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X Demographics
Mendeley readers
Attention Score in Context
| Title |
Soil Bacterial Diversity Screening Using Single 16S rRNA Gene V Regions Coupled with Multi-Million Read Generating Sequencing Technologies
|
|---|---|
| Published in |
PLOS ONE, August 2012
|
| DOI | 10.1371/journal.pone.0042671 |
| Pubmed ID | |
| Authors |
Sotirios Vasileiadis, Edoardo Puglisi, Maria Arena, Fabrizio Cappa, Pier S. Cocconcelli, Marco Trevisan |
| Abstract |
The novel multi-million read generating sequencing technologies are very promising for resolving the immense soil 16S rRNA gene bacterial diversity. Yet they have a limited maximum sequence length screening ability, restricting studies in screening DNA stretches of single 16S rRNA gene hypervariable (V) regions. The aim of the present study was to assess the effects of properties of four consecutive V regions (V3-6) on commonly applied analytical methodologies in bacterial ecology studies. Using an in silico approach, the performance of each V region was compared with the complete 16S rRNA gene stretch. We assessed related properties of the soil derived bacterial sequence collection of the Ribosomal Database Project (RDP) database and concomitantly performed simulations based on published datasets. Results indicate that overall the most prominent V region for soil bacterial diversity studies was V3, even though it was outperformed in some of the tests. Despite its high performance during most tests, V4 was less conserved along flanking sites, thus reducing its ability for bacterial diversity coverage. V5 performed well in the non-redundant RDP database based analysis. However V5 did not resemble the full-length 16S rRNA gene sequence results as well as V3 and V4 did when the natural sequence frequency and occurrence approximation was considered in the virtual experiment. Although, the highly conserved flanking sequence regions of V6 provide the ability to amplify partial 16S rRNA gene sequences from very diverse owners, it was demonstrated that V6 was the least informative compared to the rest examined V regions. Our results indicate that environment specific database exploration and theoretical assessment of the experimental approach are strongly suggested in 16S rRNA gene based bacterial diversity studies. |
X Demographics
The data shown below were collected from the profiles of 4 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 2 | 50% |
| Cameroon | 1 | 25% |
| Unknown | 1 | 25% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 3 | 75% |
| Members of the public | 1 | 25% |
Mendeley readers
The data shown below were compiled from readership statistics for 319 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 9 | 3% |
| Brazil | 4 | 1% |
| Germany | 3 | <1% |
| Belgium | 3 | <1% |
| India | 3 | <1% |
| Chile | 2 | <1% |
| Italy | 2 | <1% |
| Sweden | 1 | <1% |
| Colombia | 1 | <1% |
| Other | 11 | 3% |
| Unknown | 280 | 88% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 78 | 24% |
| Researcher | 70 | 22% |
| Student > Master | 42 | 13% |
| Student > Bachelor | 32 | 10% |
| Student > Doctoral Student | 25 | 8% |
| Other | 41 | 13% |
| Unknown | 31 | 10% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 164 | 51% |
| Biochemistry, Genetics and Molecular Biology | 44 | 14% |
| Environmental Science | 26 | 8% |
| Engineering | 9 | 3% |
| Immunology and Microbiology | 7 | 2% |
| Other | 28 | 9% |
| Unknown | 41 | 13% |
Attention Score in Context
This research output has an Altmetric Attention Score of 3. 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 31 October 2012.
All research outputs
#13,662,605
of 23,577,761 outputs
Outputs from PLOS ONE
#111,405
of 202,084 outputs
Outputs of similar age
#92,127
of 167,554 outputs
Outputs of similar age from PLOS ONE
#2,110
of 4,133 outputs
Altmetric has tracked 23,577,761 research outputs across all sources so far. This one is in the 41st percentile – i.e., 41% of other outputs scored the same or lower than it.
So far Altmetric has tracked 202,084 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 15.3. This one is in the 43rd percentile – i.e., 43% 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 167,554 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 44th percentile – i.e., 44% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 4,133 others from the same source and published within six weeks on either side of this one. This one is in the 47th percentile – i.e., 47% of its contemporaries scored the same or lower than it.