Formate cross-feeding and cooperative metabolic interactions revealed by transcriptomics in co-cultures of acetogenic and amylolytic human colonic bacteria.
Formate cross-feeding and cooperative metabolic interactions revealed by transcriptomics in co-cultures of acetogenic and amylolytic human colonic bacteria.
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DOI：
10.1111/1462-2920.14454
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发表时间：
2019-01
影响因子：
5.1
通讯作者：
Flint HJ
中科院分区：
文献类型：
--
作者：
Laverde Gomez JA;Mukhopadhya I;Duncan SH;Louis P;Shaw S;Collie-Duguid E;Crost E;Juge N;Flint HJ
种间交叉喂养是厌氧微生物群落的一个基本因素。在人类结肠中，甲酸盐由许多细菌物种产生，但通常仅在低浓度下检测到。溴瘤胃球菌在RUM-RS培养基上以0.2% Novelose抗性淀粉（RS3）作为能源的纯培养物中以近似相等的摩尔比例产生甲酸盐、乙醇和乙酸盐。然而，在淀粉上与产乙酸菌氢营养布劳特氏菌的分批共培养导致甲酸盐的消失和乙酸盐水平的增加，提出这是通过经由B的Wood Ljungdahl途径的甲酸盐的路由而发生的。氢营养的我们进一步使用RNAseq研究了这些种间相互作用，以检查R.溴和B。氢营养的转录组分析显示B上调。在一些实施方案中，共培养物包含参与Wood-Ljungdahl途径的氢营养型基因和负责共培养物中增加的支链氨基酸发酵的10个基因簇。产甲酸菌和产乙酸菌之间的交叉喂养可能是结肠中短链脂肪酸形成的重要因素，导致乙酸盐产生率较高。转录组分析还表明，竞争维生素硫胺素和下调异化硫酸盐还原和关键氧化还原蛋白在R。溴在共培养物中，从而证明了在这个模型系统中物种间相互作用的广泛后果。
Interspecies cross‐feeding is a fundamental factor in anaerobic microbial communities. In the human colon, formate is produced by many bacterial species but is normally detected only at low concentrations. Ruminococcus bromii produces formate, ethanol and acetate in approximately equal molar proportions in pure culture on RUM‐RS medium with 0.2% Novelose resistant starch (RS3) as energy source. Batch co‐culturing on starch with the acetogen Blautia hydrogenotrophica however led to the disappearance of formate and increased levels of acetate, which is proposed to occur through the routing of formate via the Wood Ljungdahl pathway of B. hydrogenotrophica. We investigated these inter‐species interactions further using RNAseq to examine gene expression in continuous co‐cultures of R. bromii and B. hydrogenotrophica. Transcriptome analysis revealed upregulation of B. hydrogenotrophica genes involved in the Wood‐Ljungdahl pathway and of a 10 gene cluster responsible for increased branched chain amino acid fermentation in the co‐cultures. Cross‐feeding between formate‐producing species and acetogens may be a significant factor in short chain fatty acid formation in the colon contributing to high rates of acetate production. Transcriptome analysis also indicated competition for the vitamin thiamine and downregulation of dissimilatory sulfate reduction and key redox proteins in R. bromii in the co‐cultures, thus demonstrating the wide‐ranging consequences of inter‐species interactions in this model system.
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DOI：
10.1093/bioinformatics/btu638
发表时间：
2015-01-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Anders S;Pyl PT;Huber W
通讯作者：
Huber W
影响因子：
5.1
作者：
Kettle, Helen;Louis, Petra;Flint, Harry J.
通讯作者：
Flint, Harry J.
影响因子：
1.9
作者：
RASMUSSEN, HS;HOLTUG, K;MORTENSEN, PB
通讯作者：
MORTENSEN, PB
影响因子：
6.4
作者：
Costliow, Zachary A.;Degnan, Patrick H.
通讯作者：
Degnan, Patrick H.
影响因子：
2.1
作者：
Chassard, C;Bernalier-Donadille, A
通讯作者：
Bernalier-Donadille, A