EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution
Published 2018 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
EukRef: Phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution
Authors
Keywords
Sequence databases, Eukaryota, Phylogenetic analysis, Taxonomy, Sequence alignment, Metadata, Phylogenetics, Species diversity
Journal
PLOS BIOLOGY
Volume 16, Issue 9, Pages e2005849
Publisher
Public Library of Science (PLoS)
Online
2018-09-18
DOI
10.1371/journal.pbio.2005849
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- UniEuk : Time to Speak a Common Language in Protistology!
- (2017) Cédric Berney et al. JOURNAL OF EUKARYOTIC MICROBIOLOGY
- A phylogenetic framework for the kingdom Fungi based on 18S rRNA gene sequences
- (2017) Pablo Yarza et al. Marine Genomics
- Pseudophyllomitus vesiculosus (Larsen and Patterson 1990) Lee, 2002, a Poorly Studied Phagotrophic Biflagellate is the First Characterized Member of Stramenopile Environmental Clade MAST-6
- (2017) Takashi Shiratori et al. PROTIST
- Protistan community analysis: key findings of a large-scale molecular sampling
- (2016) Lars Grossmann et al. ISME Journal
- VSEARCH: a versatile open source tool for metagenomics
- (2016) Torbjørn Rognes et al. PeerJ
- Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing
- (2015) Ramon Massana et al. ENVIRONMENTAL MICROBIOLOGY
- Rethinking the marine carbon cycle: Factoring in the multifarious lifestyles of microbes
- (2015) A. Z. Worden et al. SCIENCE
- Eukaryotic plankton diversity in the sunlit ocean
- (2015) C. de Vargas et al. SCIENCE
- PUmPER: phylogenies updated perpetually
- (2014) Fernando Izquierdo-Carrasco et al. BIOINFORMATICS
- RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
- (2014) Alexandros Stamatakis BIOINFORMATICS
- The others: our biased perspective of eukaryotic genomes
- (2014) Javier del Campo et al. TRENDS IN ECOLOGY & EVOLUTION
- The Eukaryotic Tree of Life from a Global Phylogenomic Perspective
- (2014) F. Burki Cold Spring Harbor Perspectives in Biology
- Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity
- (2014) Laura Wegener Parfrey et al. Frontiers in Microbiology
- Exploring the uncultured microeukaryote majority in the oceans: reevaluation of ribogroups within stramenopiles
- (2013) Ramon Massana et al. ISME Journal
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
- Ribosomal Database Project: data and tools for high throughput rRNA analysis
- (2013) James R. Cole et al. NUCLEIC ACIDS RESEARCH
- The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks
- (2013) Pelin Yilmaz et al. NUCLEIC ACIDS RESEARCH
- Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads
- (2013) M. W. Brown et al. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- The environment ontology: contextualising biological and biomedical entities
- (2013) Pier Buttigieg et al. Journal of Biomedical Semantics
- Phylogeny of Heterokonta: Incisomonas marina, a uniciliate gliding opalozoan related to Solenicola (Nanomonadea), and evidence that Actinophryida evolved from raphidophytes
- (2012) Thomas Cavalier-Smith et al. EUROPEAN JOURNAL OF PROTISTOLOGY
- The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy
- (2012) Laure Guillou et al. NUCLEIC ACIDS RESEARCH
- CBOL Protist Working Group: Barcoding Eukaryotic Richness beyond the Animal, Plant, and Fungal Kingdoms
- (2012) Jan Pawlowski et al. PLOS BIOLOGY
- An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
- (2011) Daniel McDonald et al. ISME Journal
- Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
- (2011) Pelin Yilmaz et al. NATURE BIOTECHNOLOGY
- The NCBI Taxonomy database
- (2011) S. Federhen NUCLEIC ACIDS RESEARCH
- A Comprehensive Benchmark Study of Multiple Sequence Alignment Methods: Current Challenges and Future Perspectives
- (2011) Julie D. Thompson et al. PLoS One
- Microbial Eukaryotes in the Human Microbiome: Ecology, Evolution, and Future Directions
- (2011) Laura Wegener Parfrey et al. Frontiers in Microbiology
- Solenicola setigera is the first characterized member of the abundant and cosmopolitan uncultured marine stramenopile group MAST-3
- (2010) Fernando Gómez et al. ENVIRONMENTAL MICROBIOLOGY
- trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
- (2009) S. Capella-Gutierrez et al. BIOINFORMATICS
- Unveiling new microbial eukaryotes in the surface ocean
- (2008) Ramon Massana et al. CURRENT OPINION IN MICROBIOLOGY
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationCreate your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create Now