Chemosphere, Journal Year: 2019, Volume and Issue: 235, P. 248 - 259
Published: June 24, 2019
Language: Английский
Nature Reviews Microbiology, Journal Year: 2018, Volume and Issue: 16(9), P. 567 - 576
Published: May 22, 2018
Language: Английский
Citations
2090
Nature Ecology & Evolution, Journal Year: 2018, Volume and Issue: 2(6), P. 936 - 943
Published: April 12, 2018
Language: Английский
Citations
1322
Science, Journal Year: 2015, Volume and Issue: 348(6237)
Published: May 22, 2015
Species interaction networks are shaped by abiotic and biotic factors. Here, as part of the Tara Oceans project, we studied photic zone interactome using environmental factors organismal abundance profiles found that incomplete predictors community structure. We associations across plankton functional types phylogenetic groups to be nonrandomly distributed on network driven both local global patterns. identified interactions among grazers, primary producers, viruses, (mainly parasitic) symbionts validated network-generated hypotheses microscopy confirm symbiotic relationships. have thus provided a resource support further research ocean food webs integrating biological components into models.
Language: Английский
Citations
881
Journal of Biotechnology, Journal Year: 2017, Volume and Issue: 261, P. 169 - 176
Published: June 23, 2017
SILVA (lat. forest) is a comprehensive web resource, providing services around up to date, high-quality datasets of aligned ribosomal RNA gene (rDNA) sequences from the Bacteria, Archaea, and Eukaryota domains. dates back year 1991 when Dr. Wolfgang Ludwig Technical University Munich started integrated software workbench ARB tree) support phylogenetic inference taxonomy based on SSU LSU rDNA marker genes. At that time, project maintained both, sequence reference package for data analysis. In 2005, with massive increase DNA data, maintenance system corresponding rRNA databases was split between Microbial Genomics Bioinformatics Research Group in Bremen. has been continuously developed include new features improve usability workbench. Thousands users worldwide appreciate seamless integration common analysis tools under central graphical user interface, combination its versatility. The first release deployed February 2007 EMBL-EBI/ENA 89. Since then, full releases offering database content various flavours are published at least annually, complemented by intermediate web-releases where only dataset updated. special emphasis given consistent naming clades uncultivated (environmental) sequences, no validly described cultivated representatives available. Also exclusive both 16S/18S 23S/28S datasets. Furthermore, alignments trees were designed Eukaryota, another unique feature among databases. With termination European Ribosomal Database Project 2007, become authoritative Europe. application spectrum ranges biodiversity analysis, medical diagnostics, biotechnology quality control academia industry.
Language: Английский
Citations
789
The ISME Journal, Journal Year: 2019, Volume and Issue: 14(1), P. 202 - 216
Published: Oct. 14, 2019
Language: Английский
Citations
780
Oxford University Press eBooks, Journal Year: 2018, Volume and Issue: unknown
Published: Feb. 15, 2018
Abstract Environmental DNA (eDNA), i.e. released in the environment by any living form, represents a formidable opportunity to gather high-throughput and standard information on distribution or feeding habits of species. It has therefore great potential for applications ecology biodiversity management. However, this research field is fast-moving, involves different areas expertise currently lacks approaches, which calls an up-to-date comprehensive synthesis. monitoring covers current methods based eDNA, with particular focus “eDNA metabarcoding”. Intended scientists managers, it provides background allow design sound experiments. revisits all steps necessary produce high-quality metabarcoding data such as sampling, metabarcode design, optimization PCR sequencing protocols, well analysis large datasets. All these are presented discussing challenges eDNA-based approaches infer parameters ecological processes. The last chapters book review how been used so far unravel novel patterns diversity space time, detect species, answer new questions various ecosystems organisms. constitutes essential reading graduate students, researchers practitioners who do not have strong molecular genetics willing use eDNA biomonitoring.
Language: Английский
Citations
774
Nature Microbiology, Journal Year: 2018, Volume and Issue: 3(7), P. 754 - 766
Published: June 1, 2018
Language: Английский
Citations
580
Microbiome, Journal Year: 2021, Volume and Issue: 9(1)
Published: Jan. 31, 2021
The relationship between biodiversity and soil microbiome stability remains poorly understood. Here, we investigated the impacts of bacterial phylogenetic diversity on functional traits microbiome. Communities differing in were generated by inoculating serially diluted suspensions into sterilized soil, was assessed detecting community variations under various pH levels. taxonomic features potential detected DNA sequencing.We found that communities with higher tended to be more stable, implying microbiomes are resistant perturbation. Functional gene co-occurrence network machine learning classification analyses identified specialized metabolic functions, especially "nitrogen metabolism" "phosphonate phosphinate metabolism," as keystone functions. Further annotation functions carried out specific taxa, including Nitrospira Gemmatimonas, among others.This study provides new insights our understanding relationships ecosystem highlights embedded taxa may essential for stability. Video abstract.
Language: Английский
Citations
442
The ISME Journal, Journal Year: 2017, Volume and Issue: 12(2), P. 485 - 494
Published: Nov. 10, 2017
Language: Английский
Citations
419
Current Opinion in Microbiology, Journal Year: 2015, Volume and Issue: 25, P. 56 - 66
Published: May 22, 2015
Language: Английский
Citations
402