LMAS Test Dataset - NIBSC Gut DNA Reference

<p>The twenty bacterial replicons of the National Institute for&nbsp;<a href="https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-020-00856-3">Biological Standards and Control (NIBSC) Gut Community Standards</a>&nbsp;were used as reference. It includes the following strains:</p> <table> <thead> <tr> <th>Species</th> <th>Culture collection number</th> <th>Accession numbers</th> <th>Status</th> <th>Gut-Mix-RR Coverage (x)</th> <th>Gut-HiLo-RR Coverage (x)</th> </tr> </thead> <tbody> <tr> <td>Akkermansia muciniphila</td> <td>DSM 22959</td> <td>NC_010655</td> <td>Complete genome</td> <td>33.33</td> <td>0.94</td> </tr> <tr> <td>Alistipes finegoldii</td> <td>DSM 17242</td> <td>NC_018011</td> <td>Complete genome</td> <td>16.94</td> <td>4.85</td> </tr> <tr> <td>Anaerostipes hadrus</td> <td>DSM 3319</td> <td>NZ_KB290627</td> <td>Complete genome</td> <td>24.04</td> <td>6.89</td> </tr> <tr> <td>Bacteroides thetaiotaomicron</td> <td>DSM 2079</td> <td>NC_004663</td> <td>Complete genome</td> <td>5.99</td> <td>17.19</td> </tr> <tr> <td>Bacteroides uniformis</td> <td>DSM 6597</td> <td>GCF_000154205</td> <td>Scaffold</td> <td>10.81</td> <td>3.10</td> </tr> <tr> <td>Bifidobacterium longum subsp. infantis</td> <td>DSM 20088</td> <td>NC_011593</td> <td>Complete genome</td> <td>29.52</td> <td>84.63</td> </tr> <tr> <td>Bifidobacterium longum subsp. longum</td> <td>DSM 20219</td> <td>GCF_900104835</td> <td>Contig</td> <td>40.19</td> <td>115.10</td> </tr> <tr> <td>Blautia wexlerae</td> <td>DSM 19850</td> <td>GCF_000484655</td> <td>Scaffold</td> <td>11.68</td> <td>0.34</td> </tr> <tr> <td>Clostridium butyricum</td> <td>DSM 10702</td> <td>GCF_000409755</td> <td>Contig</td> <td>11.21</td> <td>32.09</td> </tr> <tr> <td>Collinsella aerofaciens</td> <td>DSM 13712</td> <td>GCF_902501475</td> <td>Contig</td> <td>44.03</td> <td>12.61</td> </tr> <tr> <td>Escherichia coli</td> <td>DSM 1103</td> <td>CP009072</td> <td>Complete genome</td> <td>8.86</td> <td>25.34</td> </tr> <tr> <td>Eubacterium hallii</td> <td>DSM 3353</td> <td>GCF_000173975</td> <td>Contig</td> <td>21.79</td> <td>6.25</td> </tr> <tr> <td>Faecalibacterium prausnitzii</td> <td>DSM 17677</td> <td>NZ_CP048437</td> <td>Complete genome</td> <td>24.66</td> <td>0.72</td> </tr> <tr> <td>Lactobacillus gasseri</td> <td>DSM 20077</td> <td>NC_008530</td> <td>Complete genome</td> <td>66.00</td> <td>1.91</td> </tr> <tr> <td>Parabacteroides distasonis</td> <td>DSM 20701</td> <td>NC_009615</td> <td>Complete genome</td> <td>10.20</td> <td>29.26</td> </tr> <tr> <td>Prevotella copri</td> <td>DSM 18205</td> <td>GCF_000157935</td> <td>Scaffold</td> <td>19.23</td> <td>55.11</td> </tr> <tr> <td>Prevotella melaninogenica</td> <td>DSM 7089</td> <td>NC_014370,1 and NC_014371,1</td> <td>2 Chromosomes</td> <td>23.49</td> <td>6.73</td> </tr> <tr> <td>Roseburia hominis</td> <td>DSM 16839</td> <td>NC_015977</td> <td>Complete genome</td> <td>18.31</td> <td>5.24</td> </tr> <tr> <td>Roseburia intestinalis</td> <td>DSM 14610</td> <td>NZ_LR027880</td> <td>Complete genome</td> <td>12.04</td> <td>0.34</td> </tr> <tr> <td>Ruminococcus gauvreauii</td> <td>DSM 19829</td> <td>GCF_000425525</td> <td>Scaffold</td> <td>14.04</td> <td>0.41</td> </tr> </tbody> </table> <p>The raw sequence data of the mock communities, with an even and staggered distribution of species, is available at:</p> <ul> <li><a href="https://www.ebi.ac.uk/ena/browser/view/SRR11487941?show=reads">SRR11487941</a>&nbsp;- Gut-Mix-RR Illumina MiSeq sample</li> <li><a href="https://www.ebi.ac.uk/ena/browser/view/SRR11487935?show=reads">SRR11487935</a>&nbsp;- Gut-Mix-HiLo Illumina MiSeq sample</li> </ul>