Maus Irena, Tubbesing Tom, Wibberg Daniel, Heyer Robert, Hassa Julia, Tomazetto Geizecler, Huang Liren, Bunk Boyke, Spröer Cathrin, Benndorf Dirk, Zverlov Vladimir, Pühler Alfred, Klocke Michael, Sczyrba Alexander, Schlüter Andreas
Center for Biotechnology (CeBiTec), Genome Research of Industrial Microorganisms, Bielefeld University, Universitätsstr. 27, 33615 Bielefeld, Germany.
Faculty of Technology, Bielefeld University, Universitätsstr. 25, 33615 Bielefeld, Germany.
Microorganisms. 2020 Dec 17;8(12):2024. doi: 10.3390/microorganisms8122024.
Members of the genera and were speculated to represent indicators reflecting process instability within anaerobic digestion (AD) microbiomes. Therefore, ING2-E5A was isolated from a biogas reactor sample and sequenced on the PacBio and Illumina MiSeq sequencers. Phylogenetic classification positioned the strain ING2-E5A in close proximity to and species (family Dysgonomonadaceae). ING2-E5A encodes a number of genes for glycosyl-hydrolyses (GH) which are organized in Polysaccharide Utilization Loci (PUL) comprising tandem CD-like genes for a TonB-dependent outer-membrane transporter and a cell surface glycan-binding protein. Different GHs encoded in PUL are involved in pectin degradation, reflecting a pronounced specialization of the ING2-E5A PUL systems regarding the decomposition of this polysaccharide. Genes encoding enzymes participating in amino acids fermentation were also identified. Fragment recruitments with the ING2-E5A genome as a template and publicly available metagenomes of AD microbiomes revealed that species are present in 146 out of 257 datasets supporting their importance in AD microbiomes. Metatranscriptome analyses of AD microbiomes uncovered active sugar and amino acid fermentation pathways for species. Likewise, screening of metaproteome datasets demonstrated expression of the PUL-specific component SusC providing further evidence that PUL play a central role for the lifestyle of species.
推测属和属的成员代表反映厌氧消化（AD）微生物群落内过程不稳定性的指标。因此，从沼气反应器样品中分离出ING2-E5A，并在PacBio和Illumina MiSeq测序仪上进行测序。系统发育分类将ING2-E5A菌株定位在与属和种（Dysgonomonadaceae科）密切相关的位置。ING2-E5A编码许多糖基水解酶（GH）基因，这些基因组织在多糖利用位点（PUL）中，该位点包含用于TonB依赖性外膜转运蛋白和细胞表面聚糖结合蛋白的串联CD样基因。PUL中编码的不同GH参与果胶降解，这反映了ING2-E5A PUL系统在这种多糖分解方面的明显专业化。还鉴定了参与氨基酸发酵的酶的编码基因。以ING2-E5A基因组为模板进行片段招募，并与AD微生物群落的公开可用宏基因组进行比对，结果显示在257个数据集中有146个存在种，这支持了它们在AD微生物群落中的重要性。对AD微生物群落的宏转录组分析揭示了种的活跃糖和氨基酸发酵途径。同样，对宏蛋白质组数据集的筛选表明种的PUL特异性成分SusC的表达，这进一步证明PUL对种的生活方式起着核心作用。
