Bacteria community analysis of compost by denaturing gradient gel electrophoresis (DGGE) method

Ngo Duc Duy, Dao Thi Thu Hien, Hoang Quoc Khanh, Nguyen Thi Tuong Vi, Pedro Mannix, Chihaya Yamada, Kouji Yoshida, Yasuo Igarashi


In this study, we used DGGE technique to analyze the existence of microbial community of compost. From ten samples extracted, isolated genomic and amplify 16SrDNA region by 27F and 907R primer. And then choice No.6 for analysis by DGGE method with primers (517F-GC, 357R and 517F, 357R) had result nine sequences of V3 region follow as: 6a1, 6a2, 6a3, 6a4, 6d1, 6d2, 6d3, 6e1 and 6e2. The analysis and compared with is database onto GeneBank for sequence similarities follow with Accession number: 6a1, 6a2 similarities 99% with JF987387.1 and JF828759.1, JF 989848.1 similarities 93% with 6a4 and 88% 6a3, 6d1 similarities 82% with AB206012.1, 6d2 similarities 95% JF429206.1, 6d3 similarities 86% with FN781411.1, 6e1 similarities with 99%JF176784.1 and FJ516783.1 similarities 87% with 6e2.


DGGE, PCR, phylogenetic tree, V3 region, 16S rDNA

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