Lu Jingrang, Domingo Jorge Santo
U.S. Environmental Protection Agency, Office of Research and Development, National Risk Management Research Laboratory, Cincinnati, OH, MS-387, USA.
J Microbiol. 2008 Oct;46(5):469-77. doi: 10.1007/s12275-008-0117-z. Epub 2008 Oct 31.
The primary goal of this study was to better understand the microbial composition and functional genetic diversity associated with turkey fecal communities. To achieve this, 16S rRNA gene and metagenomic clone libraries were sequenced from turkey fecal samples. The analysis of 382 16S rRNA gene sequences showed that the most abundant bacteria were closely related to Lactobacillales (47%), Bacillales (31%), and Clostridiales (11%). Actinomycetales, Enterobacteriales, and Bacteroidales sequences were also identified, but represented a smaller part of the community. The analysis of 379 metagenomic sequences showed that most clones were similar to bacterial protein sequences (58%). Bacteriophage (10%) and avian viruses (3%) sequences were also represented. Of all metagenomic clones potentially encoding for bacterial proteins, most were similar to low G+C Gram-positive bacterial proteins, particularly from Lactobacillales (50%), Bacillales (11%), and Clostridiales (8%). Bioinformatic analyses suggested the presence of genes encoding for membrane proteins, lipoproteins, hydrolases, and functional genes associated with the metabolism of nitrogen and sulfur containing compounds. The results from this study further confirmed the predominance of Firmicutes in the avian gut and highlight the value of coupling 16S rRNA gene and metagenomic sequencing data analysis to study the microbial composition of avian fecal microbial communities.
本研究的主要目标是更好地了解与火鸡粪便群落相关的微生物组成和功能基因多样性。为实现这一目标，对火鸡粪便样本的16S rRNA基因和宏基因组克隆文库进行了测序。对382个16S rRNA基因序列的分析表明，最丰富的细菌与乳杆菌目（47%）、芽孢杆菌目（31%）和梭菌目（11%）密切相关。放线菌目、肠杆菌目和拟杆菌目的序列也被鉴定出来，但在群落中所占比例较小。对379个宏基因组序列的分析表明，大多数克隆与细菌蛋白质序列相似（58%）。噬菌体（10%）和禽病毒（3%）序列也有出现。在所有可能编码细菌蛋白质的宏基因组克隆中，大多数与低G+C革兰氏阳性细菌蛋白质相似，特别是来自乳杆菌目（50%）、芽孢杆菌目（11%）和梭菌目（8%）。生物信息学分析表明存在编码膜蛋白、脂蛋白、水解酶以及与含氮和含硫化合物代谢相关的功能基因。本研究结果进一步证实了厚壁菌门在禽肠道中的优势地位，并突出了将16S rRNA基因和宏基因组测序数据分析相结合以研究禽粪便微生物群落微生物组成的价值。
