Reference - Detail
| RRC ID | 75571 |
|---|---|
| Author | Jin J, Yamamoto R, Takeuchi T, Cui G, Miyauchi E, Hojo N, Ikuta K, Ohno H, Shiroguchi K. |
| Title | High-throughput identification and quantification of single bacterial cells in the microbiota. |
| Journal | Nat Commun |
| Abstract |
The bacterial microbiota works as a community that consists of many individual organisms, i.e., cells. To fully understand the function of bacterial microbiota, individual cells must be identified; however, it is difficult with current techniques. Here, we develop a method, Barcoding Bacteria for Identification and Quantification (BarBIQ), which classifies single bacterial cells into taxa-named herein cell-based operational taxonomy units (cOTUs)-based on cellularly barcoded 16S rRNA sequences with single-base accuracy, and quantifies the cell number for each cOTU in the microbiota in a high-throughput manner. We apply BarBIQ to murine cecal microbiotas and quantify in total 3.4 × 105 bacterial cells containing 810 cOTUs. Interestingly, we find location-dependent global differences in the cecal microbiota depending on the dietary vitamin A deficiency, and more differentially abundant cOTUs at the proximal location than the distal location. Importantly, these location differences are not clearly shown by conventional 16S rRNA gene-amplicon sequencing methods, which quantify the 16S rRNA genes, not the cells. Thus, BarBIQ enables microbiota characterization with the identification and quantification of individual constituent bacteria, which is a cornerstone for microbiota studies. |
| Volume | 13(1) |
| Pages | 863 |
| Published | 2022-2-22 |
| DOI | 10.1038/s41467-022-28426-1 |
| PII | 10.1038/s41467-022-28426-1 |
| PMID | 35194029 |
| PMC | PMC8863893 |
| MeSH | Animals Bacteria / genetics DNA, Bacterial / genetics High-Throughput Nucleotide Sequencing* / methods Mice Microbiota* / genetics RNA, Ribosomal, 16S / genetics Sequence Analysis, DNA |
| Altmetric score |
オルトメトリクス指標項目
|
| The most frequently cited source | X(Twitter) |
| Total number of mentions | 122 |
| Altmetric score changes over past 6months | 0.0 |
| Resource | |
| General Microbes | JCM 1297 JCM 5824 JCM 5827 JCM 9498 JCM 10188 JCM 14656 JCM 17463 |