Yang Xiuqing, Xi Jingwen
Wei Sheng Wu Xue Bao. 2015 Jul 4;55(7):851-62.
Studying transcriptional characteristics of Rhodococcus sp. R04 is to find the genes that participate in the transportation, metabolism and regulation of polychlorinated biphenyls (PCBs), and disclose the molecular mechanism of biodegradation of PCBs.
Strain R04 was separately cultivated on ethanol, glucose and biphenyl. The total RNA of the above different cultures was extracted, and the cDNA was obtained by reverse transcription and determined by high-throughput sequencing. The data obtained by sequencing were analyzed to find the correlation among the PCBs metabolic network, gene transcription regulation and metabolic response.
The sequencing results showed that 375 genes were up-regulated during grown on biphenyl, relative to growth on glucose, and 332 genes were up-regulated, relative to growth on ethanol. Those genes were found to participate in multiple biological processes of biphenyl metabolite. Among the genes relative to biphenyl/PCBs degradation, the genes located on the gene cluster in the upper biphenyl pathway were significantly up-regulated, while bphC4 and bphD2 were up-regulated slightly. By contrast, the other genes encoding BphC and BphD isozymes in the biphenyl pathway were down-regulated even if growth on biphenyl.
Transcriptomic analysis suggested that benzoate was degraded via ortho cleavage pathway, meta cleavage pathway or protocatechuic acid pathway, which provide more valuable data for us to reveal the characteristics and regulation of downstream metabolic pathways of biphenyl and PCBs.
研究红球菌属R04菌株的转录特征，以寻找参与多氯联苯（PCBs）运输、代谢和调控的基因，并揭示PCBs生物降解的分子机制。
将菌株R04分别在乙醇、葡萄糖和联苯上培养。提取上述不同培养物的总RNA，通过反转录获得cDNA并进行高通量测序。对测序获得的数据进行分析，以发现PCBs代谢网络、基因转录调控和代谢反应之间的相关性。
测序结果表明，相对于在葡萄糖上生长，在联苯上生长期间有375个基因上调，相对于在乙醇上生长有332个基因上调。发现这些基因参与联苯代谢物的多个生物学过程。在与联苯/PCBs降解相关的基因中，位于联苯上游途径基因簇上的基因显著上调，而bphC4和bphD2略有上调。相比之下，联苯途径中其他编码BphC和BphD同工酶的基因即使在联苯上生长也下调。
转录组分析表明，苯甲酸通过邻位裂解途径、间位裂解途径或原儿茶酸途径降解，这为我们揭示联苯和PCBs下游代谢途径的特征和调控提供了更有价值的数据。
