Minimizing Tillage Modifies Fungal Denitrifier Communities, Increases Denitrification Rates and Enhances the Genetic Potential for Fungal Relative to Bacterial Denitrification

are

[1]  V. Vujanovic Tremellomycetes Yeasts in Kernel Ecological Niche: Early Indicators of Enhanced Competitiveness of Endophytic and Mycoparasitic Symbionts against Wheat Pathobiota , 2021, Plants.

[2]  P. Bork,et al.  Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation , 2021, Nucleic Acids Res..

[3]  K. Konstantinidis,et al.  Beyond denitrification: The role of microbial diversity in controlling nitrous oxide reduction and soil nitrous oxide emissions , 2021, Global change biology.

[4]  K. Fuchs,et al.  Mitigation of nitrous oxide emissions in the context of nitrogen loss reduction from agroecosystems: managing hot spots and hot moments , 2020 .

[5]  A. Michelsen,et al.  A tipping point in carbon storage when forest expands into tundra is related to mycorrhizal recycling of nitrogen. , 2021, Ecology letters.

[6]  Jie Zong,et al.  Changes in soil organic carbon fractions and bacterial community composition under different tillage and organic fertiliser application in a maize−wheat rotation system , 2020 .

[7]  R. Cook,et al.  Microbial Communities Associated With Long-Term Tillage and Fertility Treatments in a Corn-Soybean Cropping System , 2020, Frontiers in Microbiology.

[8]  A. Berlin,et al.  Optimized metabarcoding with Pacific Biosciences enables semi-quantitative analysis of fungal communities. , 2020, The New phytologist.

[9]  H. Blanco‐Canqui,et al.  Does occasional tillage undo the ecosystem services gained with no-till? A review , 2020 .

[10]  M. Krauss,et al.  Enhanced soil quality with reduced tillage and solid manures in organic farming – a synthesis of 15 years , 2020, Scientific Reports.

[11]  Jinyang Wang,et al.  No-till increases soil denitrification via its positive effects on the activity and abundance of the denitrifying community , 2020 .

[12]  J. Six,et al.  Attribution of N2O sources in a grassland soil with laser spectroscopy based isotopocule analysis , 2019, Biogeosciences.

[13]  M. Schloter,et al.  Hydroxylamine Contributes More to Abiotic N2O Production in Soils Than Nitrite , 2019, Front. Environ. Sci..

[14]  A. Kent,et al.  An evaluation of primers for detecting denitrifiers via their functional genes , 2019, Environmental microbiology.

[15]  Jennifer Meier,et al.  Sensitivity of labile carbon fractions to tillage and organic matter management and their potential as comprehensive soil quality indicators across pedoclimatic conditions in Europe , 2019, Ecological Indicators.

[16]  Wen Feng Chen,et al.  Effect of tillage and static abiotic soil properties on microbial diversity , 2018, Applied Soil Ecology.

[17]  B. Zhu,et al.  Root litter decomposition slows with soil depth , 2018, Soil Biology and Biochemistry.

[18]  A. Kravchenko,et al.  X‐ray computed tomography to predict soil N2O production via bacterial denitrification and N2O emission in contrasting bioenergy cropping systems , 2018, GCB Bioenergy.

[19]  C. Schadt,et al.  Phylogenomics Reveal the Dynamic Evolution of Fungal Nitric Oxide Reductases and Their Relationship to Secondary Metabolism , 2018, Genome biology and evolution.

[20]  D. Kastelec,et al.  Resilience of bacteria, archaea, fungi and N-cycling microbial guilds under plough and conservation tillage, to agricultural drought , 2018 .

[21]  M. Romantschuk,et al.  Over twenty years farmland reforestation decreases fungal diversity of soils, but stimulates the return of ectomycorrhizal fungal communities , 2018, Plant and Soil.

[22]  Wenxu Dong,et al.  Tillage Changes Vertical Distribution of Soil Bacterial and Fungal Communities , 2018, Front. Microbiol..

[23]  B. Woodcroft,et al.  GraftM: a tool for scalable, phylogenetically informed classification of genes within metagenomes , 2018, Nucleic acids research.

[24]  Andrey M. Yurkov Yeasts of the soil – obscure but precious , 2018, Yeast.

[25]  Johanna Birgander,et al.  Reduced tillage stimulated symbiotic fungi and microbial saprotrophs, but did not lead to a shift in the saprotrophic microorganism community structure , 2017 .

[26]  M. Hartmann,et al.  Temporal Dynamics of Soil Microbial Communities below the Seedbed under Two Contrasting Tillage Regimes , 2017, Front. Microbiol..

[27]  M. Aubinet,et al.  Impact of tillage on greenhouse gas emissions by an agricultural crop and dynamics of N2O fluxes: Insights from automated closed chamber measurements , 2017 .

[28]  T. Zheng,et al.  Changes in land use driven by urbanization impact nitrogen cycling and the microbial community composition in soils , 2017, Scientific Reports.

[29]  G. Bonilla-Rosso,et al.  Design and evaluation of primers targeting genes encoding NO-forming nitrite reductases: implications for ecological inference of denitrifying communities , 2016, Scientific Reports.

[30]  P. Jacinthe,et al.  Evaluation of antibacterial and antifungal compounds for selective inhibition of denitrification in soils. , 2016, Environmental science. Processes & impacts.

[31]  Huaihai Chen,et al.  Detection of N2O-producing fungi in environment using nitrite reductase gene (nirK)-targeting primers. , 2016, Fungal biology.

[32]  P. Blair,et al.  Microbial community responses to soil tillage and crop rotation in a corn/soybean agroecosystem , 2016, Ecology and evolution.

[33]  Paul J. McMurdie,et al.  DADA2: High resolution sample inference from Illumina amplicon data , 2016, Nature Methods.

[34]  Y. Liao,et al.  Responses of soil fungi to 5-year conservation tillage treatments in the drylands of northern China , 2016 .

[35]  C. Schadt,et al.  Detection and Diversity of Fungal Nitric Oxide Reductase Genes (p450nor) in Agricultural Soils , 2016, Applied and Environmental Microbiology.

[36]  H. Vereecken,et al.  A review of chemical reactions of nitrification intermediates and their role in nitrogen cycling and nitrogen trace gas formation in soil , 2016 .

[37]  Huaihai Chen,et al.  Fungal and bacterial N2O production regulated by soil amendments of simple and complex substrates , 2015 .

[38]  L. Philippot,et al.  N2O production, a widespread trait in fungi , 2015, Scientific Reports.

[39]  M. Cubeta,et al.  Phylogenetic, taxonomic and functional diversity of fungal denitrifiers and associated N2O production efficacy , 2015 .

[40]  K. Senoo,et al.  Development of PCR primers targeting fungal nirK to study fungal denitrification in the environment , 2015 .

[41]  S. Hallin,et al.  Intergenomic Comparisons Highlight Modularity of the Denitrification Pathway and Underpin the Importance of Community Structure for N2O Emissions , 2014, PloS one.

[42]  A. von Haeseler,et al.  IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies , 2014, Molecular biology and evolution.

[43]  Shunsuke Takahashi,et al.  Development of a Prokaryotic Universal Primer for Simultaneous Analysis of Bacteria and Archaea Using Next-Generation Sequencing , 2014, PloS one.

[44]  K. Senoo,et al.  N2O emission from cropland field soil through fungal denitrification after surface applications of organic fertilizer , 2014 .

[45]  T. Kautz Research on subsoil biopores and their functions in organically managed soils: A review , 2014, Renewable Agriculture and Food Systems.

[46]  A. Etana,et al.  Effect of mouldboard ploughing and shallow tillage on sub-soil physical properties and crop performance , 2014 .

[47]  M. Cubeta,et al.  Nitrous oxide producing activity of diverse fungi from distinct agroecosystems , 2013 .

[48]  H. Friberg,et al.  Survival of Fusarium graminearum, the causal agent of Fusarium head blight. A review , 2012, Agronomy for Sustainable Development.

[49]  B. Ward How Nitrogen Is Lost , 2013, Science.

[50]  Susan Holmes,et al.  phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data , 2013, PloS one.

[51]  H. Friberg,et al.  New primers to amplify the fungal ITS2 region--evaluation by 454-sequencing of artificial and natural communities. , 2012, FEMS microbiology ecology.

[52]  H. Friberg,et al.  Survival of Fusarium graminearum, the causal agent of Fusarium head blight. A review , 2012, Agronomy for Sustainable Development.

[53]  S. Fushinobu,et al.  Fungal denitrification and nitric oxide reductase cytochrome P450nor , 2012, Philosophical Transactions of the Royal Society B: Biological Sciences.

[54]  A. Spang,et al.  Metagenomic Analysis of Ammonia-Oxidizing Archaea Affiliated with the Soil Group , 2012, Front. Microbio..

[55]  David Johnson,et al.  Nitrous oxide production by the ectomycorrhizal fungi Paxillus involutus and Tylospora fibrillosa. , 2011, FEMS microbiology letters.

[56]  Pengyin Chen,et al.  Soybean Growth and Soil Microbial Populations under Conventional and Conservational Tillage Systems , 2010 .

[57]  J. Arvidsson,et al.  Readily dispersible clay and particle transport in five Swedish soils under long-term shallow tillage and mouldboard ploughing , 2009 .

[58]  S. Fushinobu,et al.  Eukaryotic nirK Genes Encoding Copper-Containing Nitrite Reductase: Originating from the Protomitochondrion? , 2009, Applied and Environmental Microbiology.

[59]  T. Franti,et al.  Soil Microbial Community Change and Recovery after One‐Time Tillage of Continuous No‐Till , 2008 .

[60]  S. Hallin,et al.  Phylogenetic analysis of nitrite, nitric oxide, and nitrous oxide respiratory enzymes reveal a complex evolutionary history for denitrification. , 2008, Molecular biology and evolution.

[61]  Sean R. Eddy,et al.  A Probabilistic Model of Local Sequence Alignment That Simplifies Statistical Significance Estimation , 2008, PLoS Comput. Biol..

[62]  L. Philippot,et al.  Finding the missing link between diversity and activity using denitrifying bacteria as a model functional community. , 2005, Current opinion in microbiology.

[63]  K. Schleifer,et al.  ARB: a software environment for sequence data. , 2004, Nucleic acids research.

[64]  G. Cadisch,et al.  Nitrous oxide emissions following application of residues and fertiliser under zero and conventional tillage , 2003, Plant and Soil.

[65]  H. Shoun,et al.  Cytochromes P450nor and P450foxy of the fungus Fusarium oxysporum , 2002 .

[66]  S. Ogle,et al.  Soil organic matter, biota and aggregation in temperate and tropical soils - Effects of no-tillage , 2002 .

[67]  L. Philippot Denitrifying genes in bacterial and Archaeal genomes. , 2002, Biochimica et biophysica acta.

[68]  S. Wuest Soil biopore estimation: effects of tillage, nitrogen, and photographic resolution , 2001 .

[69]  Johan Six,et al.  Soil macroaggregate turnover and microaggregate formation: a mechanism for C sequestration under no-tillage agriculture , 2000 .

[70]  M. Firestone,et al.  Linking microbial community composition to function in a tropical soil , 2000 .

[71]  W. Zumft Cell biology and molecular basis of denitrification. , 1997, Microbiology and molecular biology reviews : MMBR.

[72]  M. Pell,et al.  Potential denitrification activity assay in soil—With or without chloramphenicol? , 1996 .

[73]  H. Uchiyama,et al.  Denitrification by fungi. , 1992, FEMS microbiology letters.

[74]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[75]  J. Doran Soil microbial and biochemical changes associated with reduced tillage. , 1980 .

[76]  N. Bolan,et al.  Soil organic carbon dynamics: Impact of land use changes and management practices: A review , 2019, Advances in Agronomy.

[77]  Robert Picard,et al.  Design and Evaluation , 2018 .

[78]  Tomas Rydberg,et al.  Crop yield in Swedish experiments with shallow tillage and no-tillage 1983–2012 , 2014 .

[79]  Sara Hallin,et al.  Ecology of Denitrifying Prokaryotes in Agricultural Soil , 2007 .

[80]  Gary E. Harman,et al.  Trichoderma species — opportunistic, avirulent plant symbionts , 2004, Nature Reviews Microbiology.

[81]  J. Shroyer,et al.  The impact of reduced tillage on soilborne plant pathogens. , 1998, Annual review of phytopathology.