Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil
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S. Tringe | Benjamin L Turner | S. Wright | L. Paša-Tolić | T. Hazen | Zhou Li | Q. Yao | C. Pan | M. Mayes | Xuan Guo | M. Tfaily | Yang Song | L. Paša-Tolić | S. Wright
[1] Zhou Li,et al. Sipros Ensemble improves database searching and filtering for complex metaproteomics , 2017, Bioinform..
[2] Nikola Tolić,et al. Sequential extraction protocol for organic matter from soils and sediments using high resolution mass spectrometry. , 2017, Analytica chimica acta.
[3] Qiuming Yao,et al. Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal‐endobacterial system , 2017, Environmental microbiology.
[4] Brian C. Thomas,et al. Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone , 2016, PeerJ.
[5] Marco Y. Hein,et al. The Perseus computational platform for comprehensive analysis of (prote)omics data , 2016, Nature Methods.
[6] James R. Cole,et al. Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming , 2016 .
[7] Ralf J. M. Weber,et al. Microbial Community Structure Affects Marine Dissolved Organic Matter Composition , 2016, Front. Mar. Sci..
[8] E. Kuramae,et al. Plant and soil fungal but not soil bacterial communities are linked in long-term fertilized grassland , 2016, Scientific Reports.
[9] Laurent Gatto,et al. Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies. , 2016, Journal of proteome research.
[10] Blake A. Simmons,et al. MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets , 2016, Bioinform..
[11] Erik Kristiansson,et al. Statistical evaluation of methods for identification of differentially abundant genes in comparative metagenomics , 2016, BMC Genomics.
[12] S. Tringe,et al. Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis , 2015, The ISME Journal.
[13] Dongwan D. Kang,et al. MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities , 2015, PeerJ.
[14] N. Wurzburger,et al. Fine-root responses to fertilization reveal multiple nutrient limitation in a lowland tropical forest. , 2015, Ecology.
[15] Natalia N. Ivanova,et al. Microbial species delineation using whole genome sequences , 2015, Nucleic acids research.
[16] Connor T. Skennerton,et al. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes , 2015, Genome research.
[17] Mark P. Waldrop,et al. Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes , 2015, Nature.
[18] W. Wanek,et al. The application of ecological stoichiometry to plant–microbial–soil organic matter transformations , 2015 .
[19] L. Paša-Tolić,et al. Advanced solvent based methods for molecular characterization of soil organic matter by high-resolution mass spectrometry. , 2015, Analytical chemistry.
[20] Benjamin L Turner,et al. Seasonal changes in soil organic matter after a decade of nutrient addition in a lowland tropical forest , 2015, Biogeochemistry.
[21] Chao Xie,et al. Fast and sensitive protein alignment using DIAMOND , 2014, Nature Methods.
[22] Annika C. Mosier,et al. Elevated temperature alters proteomic responses of individual organisms within a biofilm community , 2014, The ISME Journal.
[23] Tae-Hyuk Ahn,et al. Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam , 2014, BMC Evolutionary Biology.
[24] Bahlul Haider,et al. Omega: an Overlap-graph de novo Assembler for Metagenomics , 2014, Bioinform..
[25] Benjamin L Turner,et al. Soil organic phosphorus transformations along a coastal dune chronosequence under New Zealand temperate rain forest , 2014, Biogeochemistry.
[26] Denis C. Bauer,et al. A Comparative Study of Techniques for Differential Expression Analysis on RNA-Seq Data , 2014, bioRxiv.
[27] Qiuming Yao,et al. Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community , 2014, Nature Communications.
[28] M. Shakya,et al. Improved Yield of High Molecular Weight DNA Coincides with Increased Microbial Diversity Access from Iron Oxide Cemented Sub-Surface Clay Environments , 2014, PloS one.
[29] Benjamin L Turner,et al. Species‐specific responses of foliar nutrients to long‐term nitrogen and phosphorus additions in a lowland tropical forest , 2014 .
[30] Seema B. Sharma,et al. Phosphate solubilizing microbes: sustainable approach for managing phosphorus deficiency in agricultural soils , 2013, SpringerPlus.
[31] J. Moore,et al. Carbon-Degrading Enzyme Activities Stimulated by Increased Nutrient Availability in Arctic Tundra Soils , 2013, PloS one.
[32] Anton J. Enright,et al. Kraken: A set of tools for quality control and analysis of high-throughput sequence data , 2013, Methods.
[33] Zhou Li,et al. Sipros/ProRata: a versatile informatics system for quantitative community proteomics , 2013, Bioinform..
[34] C. Huttenhower,et al. PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes , 2013, Nature Communications.
[35] Benjamin L Turner,et al. Seasonal Changes and Treatment Effects on Soil Inorganic Nutrients Following a Decade of Fertilizer Addition in a Lowland Tropical Forest , 2013 .
[36] C. Mason,et al. Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data , 2013, Genome Biology.
[37] T. Urich,et al. Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms , 2012, The ISME Journal.
[38] Benjamin L Turner,et al. The response of microbial biomass and hydrolytic enzymes to a decade of nitrogen, phosphorus, and potassium addition in a lowland tropical rain forest , 2013, Biogeochemistry.
[39] Edward C. Uberbacher,et al. Gene and translation initiation site prediction in metagenomic sequences , 2012, Bioinform..
[40] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[41] Benjamin L Turner,et al. Tropical tree seedling growth responses to nitrogen, phosphorus and potassium addition , 2012 .
[42] J. Mo,et al. Effects of phosphorus addition on soil microbial biomass and community composition in three forest types in tropical China , 2012 .
[43] Michael Kaspari,et al. Potassium, phosphorus, or nitrogen limit root allocation, tree growth, or litter production in a lowland tropical forest. , 2011, Ecology.
[44] Peer Bork,et al. Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy , 2011, Nucleic Acids Res..
[45] Bettina M. J. Engelbrecht,et al. Soil organic phosphorus in lowland tropical rain forests , 2011 .
[46] D. Crowley,et al. Identification of β-propeller phytase-encoding genes in culturable Paenibacillus and Bacillus spp. from the rhizosphere of pasture plants on volcanic soils. , 2011, FEMS microbiology ecology.
[47] Mark D. Robinson,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[48] L. Anderson,et al. Soils of Amazonia with particular reference to the RAINFOR sites , 2009 .
[49] Benjamin L Turner. Resource partitioning for soil phosphorus: a hypothesis , 2008 .
[50] Michael Kaspari,et al. Multiple nutrients limit litterfall and decomposition in a tropical forest. , 2007, Ecology letters.
[51] Brad T. Sherman,et al. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources , 2008, Nature Protocols.
[52] C. Cleveland,et al. C:N:P stoichiometry in soil: is there a “Redfield ratio” for the microbial biomass? , 2007 .
[53] B. Lim,et al. Distribution and diversity of phytate-mineralizing bacteria , 2007, The ISME Journal.
[54] Peter M. Vitousek,et al. Resource-use efficiency and plant invasion in low-resource systems , 2007, Nature.
[55] A. Michelsen,et al. Fifteen years of climate change manipulations alter soil microbial communities in a subarctic heath ecosystem , 2007 .
[56] P. Vitousek,et al. Responses of extracellular enzymes to simple and complex nutrient inputs , 2005 .
[57] F. Chapin,et al. Ecosystem carbon storage in arctic tundra reduced by long-term nutrient fertilization , 2004, Nature.
[58] Gerrit H. de Rooij,et al. Methods of Soil Analysis. Part 4. Physical Methods , 2004 .
[59] A. H. Ullah,et al. The term phytase comprises several different classes of enzymes. , 2003, Biochemical and biophysical research communications.
[60] J. Elser,et al. Ecological Stoichiometry: The Biology of Elements from Molecules to the Biosphere , 2002 .
[61] A. Michelsen,et al. RESPONSES IN MICROBES AND PLANTS TO CHANGED TEMPERATURE, NUTRIENT, AND LIGHT REGIMES IN THE ARCTIC , 1999 .
[62] S. Scheu,et al. An inter-laboratory comparison of ten different ways of measuring soil microbial biomass C , 1997 .
[63] D. Sparks,et al. Methods of soil analysis. Part 3 - chemical methods. , 1996 .
[64] D. Tilman,et al. Plant Allocation and the Multiple Limitation Hypothesis , 1992, The American Naturalist.
[65] H. Mooney,et al. Resource Limitation in Plants-An Economic Analogy , 1985 .
[66] P. Brookes,et al. Chloroform fumigation and the release of soil nitrogen: A rapid direct extraction method to measure microbial biomass nitrogen in soil , 1985 .
[67] D. Tilman. Resource competition and community structure. , 1983, Monographs in population biology.
[68] David Tilman. Resource Competition and Community Structure. (MPB-17), Volume 17 , 1982 .