Optimizing taxonomic classification of marker gene sequences
Nicholas A. Bokulich,Benjamin D. Kaehler,Jai Ram Rideout,Matthew R. Dillon,Evan Bolyen,Rob Knight,Gavin A. Huttley,J. Gregory Caporaso +7 more
Reads0
Chats0
About:
The article was published on 2017-08-30 and is currently open access. It has received 19 citations till now. The article focuses on the topics: Marker gene.read more
Citations
More filters
Journal ArticleDOI
Accuracy of taxonomy prediction for 16S rRNA and fungal ITS sequences.
TL;DR: Assessment of the accuracy of several algorithms using cross-validation by identity, a new benchmark strategy which explicitly models the variation in distances between query sequences and the closest entry in a reference database, found 95% identity was found to be a twilight zone where taxonomy is highly ambiguous.
Journal ArticleDOI
Revisiting the 'direct mineral cycling' hypothesis: arbuscular mycorrhizal fungi colonize leaf litter, but why?
TL;DR: It is argued that AM fungal colonization of litter and not-yet-decomposed plant matter may be a global phenomenon that could have far-reaching implications for plant–plant interactions and nutrient cycling in both natural and managed ecosystems.
Journal ArticleDOI
Community ecology across bacteria, archaea and microbial eukaryotes in the sediment and seawater of coastal Puerto Nuevo, Baja California
Sabah Ul-Hasan,Robert M. Bowers,Andrea Figueroa-Montiel,Alexei Licea,J. Michael Beman,Tanja Woyke,Tanja Woyke,Clarissa J. Nobile +7 more
TL;DR: It was found that sediment hosted approximately 500-fold more operational taxonomic units (OTUs) for bacteria, archaea, and microbial eukaryotes than seawater (p < 0.001), highlighting the distinct patterns and spatial heterogeneity in microbial communities of a coastal region in Baja California, Mexico.
Journal ArticleDOI
Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution
Deborah Catharine de Assis Leite,Joana Falcão Salles,Emiliano Nicolas Calderon,Clovis B. Castro,Adalto Bianchini,Joseane Aparecida Marques,Jan Dirk van Elsas,Raquel S. Peixoto +7 more
TL;DR: The less “polluted” areas may show a more-complex network and a high relative abundance of members of the bacterial core (almost 97% in some cases), resulting in aMore-homogeneous and well-established bacteriome among sites/samples, when the influence of the river is stronger (rainy seasons).
Journal ArticleDOI
Invasive plant-derived dissolved organic matter alters microbial communities and carbon cycling in soils
TL;DR: While increased productivity and accelerated nutrient cycling may be common across invaders, the findings indicate that the underlying mechanisms driving these increases may be specific to each invader.
Related Papers (2)
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more