Metagenomics of the water column in the pristine upper course of the Amazon river (Q21091006)

Francisco Rodriguez-Valera

15 August 2022

2

object named as

Francisco Rodriguez-Valera

Francisco

Rodriguez-Valera

1 reference

15 August 2022

1

Rohit Ghai

Rohit

Ghai

1 reference

15 August 2022

Danyelle Toyama

4

Danyelle

Toyama

1 reference

15 August 2022

Raquel Rinke

5

Raquel

Rinke

1 reference

15 August 2022

Tereza Cristina Souza de Oliveira

6

Tereza

Cristina Souza de Oliveira

1 reference

15 August 2022

José Wagner Garcia

7

José

Wagner Garcia

1 reference

15 August 2022

Fernando Pellon de Miranda

8

Fernando

Pellon de Miranda

1 reference

15 August 2022

Flavio Henrique-Silva

9

Flavio

Henrique-Silva

1 reference

Creative Commons Attribution 4.0 International

15 August 2022

language of work or name

English

0 references

publication date

2011

0 references

published in

PLOS One

0 references

volume

6

0 references

issue

8

0 references

page(s)

e23785

0 references

copyright license

start time

19 August 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

MEGAN analysis of metagenomic data

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Genome Streamlining in a Cosmopolitan Oceanic Bacterium

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Phenylpropanoid biosynthesis

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Isolation of an autotrophic ammonia-oxidizing marine archaeon

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Metabolism of ferulic acid via vanillin using a novel CoA-dependent pathway in a newly-isolated strain of Pseudomonas fluorescens

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Breaking a paradigm: cosmopolitan and abundant freshwater actinobacteria are low GC.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

A guide to the natural history of freshwater lake bacteria

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Ubiquity of Polynucleobacter necessarius subspecies asymbioticus results from ecological diversification

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Abundance and diversity of archaeal ammonia oxidizers in a coastal groundwater system.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Diversity and abundance of ammonia-oxidizing archaea in the Dongjiang River, China

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

FragGeneScan: predicting genes in short and error-prone reads

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Vertical distribution of ammonia-oxidizing crenarchaeota and methanogens in the epipelagic waters of Lake Kivu (Rwanda-Democratic Republic of the Congo).

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Caught in a TRAP: substrate-binding proteins in secondary transport

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Complete genome sequence of the diesel-degrading Acinetobacter sp. strain DR1.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Metagenome of the Mediterranean deep chlorophyll maximum studied by direct and fosmid library 454 pyrosequencing

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Identifying biologically relevant differences between metagenomic communities

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Ubiquity of Polynucleobacter necessarius ssp. asymbioticus in lentic freshwater habitats of a heterogeneous 2000 km area

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Bacteria, archaea, and crenarchaeota in the epilimnion and hypolimnion of a deep holo-oligomictic lake

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Polynucleobacter cosmopolitanus sp. nov., free-living planktonic bacteria inhabiting freshwater lakes and rivers

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Metagenomic approach studying the taxonomic and functional diversity of the bacterial community in a mesotrophic lake (Lac du Bourget--France).

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyre

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Description of seven candidate species affiliated with the phylum Actinobacteria, representing planktonic freshwater bacteria

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Major gradients in putatively nitrifying and non-nitrifying Archaea in the deep North Atlantic

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Acinetobacter baumannii: emergence of a successful pathogen

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Description of freshwater bacterial assemblages from the upper paraná river floodpulse system, Brazil

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Metagenomic analysis of a freshwater toxic cyanobacteria bloom

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Phylogenetic ecology of the freshwater Actinobacteria acI lineage

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Global patterns in bacterial diversity

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Blooms of single bacterial species in a coastal lagoon of the southwestern Atlantic Ocean.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Distribution of typical freshwater bacterial groups is associated with pH, temperature, and lake water retention time

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Actinobacterial 16S rRNA genes from freshwater habitats cluster in four distinct lineages

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Temporal patterns in bacterial communities in three temperate lakes of different trophic status.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Succession of bacterial community structure along the Changjiang River determined by denaturing gradient gel electrophoresis and clone library analysis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Comparative 16S rRNA analysis of lake bacterioplankton reveals globally distributed phylogenetic clusters including an abundant group of actinobacteria

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Phylogenetic analysis of particle-attached and free-living bacterial communities in the Columbia river, its estuary, and the adjacent coastal ocean.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Geographic and environmental sources of variation in lake bacterial community composition

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Isolation of strains belonging to the cosmopolitan Polynucleobacter necessarius cluster from freshwater habitats located in three climatic zones

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Overrepresentation of a gene family encoding extracytoplasmic solute receptors in Bordetella

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Longitudinal changes in the bacterial community composition of the Danube River: a whole-river approach

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

Differences in structure and dynamics of Polynucleobacter communities in a temperate and a subtropical lake, revealed at three phylogenetic levels

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3158796

The global abundance and size distribution of lakes, ponds, and impoundments

30 May 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Sediment organic carbon burial in agriculturally eutrophic impoundments over the last century

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Infrequent transitions between saline and fresh waters in one of the most abundant microbial lineages (SAR11).

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Typical freshwater bacteria: an analysis of available 16S rRNA gene sequences from plankton of lakes and rivers

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Intra- and inter-lake variability of free-living and particle-associated Actinobacteria communities

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

'Candidatus Planktophila limnetica', an actinobacterium representing one of the most numerically important taxa in freshwater bacterioplankton

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Evidence for structuring of bacterial community composition by organic carbon source in temperate lakes

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Nutrients and other abiotic factors affecting bacterial communities in an Ohio River (USA).

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Global ecological patterns in uncultured Archaea

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Vanillate metabolism in Corynebacterium glutamicum

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Cloning and sequencing of the gene encoding tannase and a structural study of the tannase subunit from Aspergillus oryzae

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Biogeochemistry of carbon in the Amazon River

21 January 2018

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

Acanthamoeba sp. promotes the survival and growth of Acinetobacter baumanii

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/21915244

12 December 2020

inferred from PubMed ID database lookup

Actinorhodopsins: proteorhodopsin-like gene sequences found predominantly in non-marine environments

1 reference

https://pubmed.ncbi.nlm.nih.gov/21915244

12 December 2020

inferred from PubMed ID database lookup

Origins and processing of organic matter in the Amazon River as indicated by carbohydrates and amino acids

1 reference

https://api.crossref.org/works/10.1371/JOURNAL.PONE.0023785

7 January 2021

inferred from DOI database lookup

Identifiers

DOI

10.1371/JOURNAL.PONE.0023785

1 reference

release_mtsqwc5v3jao3k7yk6ppnviruq

0 references

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/mtsqwc5v3jao3k7yk6ppnviruq

24 November 2022

mapped directly with Wikidata item

2946522

1 reference

1 reference

2946522

1 reference