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Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics.
- Published in:
- Microorganisms, 2023, v. 11, n. 10, p. 2412, doi. 10.3390/microorganisms11102412
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- Article
NFDI4Microbiota - national research data infrastructure for microbiota research.
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- Research Ideas & Outcome Journal, 2023, p. 1, doi. 10.3897/rio.9.e110501
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- Article
Abundance, classification and genetic potential of Thaumarchaeota in metagenomes of European agricultural soils: a meta-analysis.
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- Environmental Microbiome, 2023, v. 18, n. 1, p. 1, doi. 10.1186/s40793-023-00479-9
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- Article
Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages.
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- Virus Evolution, 2023, v. 9, n. 1, p. 1, doi. 10.1093/ve/veac123
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- Article
Adaptation of a microbial community to demand-oriented biological methanation.
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- Biotechnology for Biofuels & Bioproducts, 2022, v. 15, n. 1, p. 1, doi. 10.1186/s13068-022-02207-w
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- Article
The novel oligopeptide utilizing species Anaeropeptidivorans aminofermentans M3/9T, its role in anaerobic digestion and occurrence as deduced from large-scale fragment recruitment analyses.
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- Frontiers in Microbiology, 2022, v. 13, p. 01, doi. 10.3389/fmicb.2022.1032515
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- Article
Effect of Growth Media on the Diversity of Neocallimastigomycetes from Non-Rumen Habitats.
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- Microorganisms, 2022, v. 10, n. 10, p. 1972, doi. 10.3390/microorganisms10101972
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- Article
Simultaneous Metabarcoding and Quantification of Neocallimastigomycetes from Environmental Samples: Insights into Community Composition and Novel Lineages.
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- Microorganisms, 2022, v. 10, n. 9, p. 1749, doi. 10.3390/microorganisms10091749
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- Article
Multiple Occurrences of a 168-Nucleotide Deletion in SARS-CoV-2 ORF8, Unnoticed by Standard Amplicon Sequencing and Variant Calling Pipelines.
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- Viruses (1999-4915), 2021, v. 13, n. 9, p. 1870, doi. 10.3390/v13091870
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- Article
Haploflow: strain-resolved de novo assembly of viral genomes.
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- Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02426-8
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- Article
Haploflow: strain-resolved de novo assembly of viral genomes.
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- Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02426-8
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- Article
Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit.
- Published in:
- Nature Protocols, 2021, v. 16, n. 4, p. 1785, doi. 10.1038/s41596-020-00480-3
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- Article
Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture.
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- Microorganisms, 2021, v. 9, n. 2, p. 426, doi. 10.3390/microorganisms9020426
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- Article
Phytoplankton consortia as a blueprint for mutually beneficial eukaryote-bacteria ecosystems based on the biocoenosis of Botryococcus consortia.
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- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-81082-1
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- Article
The Role of Petrimonas mucosa ING2-E5A T in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses.
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- Microorganisms, 2020, v. 8, n. 12, p. 2024, doi. 10.3390/microorganisms8122024
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- Article
ConCysFind: a pipeline tool to predict conserved amino acids of protein sequences across the plant kingdom.
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- BMC Bioinformatics, 2020, v. 21, n. 1, p. N.PAG, doi. 10.1186/s12859-020-03749-2
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- Article
Importance of Defluviitalea raffinosedens for Hydrolytic Biomass Degradation in Co-Culture with Hungateiclostridium thermocellum.
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- Microorganisms, 2020, v. 8, n. 6, p. 915, doi. 10.3390/microorganisms8060915
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- Article
Impact of process temperature and organic loading rate on cellulolytic / hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics.
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- Environmental Microbiome, 2020, v. 15, n. 1, p. 1, doi. 10.1186/s40793-020-00354-x
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- Article
Effect of Long-Term Farming Practices on Agricultural Soil Microbiome Members Represented by Metagenomically Assembled Genomes (MAGs) and Their Predicted Plant-Beneficial Genes.
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- Genes, 2019, v. 10, n. 6, p. 424, doi. 10.3390/genes10060424
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- Article
CAMISIM: simulating metagenomes and microbial communities.
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- Microbiome, 2019, v. 7, n. 1, p. N.PAG, doi. 10.1186/s40168-019-0633-6
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- Article
Binning enables efficient host genome reconstruction in cnidarian holobionts.
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- GigaScience, 2018, v. 7, n. 7, p. N.PAG, doi. 10.1093/gigascience/giy075
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- Article
Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants.
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- Microbial Biotechnology, 2018, v. 11, n. 4, p. 667, doi. 10.1111/1751-7915.12982
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- Article
AMBER: Assessment of Metagenome BinnERs.
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- GigaScience, 2018, v. 7, n. 6, p. N.PAG, doi. 10.1093/gigascience/giy069
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- Article
Analyzing large scale genomic data on the cloud with Sparkhit.
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- Bioinformatics, 2018, v. 34, n. 9, p. 1457, doi. 10.1093/bioinformatics/btx808
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- Article
Invasion ecology applied to inoculation of plant growth promoting bacteria through a novel SIMPER-PCA approach.
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- Plant & Soil, 2018, v. 422, n. 1/2, p. 467, doi. 10.1007/s11104-017-3492-6
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- Article
Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes.
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- Biotechnology for Biofuels, 2017, v. 10, p. 1, doi. 10.1186/s13068-017-0947-1
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- Article
acdc -- Automated Contamination Detection and Confidence estimation for single-cell genome data.
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- BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1397-7
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- Article
Unraveling the microbiome of a thermophilic biogas plant by metagenome and metatranscriptome analysis complemented by characterization of bacterial and archaeal isolates.
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- Biotechnology for Biofuels, 2016, v. 9, p. 1, doi. 10.1186/s13068-016-0581-3
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- Article
Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type.
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- Biotechnology for Biofuels, 2016, v. 9, p. 1, doi. 10.1186/s13068-016-0572-4
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- Article
Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants.
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- Biotechnology for Biofuels, 2016, v. 9, p. 1, doi. 10.1186/s13068-016-0565-3
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- Article
MeCorS: Metagenome-enabled error correction of single cell sequencing reads.
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- Bioinformatics, 2016, v. 32, n. 14, p. 2199, doi. 10.1093/bioinformatics/btw144
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- Article
Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities.
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- Proteomics, 2015, v. 15, n. 20, p. 3585, doi. 10.1002/pmic.201400557
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- Article
Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant.
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- GigaScience, 2015, v. 4, n. 1, p. 1, doi. 10.1186/s13742-015-0073-6
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- Article
Deeply sequenced metagenome and metatranscriptome of a biogas-producing microbial community from an agricultural production-scale biogas plant.
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- GigaScience, 2015, v. 4, n. 31-34, p. 1, doi. 10.1186/s13742-015-0073-6
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- Article
Genomic insights into the uncultivated marine Zetaproteobacteria at Loihi Seamount.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2015, v. 9, n. 4, p. 857, doi. 10.1038/ismej.2014.183
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- Article
Targeted diversity generation by intraterrestrial archaea and archaeal viruses.
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- Nature Communications, 2015, v. 6, n. 3, p. 6585, doi. 10.1038/ncomms7585
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Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2014, v. 8, n. 12, p. 2503, doi. 10.1038/ismej.2014.135
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- Article
Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling.
- Published in:
- Frontiers in Microbiology, 2014, v. 5, p. 1, doi. 10.3389/fmicb.2014.00307
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- Article
Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling.
- Published in:
- Frontiers in Microbiology, 2014, v. 5, p. 1, doi. 10.3389/fmicb.2014.00307
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- Publication type:
- Article
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres.
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- PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0095380
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- Article
<i>Mycoplasma salivarium</i> as a Dominant Coloniser of Fanconi Anaemia Associated Oral Carcinoma.
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- PLoS ONE, 2014, v. 9, n. 3, p. 1, doi. 10.1371/journal.pone.0092297
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- Article
The Candidate Phylum <i>Poribacteria</i> by Single-Cell Genomics: New Insights into Phylogeny, Cell-Compartmentation, Eukaryote-Like Repeat Proteins, and Other Genomic Features.
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- PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0087353
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Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade.
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- Genome Biology, 2013, v. 14, n. 11, p. 1, doi. 10.1186/gb-2013-14-11-r130
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- Article
Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2013, v. 7, n. 12, p. 2287, doi. 10.1038/ismej.2013.111
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- Article
Insights into the phylogeny and coding potential of microbial dark matter.
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- Nature, 2013, v. 499, n. 7459, p. 431, doi. 10.1038/nature12352
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Multiple Single-Cell Genomes Provide Insight into Functions of Uncultured <i>Deltaproteobacteria</i> in the Human Oral Cavity.
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- PLoS ONE, 2013, v. 8, n. 3, p. 1, doi. 10.1371/journal.pone.0059361
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- Article
Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2013, v. 7, n. 1, p. 137, doi. 10.1038/ismej.2012.86
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- Article
Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.
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- BMC Bioinformatics, 2012, v. 13, n. Suppl 17, p. 1, doi. 10.1186/1471-2105-13-S17-S22
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- Article
Titelbild: High-Throughput In Vitro Glycoside Hydrolase (HIGH) Screening for Enzyme Discovery (Angew. Chem. 47/2011).
- Published in:
- Angewandte Chemie, 2011, v. 123, n. 47, p. 11205, doi. 10.1002/ange.201106146
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- Article
High-Throughput In Vitro Glycoside Hydrolase (HIGH) Screening for Enzyme Discovery.
- Published in:
- Angewandte Chemie, 2011, v. 123, n. 47, p. 11411, doi. 10.1002/ange.201104685
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- Article