5 research outputs found

    Length distribution of SSU rRNA sequences for the five microbial isolates in the Mock 2 community.

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    <p>A comparison was conducted between different RNA processing methods, without (blue) and with (orange) RNA denaturation. The x-axis indicates the read length of the SSU rRNA sequences, and the y-axis indicates the percentages of the SSU rRNA sequences obtained for the five isolates.</p

    Position distribution patterns of 16S rRNA sequences from different RNA-seq datasets.

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    <p>An RNA denaturation step was performed before library preparation. a, Mock 1; b, Mock 2; c, Mock 3; d, Pa-Total; e, Pa-SSU. Explanations for Pa-Total and Pa-SSU are given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0186161#pone.0186161.t001" target="_blank">Table 1</a>.</p

    Non-coverage rates of the bacterial primer 8F.

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    <p>Evaluation of non-coverage rates for primer 8F in total bacteria (a) and different phyla (b). The phyla with less than 10 non-coverage sequences in the datasets are not shown. The non-coverage rates were calculated by dividing non-coverage sequences (having at least one mismatch within primer 8F) of taxa with their relative total sequences. Explanations of abbreviations are given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0186161#pone.0186161.t001" target="_blank">Table 1</a>.</p

    Relative abundances of bacterial and eukaryotic taxa in the five datasets.

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    <p>a, relative abundance of bacterial taxa at phylum level; b, relative abundance of representative eukaryotic taxa at the fourth rank. ‘Other phyla’ or ‘Other’, includes taxa that made up of small fractions (<1%). ‘Unclassified’, includes sequences under a bootstrap cut-off value of 50% for bacteria or 80% for eukaryota. Explanations of abbreviations are given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0186161#pone.0186161.t001" target="_blank">Table 1</a>.</p

    Comparison of the communities identified by SSU rRNA between enriched SSU rRNA- and total NA-derived RNA-seq datasets at different taxonomic levels.

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    <p>a, Phylum; b, Class; c, Order; d, Family; e, Genus; and f, Eukaryota. The percentages of SSU rRNA sequences for a particular taxon within the two datasets were plotted, and the eukaryotic percentages were plotted according to relative abundances of the fourth rank based on the SILVA database. The values in the legends are the slopes and coefficients of the regression equations, respectively. Explanations of Pa-Total and Pa-SSU are given in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0186161#pone.0186161.t001" target="_blank">Table 1</a>.</p
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