第四十二卷(2013)
球蟲感染之土雞盲腸內容物中微生物多源基因體研究
林德育(1)(3) 曾淑貞(2) 黃兆立(3) 黃名邦(3) 王顥筑(3) 蔡銘洋(1) 吳明哲(1) 蔣鎮宇(3)
(1)行政院農業委員會畜產試驗所 (2)中華醫事科技大學 (3)國立成功大學
雞球蟲病是造成養雞產業相當大損失的重要疾病之一。主要是造成雞隻腸道上皮細胞中度至嚴重損壞，導致增重與飼料效率降低，並經常引發雞群高的發病率和死亡率。本試驗應用Illumina MiSeq system 分析球蟲對於土雞盲腸內微生物菌相的影響。DNA樣品取自雞隻盲腸有球蟲感染與沒有受到球蟲感染的盲腸內容物。以16S rRNA共通的引子組與Illumina MiSeq system 定序分析獲得每個樣品組大量的細菌類群的DNA片段定量型材(quantitative profiles)。採用分層聚類和主成分分析已鑑定出的類群的相對百分比豐度。在盲腸沒有球蟲感染的雞隻盲腸內容物的微生物菌相中，以擬桿菌屬(Bacteroides)最豐富，其次分別為牛黄瘤胃球菌屬(Ruminococcus)、Alistipes及梭孢桿菌屬(Clostridium)。而在盲腸有球蟲感染的雞隻盲腸內容物的微生物菌相中，則以Clostridium最豐富，其次分別為Bacteroides及Alistipes。球蟲感染明顯地影響雞隻盲腸與泄殖腔內微生物菌相的分布與豐度。本研究所呈現球蟲感染對雞腸道菌群的影響，可作為雞隻球蟲病防治的重要參考資訊。
關鍵語：土雞、球蟲、微生物、多源基因體、盲腸
THE METAGENOMICS OF MICROBIOME IN CECAL CONTENTS OF COCCIDIAN INFECTED NATIVE CHICKEN
D. Y. Lin(1) (3), S. J. Tzeng (2), C. L. Huang(3), M. B. Huang(3), H. C. Wang(3), M. Y. Tsai(1), M. C. Wu(1) and T. Y. Chiang(3)
(1) Livestock Research Institute(LRI), Council of Agriculture (2) Chung Hwa University of Medical Technology (3) National Cheng Kung University
Coccidiosis, one of the most important chicken diseases, causes considerable economic loss in the chicken industry. Coccidiosis causes serious mucosal damage and predisposes chickens to enteropathogen infection. In this study, Illumina sequencing approach was used to evaluate effects of coccidiosis on the intestinal microflora of native chicken. Total DNA was isolated from the cecal contents of infected and uninfected birds, respectively, PCR amplified with an universal 16S rRNA barcodes, and sequenced by Illumina MiSeq. Quantitative profiles of bacterial taxa were obtained using an analysis pipeline written in Perl. The relative abundance of the identified taxa was analyzed using hierarchical clustering and principal component analysis. Samples from the cecal contents of uninfected chickens were dominated by bacterial species belonging to the genera Bacteroides, Ruminococcus, Alistipes and Clostridium; cecal contents of infected samples were dominated by species from the genera Clostridium, Bacteroides and Alistipes. Coccidia infection affects not only the richness of the microbial communities but also its composition in the cecum. These results prove the coccidia influence on the microbial communities of chicken gut and provide important information for the prevention and cure of chicken coccidiosis.
Key Words: Native chicken, Coccidian, Microbiome, Metagenomics, Cecum
  
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