Key Laboratory of Agricultural Microbiomics and Precision Application, Ministry of Agriculture and Rural Affairs, State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Microbial Culture Collection Center (GDMCC), Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, People's Republic of China.
College of Horticulture, South China Agricultural Universitygrid.20561.30, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Guangzhou, People's Republic of China.
Microbiol Spectr. 2022 Jun 29;10(3):e0126421. doi: 10.1128/spectrum.01264-21. Epub 2022 Apr 21.
Members of the genus are heterotrophic bacteria frequently isolated from marine environments with great application potential in areas such as carotenoid production. However, the genomic diversity, metabolic function, and adaption of this genus remain largely unclear. Here, 16 isolates related to the genus were recovered from coastal samples and their genomes were sequenced. The phylogenetic inference of these isolates and reference type strains of this genus indicated that the 16S rRNA gene was insufficient to distinguish them at the species level; instead, the phylogenomic reconstruction could provide the reliable phylogenetic relationships and confirm 15 new well-supported branches, representing 15 putative novel genospecies corroborated by the digital DNA-DNA hybridization and average nucleotide identity analyses. Comparative genomics revealed that the genus had an open pangenome and possessed multiple conserved genes and pathways related to metabolic functions and environmental adaptation, despite the presence of divergent genomic features and specific metabolic potential. Genetic analysis and pigment detection showed that the members of this genus were identified as carotenoid producers, while some proved to be potentially aerobic anoxygenic photoheterotrophs. Collectively, the first insight into the genetic diversity and metabolic potentials of the genus will contribute to better understanding of the speciation and adaptive evolution in natural environments. The deciphering of the phylogenetic diversity and metabolic features of the abundant bacterial taxa is critical for exploring their ecological importance and application potential. is a genus of frequently isolated heterotrophic microorganisms with great industrial application potential. Numerous strains related to the genus have been isolated from diverse environments, but their genomic diversity and metabolic functions remain unclear. Our study revealed a high degree of genetic diversity, metabolic versatility, and environmental adaptation of the genus using comparative genomics. Fifteen novel species of this genus have been established using a polyphasic taxonomic approach, expanding the number of described species to almost double. This study provided an overall view of the genus at the genomic level and will enable us to better uncover its ecological roles and evolutionary history.
属的成员是经常从海洋环境中分离出来的异养细菌，在类胡萝卜素生产等领域具有巨大的应用潜力。然而，该属的基因组多样性、代谢功能和适应能力在很大程度上仍不清楚。在这里，从沿海样本中回收了 16 株与属相关的菌株，并对其基因组进行了测序。这些分离株和该属的参考株型的系统发育推断表明，16S rRNA 基因不足以在种水平上区分它们；相反，系统基因组重建可以提供可靠的系统发育关系，并确认 15 个新的支持良好的分支，代表 15 个新的假定种，这与数字 DNA-DNA 杂交和平均核苷酸同一性分析相吻合。比较基因组学显示，该属具有开放的泛基因组，并具有与代谢功能和环境适应相关的多种保守基因和途径，尽管存在不同的基因组特征和特定的代谢潜力。遗传分析和色素检测表明，该属的成员被鉴定为类胡萝卜素生产者，而一些成员则被证明是潜在的需氧厌氧光异养菌。总的来说，对属的遗传多样性和代谢潜力的首次了解将有助于更好地理解其在自然环境中的物种形成和适应性进化。解析丰富细菌类群的系统发育多样性和代谢特征对于探索其生态重要性和应用潜力至关重要。属是一种经常分离的异养微生物，具有巨大的工业应用潜力。已经从不同的环境中分离出了许多与属相关的菌株，但它们的基因组多样性和代谢功能仍不清楚。我们的研究使用比较基因组学揭示了属的高度遗传多样性、代谢多功能性和环境适应性。使用多相分类学方法建立了该属的 15 个新种，将描述的种数增加了近一倍。这项研究从基因组水平上全面了解了属，并将使我们能够更好地揭示其生态作用和进化历史。
