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Metagenomic and metatranscriptomic inventories of the lower Amazon River, May 2011

Overview of attention for article published in Microbiome, September 2015
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  • Good Attention Score compared to outputs of the same age (71st percentile)

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9 tweeters


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120 Mendeley
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Metagenomic and metatranscriptomic inventories of the lower Amazon River, May 2011
Published in
Microbiome, September 2015
DOI 10.1186/s40168-015-0099-0
Pubmed ID

Brandon M. Satinsky, Caroline S. Fortunato, Mary Doherty, Christa B. Smith, Shalabh Sharma, Nicholas D. Ward, Alex V. Krusche, Patricia L. Yager, Jeffrey E. Richey, Mary Ann Moran, Byron C. Crump


The Amazon River runs nearly 6500 km across the South American continent before emptying into the western tropical North Atlantic Ocean. In terms of both volume and watershed area, it is the world's largest riverine system, affecting elemental cycling on a global scale. A quantitative inventory of genes and transcripts benchmarked with internal standards was obtained at five stations in the lower Amazon River during May 2011. At each station, metagenomes and metatranscriptomes were obtained in duplicate for two microbial size fractions (free-living, 0.2 to 2.0 μm; particle-associated, 2.0 to 297 μm) using 150 × 150 paired-end Illumina sequencing. Forty eight sample datasets were obtained, averaging 15 × 10(6) potential protein-encoding reads each (730 × 10(6) total). Prokaryotic metagenomes and metatranscriptomes were dominated by members of the phyla Actinobacteria, Planctomycetes, Betaproteobacteria, Verrucomicrobia, Nitrospirae, and Acidobacteria. The actinobacterium SCGC AAA027-L06 reference genome recruited the greatest number of reads overall, with this single bin contributing an average of 50 billion genes and 500 million transcripts per liter of river water. Several dominant taxa were unevenly distributed between the free-living and particle-associated size fractions, such as a particle-associated bias for reads binning to planctomycete Schlesneria paludicola and a free-living bias for actinobacterium SCGC AAA027-L06. Gene expression ratios (transcripts to gene copy ratio) increased downstream from Óbidos to Macapá and Belém, indicating higher per cell activity of Amazon River bacteria and archaea as river water approached the ocean. This inventory of riverine microbial genes and transcripts, benchmarked with internal standards for full quantitation, provides an unparalleled window into microbial taxa and functions in the globally important Amazon River ecosystem.

Twitter Demographics

Twitter Demographics

The data shown below were collected from the profiles of 9 tweeters who shared this research output. Click here to find out more about how the information was compiled.
Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 120 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 2 2%
Japan 1 <1%
France 1 <1%
Brazil 1 <1%
Unknown 115 96%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 32 27%
Researcher 16 13%
Student > Doctoral Student 13 11%
Student > Master 12 10%
Student > Bachelor 10 8%
Other 21 18%
Unknown 16 13%
Readers by discipline Count As %
Agricultural and Biological Sciences 44 37%
Environmental Science 19 16%
Biochemistry, Genetics and Molecular Biology 16 13%
Earth and Planetary Sciences 8 7%
Computer Science 2 2%
Other 9 8%
Unknown 22 18%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 5. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 06 May 2016.
All research outputs
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Outputs from Microbiome
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Outputs of similar age
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Outputs of similar age from Microbiome
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Altmetric has tracked 23,498,099 research outputs across all sources so far. This one has received more attention than most of these and is in the 72nd percentile.
So far Altmetric has tracked 1,511 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 40.0. This one is in the 13th percentile – i.e., 13% of its peers scored the same or lower than it.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 268,621 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 71% of its contemporaries.
We're also able to compare this research output to 20 others from the same source and published within six weeks on either side of this one. This one is in the 5th percentile – i.e., 5% of its contemporaries scored the same or lower than it.