Exploring soil microbial 16S rRNA sequence data to increase carbon yield and nitrogen efficiency of a bioenergy crop

Enhanced-Efficiency Fertilizers in Nitrous Oxide Emissions from Urea Applied to Sugarcane

(2015) Johnny R. Soares et al.   JOURNAL OF ENVIRONMENTAL QUALITY

A review of soil NO transformation: Associated processes and possible physiological significance on organisms

(2015) Sergiy Medinets et al.   SOIL BIOLOGY & BIOCHEMISTRY

Inoculation with N2-generating denitrifier strains mitigates N2O emission from agricultural soil fertilized with poultry manure

(2014) Tomoyasu Nishizawa et al.   BIOLOGY AND FERTILITY OF SOILS

Aerobic nitrous oxide production through N-nitrosating hybrid formation in ammonia-oxidizing archaea

(2014) Michaela Stieglmeier et al.   ISME Journal

Microbial diversity in sugarcane ethanol production in a Brazilian distillery using a culture-independent method

(2014) Ohana Yonara Assis Costa et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

Inoculation of sugarcane with diazotrophic bacteria

(2014) Nivaldo Schultz et al.   REVISTA BRASILEIRA DE CIENCIA DO SOLO

Recently identified microbial guild mediates soil N2O sink capacity

(2014) Christopher M. Jones et al.   Nature Climate Change

Responses of the terrestrial ammonia-oxidizing archaeonCa. Nitrososphaera viennensis and the ammonia-oxidizing bacteriumNitrosospira multiformisto nitrification inhibitors

(2013) Tianlin Shen et al.   FEMS MICROBIOLOGY LETTERS

Temporal metatranscriptomic patterning in phototrophic Chloroflexi inhabiting a microbial mat in a geothermal spring

(2013) Christian G Klatt et al.   ISME Journal

Isotopic signatures of N2O produced by ammonia-oxidizing archaea from soils

(2013) Man-Young Jung et al.   ISME Journal

Global trends and uncertainties in terrestrial denitrification and N2O emissions

(2013) A. F. Bouwman et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Ammonia oxidation pathways and nitrifier denitrification are significant sources of N2O and NO under low oxygen availability

(2013) X. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sugarcane vinasse: Environmental implications of its use

(2013) Cintya Aparecida Christofoletti et al.   WASTE MANAGEMENT

Firmicutes dominate the bacterial taxa within sugar-cane processing plants

(2013) Farhana Sharmin et al.   Scientific Reports

Discovery of a metabolic alternative to the classical mevalonate pathway

(2013) Nikki Dellas et al.   eLife

Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling

(2013) Laura A Hug et al.   Microbiome

Phylogenetic framework and molecular signatures for the class Chloroflexi and its different clades; proposal for division of the class Chloroflexi class. nov. into the suborder Chloroflexineae subord. nov., consisting of the emended family Oscillochloridaceae and the family Chloroflexaceae fam. nov., and the suborder Roseiflexineae subord. nov., containing the family Roseiflexaceae fam. nov.

(2012) Radhey S. Gupta et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

NG6: Integrated next generation sequencing storage and processing environment

(2012) Jérôme Mariette et al.   BMC GENOMICS

Infield greenhouse gas emissions from sugarcane soils in Brazil: effects from synthetic and organic fertilizer application and crop trash accumulation

(2012) Janaina Braga do Carmo et al.   Global Change Biology Bioenergy

The unaccounted yet abundant nitrous oxide-reducing microbial community: a potential nitrous oxide sink

(2012) Christopher M Jones et al.   ISME Journal

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Unexpected nondenitrifier nitrous oxide reductase gene diversity and abundance in soils

(2012) R. A. Sanford et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mitigation of nitrous oxide emissions from soils by Bradyrhizobium japonicum inoculation

(2012) Manabu Itakura et al.   Nature Climate Change

The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome

(2012) Daniel McDonald et al.   GigaScience

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Removing Noise From Pyrosequenced Amplicons

(2011) Christopher Quince et al.   BMC BIOINFORMATICS

Characterization and production and consumption processes of N2O emitted from temperate agricultural soils determined via isotopomer ratio analysis

(2011) Sakae Toyoda et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Identification and isolation of active N2O reducers in rice paddy soil

(2011) Satoshi Ishii et al.   ISME Journal

Molecular characterisation of the diazotrophic bacterial community in uninoculated and inoculated field-grown sugarcane (Saccharum sp.)

(2011) Doreen Fischer et al.   PLANT AND SOIL

Evidence from field nitrogen balance and 15N natural abundance data for the contribution of biological N2 fixation to Brazilian sugarcane varieties

(2011) Segundo Urquiaga et al.   PLANT AND SOIL

Potential of Aerobic Denitrification by Pseudomonas stutzeri TR2 To Reduce Nitrous Oxide Emissions from Wastewater Treatment Plants

(2010) M. Miyahara et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ironing out the wrinkles in the rare biosphere through improved OTU clustering

(2010) Susan M. Huse et al.   ENVIRONMENTAL MICROBIOLOGY

Importance of denitrifiers lacking the genes encoding the nitrous oxide reductase for N2O emissions from soil

(2010) LAURENT PHILIPPOT et al.   GLOBAL CHANGE BIOLOGY

A ‘rare biosphere’ microorganism contributes to sulfate reduction in a peatland

(2010) Michael Pester et al.   ISME Journal

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

(2010) J. G. Caporaso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Antimicrobial strategies for limiting bacterial contaminants in fuel bioethanol fermentations

(2010) Arunachalam Muthaiyan et al.   PROGRESS IN ENERGY AND COMBUSTION SCIENCE

Various players in the nitrogen cycle: Diversity and functions of the microorganisms involved in nitrification and denitrification

(2010) Masahito Hayatsu et al.   SOIL SCIENCE AND PLANT NUTRITION

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

(2010) Anja Spang et al.   TRENDS IN MICROBIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Effect of nitrogen fertilizer management and waterlogging on nitrous oxide emission from subtropical sugarcane soils

(2009) D.E. Allen et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Cellulases and biofuels

(2009) David B Wilson   CURRENT OPINION IN BIOTECHNOLOGY

Isotope array analysis of Rhodocyclales uncovers functional redundancy and versatility in an activated sludge

(2009) Martin Hesselsoe et al.   ISME Journal

Identification of iron-reducing microorganisms in anoxic rice paddy soil by 13C-acetate probing

(2009) Tomoyuki Hori et al.   ISME Journal

Generalized linear mixed models: a practical guide for ecology and evolution

(2009) Benjamin M. Bolker et al.   TRENDS IN ECOLOGY & EVOLUTION

Green house gases emissions in the production and use of ethanol from sugarcane in Brazil: The 2005/2006 averages and a prediction for 2020

(2008) Isaias C. Macedo et al.   BIOMASS & BIOENERGY

Vinasse organic matter quality and mineralization potential, as influenced by raw material, fermentation and concentration processes

(2007) V. Parnaudeau et al.   BIORESOURCE TECHNOLOGY