and Environmental Microbiology. 2021; 87(2); e02042-20
Termites Are Associated with External Species-Specific Bacterial Communities
Trends in Microbiology. 2021; 29(4); 279-282
Genome-Resolved Metagenomics Is Essential for Unlocking the Microbial Black Box of the Soil
Microorganisms. 2021; 9(2); 381
Explorative Meta-Analysis of 417 Extant Archaeal Genomes to Predict Their Contribution to the Total Microbiome Functionality
FEMS Microbiology Ecology. 2021; 97(1); fiaa201
Composition of soil bacterial and fungal communities in relation to vegetation composition and soil characteristics along an altitudinal gradient
Fungal Ecology. 2021; 50(APR 2021); 101038
Fungal diversity living in the root and sporophore of the endemic Korean fern Mankyua chejuense
New Phytologist. 2020; 227(5); 1289-1293
Early successional ectomycorrhizal fungi are more likely to naturalize outside their native range than other ectomycorrhizal fungi
Biotické ohrožení památek zahradního umění: řasy; sinice a invazní rostliny. Kritický katalog k výstavě
Biotické ohrožení památek zahradního umění: řasy; sinice a invazní rostliny
Fungal Diversity. 2020; 105(1); 1-16
FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles
Renewable Agriculture and Food Systems. 2020; 35(2); 206-214); S1742170518000467
In vitro elucidation of suppression effects of composts to soil-borne pathogen Phytophthora nicotianaeon pepper plants using 16S amplicon sequencing and metaproteomics
Fungal Ecology. 2020; 48(DEC2020); 100985
Stand age affects fungal community composition in a Central European temperate forest
Environmental Microbiology. 2020; 22(11); 4604-4619
Feeding on fungi: genomic and proteomic analysis of the enzymatic machinery of bacteria decomposing fungal biomass
Journal of Fungi. 2020; 6(4); 190
Production of Fungal Mycelia in a Temperate Coniferous Forest Shows Distinct Seasonal Patterns
Forest Ecology and Management. 2020; 478(DEC 15); 118520
Seasonal influences on bacterial community dynamics in Mediterranean pyrophytic ecosystems
Nature Communications. 2020; 11(1); 5125
Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits
Fungal Ecology. 2020; 48(DEC 2020); 100991
Termites host specific fungal communities that differ from those in their ambient environments
Soil Biology and Biochemistry. 2020; 148(SEP 2020); 107875
Metagenomics and stable isotope probing reveal the complementary contribution of fungal and bacterial communities in the recycling of dead biomass in forest soil
Geoderma. 2020; 376(OCT 15 2020); 114499
Convergence; divergence or chaos? Consequences of tree trunk decay for pedogenesis and the soil microbiome in a temperate natural forest
The ISME Journal. 2020; 14(9); 2336-2346
Alien ectomycorrhizal plants differ in their ability to interact with co-introduced and native ectomycorrhizal fungi in novel sites
Scientific Data. 2020; 7(1); 228
GlobalFungi; a global database of fungal occurrences from high-throughput-sequencing metabarcoding studies
Oikos. 2020; 129(10); 1579-1588
Primary determinants of communities in deadwood vary among taxa but are regionally consistent
Fungal Ecology. 2020; 46(AUG 2020 SI); UNSP 100913
Long-term decomposition of litter in the montane forest and the definition of fungal traits in the successional space
Živa. 2020; 68(3); 137-142
Živá půda 3. Fototrofní mikroorganismy a houby
Biomass & Bioenergy. 2020; 134(MAR)
Insights from enzymatic degradation of cellulose and hemicellulose to fermentable sugars- a review
Frontiers in Microbiology. 2020; 11(FEB 6); 143
Explorative Meta-Analysis of 377 Extant Fungal Genomes Predicted a Total Mycobiome Functionality of 42.4 Million KEGG Functions
Biology and Fertility of Soils. 2020; 56(3); 345-358
Evaluating the role of biotic and chemical components of plant-soil feedback of primary successional plants
FEMS Microbiology Ecology. 2019; 95(12); fiz154
Editorial: special issue on the ecology of soil microorganisms
Earth-Science Reviews. 2019; 188(JAN 2019); 441-453
A conceptual framework for understanding the biogeochemistry of dry riverbeds through the lens of soil science
FEMS Microbiology Ecology. 2019; 95(1); fiy208
Diversity of fungi and bacteria in species-rich grasslands increases with plant diversity in shoots but not in roots and soil
Nature Communications. 2019; 10(NOV 13); 5142
A meta-analysis of global fungal distribution reveals climate-driven patterns
Živá půda: biologie; ekologie; využívání a degradace půdy
Folia Microbiologica. 2019; 64(1); 19-23
The concept of operational taxonomic units revisited: genomes of bacteria that are regarded as closely related are often highly dissimilar
Microbial Ecology. 2019; 77(3); 664-675
High-Throughput Sequencing Analysis of the Bacterial Community in Stone Fruit Phloem Tissues Infected by ´Candidatus Phytoplasma prunorum´
Mycological Progress. 2019; 18(7); 945-971
Rare and undersampled dimorphic basidiomycetes
Microbial Ecology. 2019; 77(3); 713-725
Cellulase-Hemicellulase Activities and Bacterial Community Composition of Different Soils from Algerian Ecosystems
Nature Reviews. Microbiology. 2019; 17(2); 95-109
Mycobiome diversity: high-throughput sequencing and identification of fungi
Fungal Ecology. 2019; 39(JUN 2019); 100-108
Fungi associated with beetles dispersing from dead wood – Let’s take the beetle bus!
Fungal Ecology. 2019; 41(OCT 2019); 165-176
Adaptive traits of bark and ambrosia beetle-associated fungi
Microbial Biotechnology. 2019; 12(6); 1188-1198
Effect of forest fire prevention treatments on bacterial communities associated with productive Boletus edulis sites
Soil Biology and Biochemistry. 2019; 135(AUG); 275-282
Tracking of the activity of individual bacteria in temperate forest soils shows guild-specific responses to seasonality
FEMS Microbiology Ecology. 2019; 95(2); fiz005
The known and the unknown in soil microbial ecology
Biotechnology Advances. 2019; 37(6-7); 107374
Lignocellulolytic systems of soil bacteria: A vast and diverse toolbox for biotechnological conversion processes
Land Degradation & Development. 2019; 30(2); 166-177
The effect of traditional slash-and-burn agriculture on soil organic matter; nutrient content; and microbiota in tropical ecosystems of Papua New Guinea
Science of the Total Environment. 2019; 662(APR 20); 276-286
When drought meets forest management: Effects on the soil microbial community of a Holm oak forest ecosystem
Biology and Fertility of Soils. 2019; 55(5); 525-538
Tree species identity alters decomposition of understory litter and associated microbial communities: a case study
Catena. 2019; 173(February); 456-464