Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
|
journal
|
December 2014 |
Conversion of Amazon rainforest to agriculture alters community traits of methane-cycling organisms
|
journal
|
February 2017 |
Reconstructing rare soil microbial genomes using in situ enrichments and metagenomics
|
journal
|
April 2015 |
Changes in land use alter the structure of bacterial communities in Western Amazon soils
|
journal
|
May 2009 |
Impact of single-cell genomics and metagenomics on the emerging view of extremophile “microbial dark matter”
|
journal
|
August 2014 |
Land-use change drives abundance and community structure alterations of thaumarchaeal ammonia oxidizers in tropical rainforest soils in Rondônia, Brazil
|
journal
|
November 2016 |
The Fate of the Amazonian Areas of Endemism
|
journal
|
June 2005 |
MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices
|
journal
|
June 2016 |
A new view of the tree of life
|
journal
|
April 2016 |
Links between plant and fungal communities across a deforestation chronosequence in the Amazon rainforest
|
journal
|
January 2014 |
MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets
|
journal
|
March 2016 |
Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs
|
journal
|
January 2016 |
Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla
|
journal
|
November 2017 |
Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum
|
journal
|
June 2013 |
Comparative Genomics of Candidate Phylum TM6 Suggests That Parasitism Is Widespread and Ancestral in This Lineage
|
journal
|
November 2015 |
FLASH: fast length adjustment of short reads to improve genome assemblies
|
journal
|
September 2011 |
The Rnf Complex of Clostridium ljungdahlii Is a Proton-Translocating Ferredoxin:NAD+ Oxidoreductase Essential for Autotrophic Growth
|
journal
|
December 2012 |
Use of rpoB and 16S rRNA genes to analyse bacterial diversity of a tropical soil using PCR and DGGE
|
journal
|
October 2002 |
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
|
journal
|
October 2016 |
Measurements of physical strength and their relationship to the chemical composition of four species of Brachiaria
|
journal
|
August 2001 |
PATRIC, the bacterial bioinformatics database and analysis resource
|
journal
|
November 2013 |
Specific microbial gene abundances and soil parameters contribute to C, N, and greenhouse gas process rates after land use change in Southern Amazonian Soils
|
journal
|
October 2015 |
Aerobic Degradation of Aromatic Hydrocarbons
|
book
|
January 2010 |
Expanding the Known Diversity and Environmental Distribution of an Uncultured Phylogenetic Division of Bacteria
|
journal
|
April 2000 |
Soil microbiome responses to the short-term effects of Amazonian deforestation
|
journal
|
April 2015 |
Lignin and Biomass: A Negative Correlation for Wood Formation and Lignin Content in Trees
|
journal
|
October 2010 |
DNA Mismatch Repair in Eukaryotes and Bacteria
|
journal
|
January 2010 |
Relating Patterns of Land-Use Change to Faunal Biodiversity in the Central Amazon
|
journal
|
December 1994 |
Global Biodiversity Scenarios for the Year 2100
|
journal
|
March 2000 |
Modelling conservation in the Amazon basin
|
journal
|
March 2006 |
MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities
|
journal
|
January 2015 |
Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla
|
journal
|
September 2012 |
Evidence for biological nitrification inhibition in Brachiaria pastures
|
journal
|
September 2009 |
Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes
|
journal
|
June 2016 |
Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone
|
journal
|
January 2016 |
Tropical Soil Bacterial Communities in Malaysia: pH Dominates in the Equatorial Tropics Too
|
journal
|
February 2012 |
Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities
|
journal
|
December 2012 |
Tackling soil diversity with the assembly of large, complex metagenomes
|
journal
|
March 2014 |
Fast gapped-read alignment with Bowtie 2
|
journal
|
March 2012 |
The Ecology of Acidobacteria: Moving beyond Genes and Genomes
|
journal
|
May 2016 |
Acidobacterial community responses to agricultural management of soybean in Amazon forest soils
|
journal
|
October 2012 |
Distinct Anaerobic Bacterial Consumers of Cellobiose-Derived Carbon in Boreal Fens with Different CO 2 /CH 4 Production Ratios
|
journal
|
December 2016 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
|
journal
|
May 2015 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
|
journal
|
August 2017 |
ENVIRONMENT: The Future of the Brazilian Amazon
|
journal
|
January 2001 |
Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges
|
journal
|
July 2010 |
The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes
|
journal
|
September 2008 |
The Sequence Alignment/Map format and SAMtools
|
journal
|
June 2009 |
Increases in soil respiration following labile carbon additions linked to rapid shifts in soil microbial community composition
|
journal
|
December 2006 |
Forest-to-pasture conversion increases the diversity of the phylum Verrucomicrobia in Amazon rainforest soils
|
journal
|
July 2015 |
Anvi’o: an advanced analysis and visualization platform for ‘omics data
|
journal
|
January 2015 |
First genomic insights into members of a candidate bacterial phylum responsible for wastewater bulking
|
journal
|
January 2015 |
Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO 2 concentrations : Genomic resolution of a high-CO
|
journal
|
July 2016 |
MUSCLE: multiple sequence alignment with high accuracy and high throughput
|
journal
|
March 2004 |
Insights into the phylogeny and coding potential of microbial dark matter
|
journal
|
July 2013 |
Landscape topography structures the soil microbiome in arctic polygonal tundra
|
journal
|
February 2018 |
Small Genomes and Sparse Metabolisms of Sediment-Associated Bacteria from Four Candidate Phyla
|
journal
|
October 2013 |
Computational Improvements Reveal Great Bacterial Diversity and High Metal Toxicity in Soil
|
journal
|
August 2005 |
Molecular microbial diversity in soils from eastern Amazonia: evidence for unusual microorganisms and microbial population shifts associated with deforestation.
|
journal
|
January 1997 |
Single-cell genome sequencing: current state of the science
|
journal
|
January 2016 |
Biotic homogenization: a few winners replacing many losers in the next mass extinction
|
journal
|
November 1999 |
Binning metagenomic contigs by coverage and composition
|
journal
|
September 2014 |
Lifestyle evolution in symbiotic bacteria: insights from genomics
|
journal
|
August 2000 |
Unusual biology across a group comprising more than 15% of domain Bacteria
|
journal
|
June 2015 |
Recovering complete and draft population genomes from metagenome datasets
|
journal
|
March 2016 |
GroopM: an automated tool for the recovery of population genomes from related metagenomes
|
journal
|
January 2014 |
Soil properties under Amazon forest and changes due to pasture installation in Rondônia, Brazil
|
journal
|
March 1996 |
tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes
|
journal
|
May 2016 |
Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil
|
journal
|
May 2016 |
Dispersing misconceptions and identifying opportunities for the use of 'omics' in soil microbial ecology
|
journal
|
June 2015 |
An Expanded Genomic Representation of the Phylum Cyanobacteria
|
journal
|
May 2014 |
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
|
journal
|
April 2016 |
ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences
|
journal
|
January 2004 |
Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities
|
journal
|
June 2014 |
Phyutility: a phyloinformatics tool for trees, alignments and molecular data
|
journal
|
January 2008 |
Microbial Community Analysis with Ribosomal Gene Fragments from Shotgun Metagenomes
|
journal
|
October 2015 |
Biochemistry, evolution and physiological function of the Rnf complex, a novel ion-motive electron transport complex in prokaryotes
|
journal
|
November 2010 |
Evolutionary Implications of the Frequent Horizontal Transfer of Mismatch Repair Genes
|
journal
|
November 2000 |
Biological nitrification inhibition (BNI) in Brachiaria pastures: A novel strategy to improve eco-efficiency of crop-livestock systems and to mitigate climate change
|
journal
|
January 2014 |
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
|
journal
|
September 1997 |