Testing three pipelines for 18S rDNA-based metabarcoding of soil faunal diversity
Published 2012 View Full Article
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Title
Testing three pipelines for 18S rDNA-based metabarcoding of soil faunal diversity
Authors
Keywords
454 Genome Sequencer FLX System, DNA barcoding, high-throughput sequencing, soil fauna, metabarcoding, 18S rDNA
Journal
Science China-Life Sciences
Volume 56, Issue 1, Pages 73-81
Publisher
Springer Nature
Online
2012-12-27
DOI
10.1007/s11427-012-4423-7
References
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Note: Only part of the references are listed.- SANS: high-throughput retrieval of protein sequences allowing 50% mismatches
- (2012) J. P. Koskinen et al. BIOINFORMATICS
- Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
- (2012) M. Kearse et al. BIOINFORMATICS
- Tracking earthworm communities from soil DNA
- (2012) FRIEDERIKE BIENERT et al. MOLECULAR ECOLOGY
- Bioinformatic challenges for DNA metabarcoding of plants and animals
- (2012) ERIC COISSAC et al. MOLECULAR ECOLOGY
- DNA from soil mirrors plant taxonomic and growth form diversity
- (2012) N. G. YOCCOZ et al. MOLECULAR ECOLOGY
- Environmental DNA
- (2012) PIERRE TABERLET et al. MOLECULAR ECOLOGY
- New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems
- (2012) LAURA S. EPP et al. MOLECULAR ECOLOGY
- Soil sampling and isolation of extracellular DNA from large amount of starting material suitable for metabarcoding studies
- (2012) PIERRE TABERLET et al. MOLECULAR ECOLOGY
- Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring
- (2012) Douglas W. Yu et al. Methods in Ecology and Evolution
- Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering
- (2011) Xiaolin Hao et al. BIOINFORMATICS
- UCHIME improves sensitivity and speed of chimera detection
- (2011) Robert C. Edgar et al. BIOINFORMATICS
- Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
- (2011) B. J. Haas et al. GENOME RESEARCH
- Molecular study of worldwide distribution and diversity of soil animals
- (2011) T. Wu et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Search and clustering orders of magnitude faster than BLAST
- (2010) Robert C. Edgar BIOINFORMATICS
- pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
- (2010) Frederick A Matsen et al. BMC BIOINFORMATICS
- Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises
- (2010) S. CREER et al. MOLECULAR ECOLOGY
- Ecometagenetics confirm high tropical rainforest nematode diversity
- (2010) DOROTA L. PORAZINSKA et al. MOLECULAR ECOLOGY
- Quantifying microbial communities with 454 pyrosequencing: does read abundance count?
- (2010) ANTHONY S. AMEND et al. MOLECULAR ECOLOGY
- Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions
- (2010) Jens Reeder et al. NATURE METHODS
- QIIME allows analysis of high-throughput community sequencing data
- (2010) J Gregory Caporaso et al. NATURE METHODS
- Second-generation environmental sequencing unmasks marine metazoan biodiversity
- (2010) Vera G. Fonseca et al. Nature Communications
- PyNAST: a flexible tool for aligning sequences to a template alignment
- (2009) J. G. Caporaso et al. BIOINFORMATICS
- Reproducibility of read numbers in high-throughput sequencing analysis of nematode community composition and structure
- (2009) DOROTA L. PORAZINSKA et al. Molecular Ecology Resources
- Evaluating high-throughput sequencing as a method for metagenomic analysis of nematode diversity
- (2009) DOROTA L. PORAZINSKA et al. Molecular Ecology Resources
- Surveying soil faunal communities using a direct molecular approach
- (2009) Heather C. Hamilton et al. SOIL BIOLOGY & BIOCHEMISTRY
- Simple approach to reduce PCR artefact formation leads to reliable genotyping of MHC and other highly polymorphic loci — Implications for evolutionary analysis
- (2008) Tobias L. Lenz et al. GENE
- Statistical Assignment of DNA Sequences Using Bayesian Phylogenetics
- (2008) Kasper Munch et al. SYSTEMATIC BIOLOGY
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