A formaldehyde-degrading strain Methylobacterium sp. XJLW was isolated and exhibited a special phenotype for formaldehyde utilization. The accumulation of formic acid in large quantities and lower cell growth was detected when XJLW utilized formaldehyde as the sole carbon source, suggesting XJLW has a potentially novel pathway to transfer formaldehyde to methanol and then enter the serine cycle for C1 metabolism. This mechanism requires exploration via molecular omics. Thus, the complete genome of XJLW was sequenced, and the transcriptome difference was also analyzed based on the RNA-seq data of strain XJLW cultivated with methanol and glucose, respectively. XJLW has a chromosome DNA and a mega-plasmid DNA. Ten percent of genes on chromosome DNA are strain-specific in genus Methylobacterium. Transcriptome analysis results showed that 623 genes were significantly up-regulated and that 207 genes were significantly down-regulated for growth in methanol. Among the up-regulated genes, 90 genes belong to strain-specific regions and are densely distributed in three areas. A specific gene (A3862_27225) annotated as methyltransferase was found ranking in the top 4 of up-regulated genes. This methyltransferase may play a role in the specific C1 metabolism of XJLW. Methylobacterium sp. XJLW should contain a potential methyl transport pathway via the novel methyltransferase, which is different from known pathways. These findings provide the basis for additional possibilities, which improve the formaldehyde-degrading ability of Methylobacterium sp. XJLW.

中文翻译：

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比较基因组学和转录组学洞察力的甲醛降解菌株甲基杆菌属的C1代谢模型。J

降解甲醛的菌株甲基杆菌属。XJLW被分离出来并表现出特殊的甲醛利用表型。当XJLW利用甲醛作为唯一的碳源时，检测到大量的甲酸积累和较低的细胞生长，这表明XJLW具有将甲醛转移到甲醇然后进入丝氨酸循环进行C1代谢的潜在新途径。该机制需要通过分子组学进行探索。因此，对XJLW的完整基因组进行了测序，并基于分别用甲醇和葡萄糖培养的XJLW菌株的RNA-seq数据，分析了转录组差异。XJLW具有染色体DNA和大质粒DNA。染色体DNA上10％的基因在属中是菌株特异性的甲基细菌。转录组分析结果表明，在甲醇中的生长，有623个基因显着上调，而有207个基因显着下调。在上调的基因中，有90个基因属于菌株特异性区域，并密集分布在三个区域。发现一个标注为甲基转移酶的特定基因（A3862_27225）在上调基因的前4名中排名。该甲基转移酶可能在XJLW的特定C1代谢中起作用。甲基杆菌属 XJLW应该通过新的甲基转移酶包含潜在的甲基转运途径，这与已知途径不同。这些发现为进一步提高甲醛降解能力提供了基础。甲基杆菌属 XJLW。