Related references
Note: Only part of the references are listed.Obtaining deeper insights into microbiome diversity using a simple method to block host and nontargets in amplicon sequencing
Teresa Mayer et al.
MOLECULAR ECOLOGY RESOURCES (2021)
Characterizing Microbiomes via Sequencing of Marker Loci: Techniques To Improve Throughput, Account for Cross-Contamination, and Reduce Cost
Joshua G. Harrison et al.
MSYSTEMS (2021)
Comparing DNA Extraction and 16S rRNA Gene Amplification Methods for Plant-Associated Bacterial Communities
Cecelia Giangacomo et al.
PHYTOBIOMES JOURNAL (2021)
A novel PCR-clamping assay reducing plant host DNA amplification significantly improves prokaryotic endo-microbiome community characterization
Emilie Lefevre et al.
FEMS MICROBIOLOGY ECOLOGY (2020)
Reducing host DNA contamination in 16S rRNA gene surveys of anthozoan microbiomes using PNA clamps
Alicia M. Reigel et al.
CORAL REEFS (2020)
Validation of a PNA Clamping Method for Reducing Host DNA Amplification and Increasing Eukaryotic Diversity in Rhizosphere Microbiome Studies
Stephen J. Taerum et al.
PHYTOBIOMES JOURNAL (2020)
Using the Microbiome Amplification Preference Tool (MAPT) to Reveal Medicago sativa-Associated Eukaryotic Microbes
Katherine Moccia et al.
PHYTOBIOMES JOURNAL (2020)
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
Evan Bolyen et al.
NATURE BIOTECHNOLOGY (2019)
The EMBL-EBI search and sequence analysis tools APIs in 2019
Fabio Madeira et al.
NUCLEIC ACIDS RESEARCH (2019)
The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications
Rolf Henrik Nilsson et al.
NUCLEIC ACIDS RESEARCH (2019)
ITSoneDB: a comprehensive collection of eukaryotic ribosomal RNA Internal Transcribed Spacer 1 (ITS1) sequences
Monica Santamaria et al.
NUCLEIC ACIDS RESEARCH (2018)
Transcriptome landscape of a bacterial pathogen under plant immunity
Tatsuya Nobori et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2018)
Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies
Connor R. Fitzpatrick et al.
MICROBIOME (2018)
Enrichment of Root Endophytic Bacteria from Populus deltoides and Single-Cell-Genomics Analysis
Sagar M. Utturkar et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2016)
Accurate Estimation of Fungal Diversity and Abundance through Improved Lineage-Specific Primers Optimized for Illumina Amplicon Sequencing
D. Lee Taylor et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2016)
DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan et al.
NATURE METHODS (2016)
VSEARCH: a versatile open source tool for metagenomics
Torbjorn Rognes et al.
PEERJ (2016)
Unlocking the bacterial and fungal communities assemblages of sugarcane microbiome
Rafael Soares Correa de Souza et al.
SCIENTIFIC REPORTS (2016)
Blocking primers reduce co-amplification of plant DNA when studying bacterial endophyte communities
Brett E. Arenz et al.
JOURNAL OF MICROBIOLOGICAL METHODS (2015)
A straightforward and reliable method for bacterial in planta transcriptomics: application to the Dickeya dadantii/Arabidopsis thaliana pathosystem
Emilie Chapelle et al.
PLANT JOURNAL (2015)
Metagenomic insights into communities, functions of endophytes, and their associates with infection by root-knot nematode, Meloidogyne incognita, in tomato roots
Bao-Yu Tian et al.
SCIENTIFIC REPORTS (2015)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
Molecular detection of bacteria in plant tissues, using universal 16S ribosomal DNA degenerated primers
Georgios Tsoktouridis et al.
BIOTECHNOLOGY & BIOTECHNOLOGICAL EQUIPMENT (2014)
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
Practical innovations for high-throughput amplicon sequencing
Derek S. Lundberg et al.
NATURE METHODS (2013)
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Christian Quast et al.
NUCLEIC ACIDS RESEARCH (2013)
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi
Conrad L. Schoch et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
FastTree 2-Approximately Maximum-Likelihood Trees for Large Alignments
Morgan N. Price et al.
PLOS ONE (2010)
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
Andrew M. Waterhouse et al.
BIOINFORMATICS (2009)
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Ben Langmead et al.
GENOME BIOLOGY (2009)