Gan Han M, Lee Yin P, Austin Christopher M
Centre for Integrative Ecology, School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia.
Genomics Facility, Tropical Medicine and Biology Platform, Monash University Malaysia, Bandar Sunway, Malaysia.
Front Microbiol. 2017 Oct 4;8:1880. doi: 10.3389/fmicb.2017.01880. eCollection 2017.
We improved upon the previously reported draft genome of strain PBC, a 4-aminobenzenesulfonate-degrading bacterium, by supplementing the assembly with Nanopore long reads which enabled the reconstruction of the genome as a single contig. From the complete genome, major genes responsible for the catabolism of 4-aminobenzenesulfonate in strain PBC are clustered in two distinct genomic regions. Although the catabolic genes for 4-sulfocatechol, the deaminated product of 4-aminobenzenesulfonate, are only found in , the operon responsible for the first deamination step of 4-aminobenzenesulfonate is conserved in various strains. The absence of gene in the complete genome of PBC is consistent with its -aminobenzoic acid (pABA) auxotrophy but surprisingly comparative genomics analysis of 14 genomes indicate that pABA auxotrophy is not an uncommon feature among members of this genus. Of even more interest, several strains do not possess the genomic potential for hydrogen oxidation, calling for a revision to the taxonomic description of as "hydrogen eating bacteria."
我们通过用纳米孔长读长补充组装,改进了之前报道的4-氨基苯磺酸盐降解菌PBC菌株的基因组草图,从而能够将基因组重建为单个重叠群。从完整基因组来看,PBC菌株中负责4-氨基苯磺酸盐分解代谢的主要基因聚集在两个不同的基因组区域。虽然4-氨基苯磺酸盐的脱氨基产物4-磺基邻苯二酚的分解代谢基因仅在[具体情况未提及]中发现,但负责4-氨基苯磺酸盐第一步脱氨基步骤的[具体操纵子未提及]操纵子在各种[具体菌株未提及]菌株中是保守的。PBC菌株完整基因组中不存在[具体基因未提及]基因,这与其对对氨基苯甲酸(pABA)的营养缺陷型一致,但令人惊讶的是,对14个[具体菌株未提及]基因组的比较基因组学分析表明,pABA营养缺陷型在该属成员中并非罕见特征。更有趣的是,几个[具体菌株未提及]菌株不具备氢氧化的基因组潜力,这就需要对[具体属名未提及]作为“食氢细菌”的分类描述进行修订。