Ley Philip, Geelhoed Jeanine S, Vasquez-Cardenas Diana, Meysman Filip J R
Geobiology Research Group, Department of Biology, University of Antwerp, Antwerp, Belgium.
Department of Biotechnology, Delft University of Technology, Delft, Netherlands.
Front Microbiol. 2024 Nov 19;15:1485281. doi: 10.3389/fmicb.2024.1485281. eCollection 2024.
Cable bacteria have acquired a unique metabolism, which induces long-distance electron transport along their centimeter-long multicellular filaments. At present, cable bacteria are thought to form a monophyletic clade with two described genera. However, their diversity has not been systematically investigated. To investigate the phylogenetic relationships within the cable bacteria clade, 16S rRNA gene sequences were compiled from literature and public databases (SILVA 138 SSU and NCBI GenBank). These were complemented with novel sequences obtained from natural sediment enrichments across a wide range of salinities (2-34). To enable taxonomic resolution at the species level, we designed a procedure to attain full-length 16S rRNA gene sequences from individual cable bacterium filaments using an optimized nested PCR protocol and Sanger sequencing. The final database contained 1,876 long 16S rRNA gene sequences (≥800 bp) originating from 92 aquatic locations, ranging from polar to tropical regions and from intertidal to deep sea sediments. The resulting phylogenetic tree reveals 90 potential species-level clades (based on a delineation value of 98.7% 16S rRNA gene sequence identity) that reside within six genus-level clusters. Hence, the diversity of cable bacteria appears to be substantially larger than the two genera and 13 species that have been officially named up to now. Particularly brackish environments with strong salinity fluctuations, as well as sediments with low free sulfide concentrations and deep sea sediments harbor a large pool of novel and undescribed cable bacteria taxa.
缆线细菌获得了一种独特的代谢方式,这种代谢方式会诱导沿其厘米长的多细胞丝进行长距离电子传输。目前,缆线细菌被认为与两个已描述的属构成一个单系类群。然而,它们的多样性尚未得到系统研究。为了研究缆线细菌类群内的系统发育关系,从文献和公共数据库(SILVA 138 SSU和NCBI GenBank)中收集了16S rRNA基因序列。这些序列通过从广泛盐度范围(2-34)的天然沉积物富集物中获得的新序列进行补充。为了在物种水平上实现分类分辨率,我们设计了一种程序,使用优化的巢式PCR方案和桑格测序从单个缆线细菌丝中获得全长16S rRNA基因序列。最终数据库包含1876条长16S rRNA基因序列(≥800 bp),这些序列来自92个水生地点,范围从极地到热带地区,从潮间带到深海沉积物。由此产生的系统发育树揭示了90个潜在的物种水平类群(基于16S rRNA基因序列同一性的98.7%的划分值),它们存在于六个属水平的簇中。因此,缆线细菌的多样性似乎比目前已正式命名的两个属和13个物种要大得多。特别是盐度波动强烈的咸淡水环境,以及游离硫化物浓度低的沉积物和深海沉积物中,蕴藏着大量新的和未描述的缆线细菌分类群。