Biosynthetic potential of uncultured Antarctic soil bacteria revealed through long-read metagenomic sequencing.
Biosynthetic potential of uncultured Antarctic soil bacteria revealed through long-read metagenomic sequencing.
复制标题
DOI：
10.1038/s41396-021-01052-3
复制
发表时间：
2022-01
期刊：
影响因子：
--
通讯作者：
Wellington E
中科院分区：
文献类型：
--
作者：
Waschulin V;Borsetto C;James R;Newsham KK;Donadio S;Corre C;Wellington E
日益严重的抗生素耐药性问题促使人们探索未培养的细菌作为新抗菌药物的潜在来源。对来自不同环境的样品进行的 PCR 扩增子分析和短读长测序研究报告了宏基因组中生物合成基因簇 (BGC) 高度多样性的证据，表明它们具有生产新颖且有用的化合物的潜力。然而，由于短读长测序的技术限制，从未培养的细菌中恢复全长BGC序列仍然是一个挑战，从而使得BGC多样性的评估变得困难。在这里，长读长测序和基因组挖掘被用来恢复超过 1400 个大部分全长的 BGC，这证明了来自南极洲火星绿洲土壤中未耕种谱系的 BGC 的丰富多样性。大量高度分化的 BGC 不仅存在于 Acidobacteriota、Verrucomicrobiota 和 Gemmatimonadota 门中，而且还存在于放线菌纲 Acidimicrobiia 和 Thermoleophilia 以及 γ-proteobacterial order UBA7966 中。后者还包含一个潜在的新型 RiPP 家族。我们的研究结果强调了未充分开发的门以及看似经过充分研究的生产者门中未开发的谱系的生物合成潜力。他们还展示了长读长宏基因组测序，这是一种有前途的方法，可以获取未培养的大多数微生物的专门代谢基因簇的未开发遗传库。
The growing problem of antibiotic resistance has led to the exploration of uncultured bacteria as potential sources of new antimicrobials. PCR amplicon analyses and short-read sequencing studies of samples from different environments have reported evidence of high biosynthetic gene cluster (BGC) diversity in metagenomes, indicating their potential for producing novel and useful compounds. However, recovering full-length BGC sequences from uncultivated bacteria remains a challenge due to the technological restraints of short-read sequencing, thus making assessment of BGC diversity difficult. Here, long-read sequencing and genome mining were used to recover >1400 mostly full-length BGCs that demonstrate the rich diversity of BGCs from uncultivated lineages present in soil from Mars Oasis, Antarctica. A large number of highly divergent BGCs were not only found in the phyla Acidobacteriota, Verrucomicrobiota and Gemmatimonadota but also in the actinobacterial classes Acidimicrobiia and Thermoleophilia and the gammaproteobacterial order UBA7966. The latter furthermore contained a potential novel family of RiPPs. Our findings underline the biosynthetic potential of underexplored phyla as well as unexplored lineages within seemingly well-studied producer phyla. They also showcase long-read metagenomic sequencing as a promising way to access the untapped genetic reservoir of specialised metabolite gene clusters of the uncultured majority of microbes.
登录
查看更多内容
DOI：
10.1038/nrmicro.2017.173
发表时间：
2018-05
期刊：
Nature reviews. Microbiology
影响因子：
--
作者：
Belin BJ;Busset N;Giraud E;Molinaro A;Silipo A;Newman DK
通讯作者：
Newman DK
影响因子：
30.7
作者：
Fraser, Ceridwen, I;Morrison, Adele K.;Waters, Jonathan M.
通讯作者：
Waters, Jonathan M.
影响因子：
14.8
作者：
Brady, Sean F.
通讯作者：
Brady, Sean F.
影响因子：
5.2
作者：
Chen, Ray;Wong, Hon Lun;Burns, Brendan P.
通讯作者：
Burns, Brendan P.
DOI：
10.1098/rstb.2000.0696
发表时间：
2000-10-29
期刊：
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY OF LONDON SERIES B-BIOLOGICAL SCIENCES
影响因子：
--
作者：
Cogdell, RJ;Howard, TD;Lubitz, W
通讯作者：
Lubitz, W