The Distribution of Tryptophan-Dependent Indole-3-Acetic Acid Synthesis Pathways in Bacteria Unraveled by Large-Scale Genomic Analysis

PlasFlow: predicting plasmid sequences in metagenomic data using genome signatures

(2018) Pawel S Krawczyk et al.   NUCLEIC ACIDS RESEARCH

The Plant Growth-Promoting Rhizobacterium Variovorax boronicumulans CGMCC 4969 Regulates the Level of Indole-3-Acetic Acid Synthesized from Indole-3-Acetonitrile

(2018) Shi-Lei Sun et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Uneven distribution of cobamide biosynthesis and dependence in bacteria predicted by comparative genomics

(2018) Amanda N. Shelton et al.   ISME Journal

Taxonomic structure and functional association of foxtail millet root microbiome

(2017) Tao Jin et al.   GigaScience

SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data

(2017) Yuxin Chen et al.   GigaScience

MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices

(2016) Dinghua Li et al.   METHODS

Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system

(2016) Karthik Anantharaman et al.   Nature Communications

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

Microbial species delineation using whole genome sequences

(2015) Neha J. Varghese et al.   NUCLEIC ACIDS RESEARCH

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

(2015) Dongwan D. Kang et al.   PeerJ

Indole-3-acetic acid in plant–microbe interactions

(2014) Daiana Duca et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

IAA-producing rhizobacteria from chickpea (Cicer arietinum L.) induce changes in root architecture and increase root biomass

(2014) Rosario Alicia Fierro-Coronado et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Activity, distribution and function of indole-3-acetic acid biosynthetic pathways in bacteria

(2012) Cheryl L. Patten et al.   CRITICAL REVIEWS IN MICROBIOLOGY

The pathway of auxin biosynthesis in plants

(2012) Y. Mano et al.   JOURNAL OF EXPERIMENTAL BOTANY

Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential

(2012) Gengyun Zhang et al.   NATURE BIOTECHNOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Transcriptome Analysis of the Rhizosphere Bacterium Azospirillum brasilense Reveals an Extensive Auxin Response

(2011) Sandra Van Puyvelde et al.   MICROBIAL ECOLOGY

Auxin Biosynthesis and Its Role in Plant Development

(2010) Yunde Zhao   Annual Review of Plant Biology

Improvement of Phosphate Solubilization and Medicago Plant Yield by an Indole-3-Acetic Acid-Overproducing Strain of Sinorhizobium meliloti

(2010) C. Bianco et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Recent progress in auxin biology

(2010) Alexandre Tromas et al.   COMPTES RENDUS BIOLOGIES

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Manipulating Broad-Spectrum Disease Resistance by Suppressing Pathogen-Induced Auxin Accumulation in Rice

(2010) J. Fu et al.   PLANT PHYSIOLOGY

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Auxin and Plant-Microbe Interactions

(2010) S. Spaepen et al.   Cold Spring Harbor Perspectives in Biology

Effects of indole-3-acetic acid on Sinorhizobium meliloti survival and on symbiotic nitrogen fixation and stem dry weight production

(2009) Esther Imperlini et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Goldacre paper:Auxin: at the root of nodule development?

(2008) Ulrike Mathesius   FUNCTIONAL PLANT BIOLOGY

Aromatic Amino Acid-Dependent Expression of Indole-3-Pyruvate Decarboxylase Is Regulated by TyrR in Enterobacter cloacae UW5

(2008) R. J. Ryu et al.   JOURNAL OF BACTERIOLOGY