(Q34076828)

30 July 2017

title

Two decades of describing the unseen majority of aquatic microbial diversity (English)

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30 July 2017

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Angélique Gobet

2

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Lucie Zinger

object named as

Lucie Zinger

series ordinal

1

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author name string

Thomas Pommier

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3

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30 July 2017

publication date

18 November 2011

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30 July 2017

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30 July 2017

volume

21

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30 July 2017

issue

8

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30 July 2017

page(s)

1878-1896

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Fine-scale phylogenetic architecture of a complex bacterial community.

30 July 2017

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Global ecological patterns in uncultured Archaea.

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The Ecological Role of Water-Column Microbes in the Sea

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Global phylogenetic community structure and β-diversity patterns in surface bacterioplankton metacommunities

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Measuring species richness based on microbial community fingerprints: the emperor has no clothes.

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Microbial community structure in the North Pacific ocean

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QIIME allows analysis of high-throughput community sequencing data

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Biodiversity improves water quality through niche partitioning

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Defining DNA-based operational taxonomic units for microbial-eukaryote ecology

21 January 2018

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Nucleic acids as viability markers for bacteria detection using molecular tools.

21 January 2018

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When metagenomics meets stable-isotope probing: progress and perspectives

21 January 2018

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Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions

21 January 2018

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21 January 2018

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The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

21 January 2018

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The value of the world's ecosystem services and natural capital

21 January 2018

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Small Players, Large Role: Microbial Influence on Biogeochemical Processes in Pelagic Aquatic Ecosystems

21 January 2018

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Estimating prokaryotic diversity and its limits

21 January 2018

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Genomic perspectives in microbial oceanography

21 January 2018

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Repeated sampling reveals differential variability in measures of species richness and community composition in planktonic protists

21 January 2018

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Molecular approaches to the assessment of biodiversity in aquatic microbial communities.

21 January 2018

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Spatial variability in the abundance and composition of the free-living bacterioplankton community in the pelagic zone of Lake Bourget (France).

21 January 2018

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Freshwater biodiversity: importance, threats, status and conservation challenges

21 January 2018

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Why biodiversity is important to oceanography: potential roles of genetic, species, and trophic diversity in pelagic ecosystem processes

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

MUSCLE: multiple sequence alignment with high accuracy and high throughput

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Search and clustering orders of magnitude faster than BLAST

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

SeqTrim: a high-throughput pipeline for pre-processing any type of sequence read

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The microbial engines that drive Earth's biogeochemical cycles.

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Evaluation of DNA extraction methods from complex phototrophic biofilms.

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Primary Production of the Biosphere: Integrating Terrestrial and Oceanic Components

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Protist taxonomy: an ecological perspective

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial community gene expression in ocean surface waters

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial community structure and its functional implications

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Ecology of the rare microbial biosphere of the Arctic Ocean

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Diversity of total and active free-living vs. particle-attached bacteria in the euphotic zone of the NW Mediterranean Sea.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The seasonal structure of microbial communities in the Western English Channel

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

PANGEA: pipeline for analysis of next generation amplicons

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Molecular diversity and ecology of microbial plankton

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Multivariate Cutoff Level Analysis (MultiCoLA) of large community data sets

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Distinct flavobacterial communities in contrasting water masses of the north Atlantic Ocean

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Multiple displacement amplification as a pre-polymerase chain reaction (pre-PCR) to process difficult to amplify samples and low copy number sequences from natural environments.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial biogeography: from taxonomy to traits

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial biodiversity in groundwater ecosystems

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Ecological consequences of bacterioplankton lifestyles: changes in concepts are needed

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

A global map of human impact on marine ecosystems

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Molecular diversity of bacterioplankton: link to a predictive biogeochemistry of pelagic ecosystems

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Polymerase chain reaction primers miss half of rRNA microbial diversity

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Bellerophon: a program to detect chimeric sequences in multiple sequence alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Effect of PCR amplicon size on assessments of clone library microbial diversity and community structure

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Accuracy and quality of massively parallel DNA pyrosequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Ironing out the wrinkles in the rare biosphere through improved OTU clustering

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Environmental rRNA inventories miss over half of protistan diversity

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Development of procedures for direct extraction of Cryptosporidium DNA from water concentrates and for relief of PCR inhibitors

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial oceanography: paradigms, processes and promise

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Dynamics of microbial communities on marine snow aggregates: colonization, growth, detachment, and grazing mortality of attached bacteria.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Megx.net: integrated database resource for marine ecological genomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

CLOTU: an online pipeline for processing and clustering of 454 amplicon reads into OTUs followed by taxonomic annotation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial seed banks: the ecological and evolutionary implications of dormancy.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Short pyrosequencing reads suffice for accurate microbial community analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Infrequent marine-freshwater transitions in the microbial world.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Biodiversity and ecosystem functioning: current knowledge and future challenges

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Large fraction of dead and inactive bacteria in coastal marine sediments: comparison of protocols for determination and ecological significance

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Third generation DNA sequencing: pacific biosciences' single molecule real time technology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

A comparison of DNA- and RNA-based clone libraries from the same marine bacterioplankton community

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Linking bacterial identities and ecosystem processes: can 'omic' analyses be more than the sum of their parts?

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Single-molecule PCR using water-in-oil emulsion.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

A general method applicable to the search for similarities in the amino acid sequence of two proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Use of propidium monoazide for live/dead distinction in microbial ecology

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Anthropogenic perturbations in marine microbial communities

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

New insights into the diversity of marine picoeukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Lateral gene transfer and the nature of bacterial innovation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial ecology and evolution: a ribosomal RNA approach

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

CANGS: a user-friendly utility for processing and analyzing 454 GS-FLX data in biodiversity studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Predation on prokaryotes in the water column and its ecological implications

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Global patterns of diversity and community structure in marine bacterioplankton.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The role of ecological theory in microbial ecology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The rational exploration of microbial diversity

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Accurate determination of microbial diversity from 454 pyrosequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Removing noise from pyrosequenced amplicons

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The 'rare biosphere': a reality check

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Spatial comparison of total vs. active bacterial populations by coupling genetic fingerprinting and clone library analyses in the NW Mediterranean Sea.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The species concept for prokaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Life in extreme environments

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The effects of alignment quality, distance calculation method, sequence filtering, and region on the analysis of 16S rRNA gene-based studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Assessing and improving methods used in operational taxonomic unit-based approaches for 16S rRNA gene sequence analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

It's all relative: ranking the diversity of aquatic bacterial communities

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Next-generation DNA sequencing

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Groups without cultured representatives dominate eukaryotic picophytoplankton in the oligotrophic South East Pacific Ocean

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

The extent of protist diversity: insights from molecular ecology of freshwater eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Method To Detect Only Live Bacteria during PCR Amplification

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Microbial diversity in the deep sea and the underexplored "rare biosphere"

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

A molecular approach to identify active microbes in environmental eukaryote clone libraries

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Community structures of actively growing bacteria shift along a north-south transect in the western North Pacific

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Measuring rDNA diversity in eukaryotic microbial systems: how intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

DNA barcoding for ecologists

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Environmental genome shotgun sequencing of the Sargasso Sea

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Extracellular nucleic acids

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Prokaryotes: the unseen majority

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Evolution and Measurement of Species Diversity

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Alignment uncertainty and genomic analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Impacts of biodiversity loss on ocean ecosystem services

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

One bacterial cell, one complete genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

FastGroupII: a web-based bioinformatics platform for analyses of large 16S rDNA libraries

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Mapping of picoeucaryotes in marine ecosystems with quantitative PCR of the 18S rRNA gene

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Global patterns of bacterial beta-diversity in seafloor and seawater ecosystems

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Spatial and temporal variation in marine bacterioplankton diversity as shown by RFLP fingerprinting of PCR amplified 16S rDNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

Spatial patterns of bacterial richness and evenness in the NW Mediterranean Sea explored by pyrosequencing of the 16S rRNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1365-294X.2011.05362.X

10.1111/J.1365-294X.2011.05362.X

21 January 2018

Identifiers

DOI

1 reference

30 July 2017

1 reference