LC-MS-Based Metabolomics Study of Marine Bacterial Secondary Metabolite and Antibiotic Production in Salinispora arenicola

An LC-MS-based metabolomics approach was used to characterise the variation in secondary metabolite production due to changes in the salt content of the growth media as well as across different growth periods (incubation times). We used metabolomics as a tool to investigate the production of rifamycins (antibiotics) and other secondary metabolites in the obligate marine actinobacterial species Salinispora arenicola, isolated from Great Barrier Reef (GBR) sponges, at two defined salt concentrations and over three different incubation periods. The results indicated that a 14 day incubation period is optimal for the maximum production of rifamycin B, whereas rifamycin S and W achieve their maximum concentration at 29 days. A “chemical profile” link between the days of incubation and the salt concentration of the growth medium was shown to exist and reliably represents a critical point for selection of growth medium and harvest time.     

重寄生真菌盾壳霉与核盘菌对峙培养的差异代谢物分析

运用基于液相质谱联用技术的代谢组分析手段,检测重寄生真菌盾壳霉和宿主植物病原菌核盘菌对峙培养时的代谢物差异。结果发现:盾壳霉与核盘菌对峙接触能显著诱发盾壳霉代谢物的分泌,构建盾壳霉特定代谢物数据库检测到3种代谢物涉及重寄生过程,分别为Macrosphelide A,Benzenediol和5-Aminopentanoate,且对峙接触2d时检测到的代谢物积累量最大。对盾壳霉重寄生过程代谢物变化的分析结果表明,真菌重寄生能诱发代谢物水平的交流和次级代谢物积累。     

sRNA SaaS对沙门氏菌粘附响应规律和胞外代谢物的影响效应

sRNA SaaS(Salmonella adhesion associated sRNA)是近期在肉品源肠炎沙门氏菌(S.Entertidis NCM 61)中筛选出的一种新型调控因子.本研究通过对比野生株与SaaS缺失突变株的粘附响应规律,分析二者胞外代谢物的差异以揭示sRNA SaaS的具体功能及可能的作用机制....     

基于组学技术探究甜菜耐盐机理研究进展

为揭示甜菜盐胁迫下的分子响应机制,利用组学技术发现并鉴定关键基因及蛋白,迅速给予甜菜耐盐机理新的依据。本研究综述了转录组学、蛋白质组学、代谢组学、基因组学在甜菜耐盐机理中的研究进展。目前研究指出转录组学、蛋白质组学可筛选出甜菜耐盐关键候选基因,如BvM14-SAMS2、BvM14-glyoxalase I、BvNHX等,并利用基因组学对所发现基因进行验证。同时,探讨代谢组学在甜菜盐胁迫研究中的应用,以期通过代谢产物的定量与定性测量评估基因功能,为甜菜盐胁迫相关研究提供新信息与新思路。下一步应不断深化各组学技术间的融合,强化多学科交叉融合意识并积极创新,以发掘更多优质的甜菜耐盐遗传种质资源与基因资源。     

γ-氨基丁酸和2-乙酰-1-吡咯啉代谢通路在水稻籽粒发育过程中的变化分析

【目的】结合代谢组和转录组技术,分析香稻和非香稻不同发育时期籽粒中γ-氨基丁酸（GABA）和2-乙酰-1-吡咯啉（2AP）代谢通路主要化合物和基因的动态变化,为高含量GABA和2AP的水稻育种提供理论依据。【方法】本研究收集优质香籼稻美香占2号和优质籼稻黄华占花后8 d（乳熟期）、花后15 d（蜡熟期）、30 d（完熟期）的脱壳籽粒和花后40 d收获的籽粒的精米,对各样本采用LC-MS/MS和RNA-seq技术进行代谢产物检测和转录表达分析,分析两个水稻品种GABA和2AP代谢通路相关化合物的空间分布以及含量变化特征。【结果】代谢组数据PCA分析表明两个水稻品种乳熟期籽粒和花后40 d收获的籽粒的精米明显分离,蜡熟期和完熟期籽粒分离不明显。代谢组共鉴定出623种代谢物,四个时期差异代谢物合计161个。GABA和2AP通路中9个代谢物被检出,两个水稻品种的相关代谢物变化趋势相似,其中腐胺主要定位于籽粒的糊粉层,而亚精胺在内胚乳特异累积。转录组共检出3.3万个左右基因,其中检出GABA通路18个酶中的14个酶对应的基因有较高的表达水平,除Badh2外其他基因均不是差异表达基因,同一基因在两份水稻材料中的表达水平和变化趋势相似,GAD1、GABA-T1、DAO4和PAO4在相应同源基因中表达水平较高。黄华占籽粒中L-精氨酸和腐胺的代谢在蜡熟期已基本结束,美香占2号在籽粒整个发育期具有持续较强的多胺降解水平。美香占2号籽粒具有合成2AP的物质基础,多胺降解途径和谷氨酸-脯氨酸转化通路同时有助于2AP的积累。【结论】水稻籽粒GABA代谢以降解为主,GABA-T1和GABA-T2共同调控GABA的降解。GABA相关代谢物主要集中在糊粉层,黄华占籽粒中代谢物分布和基因表达特征与美香占2号相似,美香占2号籽粒成熟过程中具有持续较高的线粒体活性。     

Integrated Omics Strategy Reveals Cyclic Lipopeptides Empedopeptins from Massilia sp. YMA4 and Their Biosynthetic Pathway

Empedopeptins—eight amino acid cyclic lipopeptides—are calcium-dependent antibiotics that act against Gram-positive bacteria such as Staphylococcus aureus by inhibiting cell wall biosynthesis. However, to date, the biosynthetic mechanism of the empedopeptins has not been well identified. Through comparative genomics and metabolomics analysis, we identified empedopeptin and its new analogs from a marine bacterium, Massilia sp. YMA4. We then unveiled the empedopeptin biosynthetic gene cluster. The core nonribosomal peptide gene null-mutant strains (ΔempC, ΔempD, and ΔempE) could not produce empedopeptin, while dioxygenase gene null-mutant strains (ΔempA and ΔempB) produced several unique empedopeptin analogs. However, the antibiotic activity of ΔempA and ΔempB was significantly reduced compared with the wild-type, demonstrating that the hydroxylated amino acid residues of empedopeptin and its analogs are important to their antibiotic activity. Furthermore, we found seven bacterial strains that could produce empedopeptin-like cyclic lipopeptides using a genome mining approach. In summary, this study demonstrated that an integrated omics strategy can facilitate the discovery of potential bioactive metabolites from microbial sources without further isolation and purification.     

Implication of metabolomic profiles to wide thermoneutral zone in Mongolian gerbils (Meriones unguiculatus)

Mongolian gerbils (Meriones unguiculatus) have evolved a wide thermoneutral zone (26.5–38.9 °C) and high upper critical temperature, and appear to have a high tolerance for heat exposure. Here, we use a metabolomic approach to measure global metabolite profiles for gerbils between lower (27 °C) and upper critical temperatures (38 °C) to investigate the role of metabolomic characterization in maintaining basal metabolic rates within a wide thermoneutral zone. We found that in serum and liver, 14 and 19 metabolites were significantly altered, respectively. In the aerobic respiration‐related tricarboxylic cycle (TCA), 5 intermediates (isocitric acid, cis‐aconitic acid, α‐ketoglutaric acid, fumaric acid and malic acid) were increased in serum in 38 °C animals; however, no such increase was found in the liver. A stable level of hepatic TCA cycle intermediates may be related to the steady state of aerobic respiration at 38 °C. Metabolomic results also revealed that acute heat exposure caused increased oxidative stress and low molecular weight antioxidants in Mongolian gerbils. Increased methionine and 2‐hydroxybutyrate suggest an accelerated synthesis of glutathione. Increased urate and its precursors, inosine and hypoxanthine, were detected at 38 °C. Glucuronate, threonate and oxalate involved in ascorbate synthesis and degradation were increased in serum at 38 °C. In conclusion, although dramatic metabolomic variation was found, a stable hepatic TCA cycle may contribute to maintaining a constant basal metabolic rate within a wide thermoneutral zone in Mongolian gerbils.