Diversity of the bacterial community in the rice rhizosphere managed under conventional and no-tillage practices

被引:23
作者
Aslam, Zubair [1 ,2 ]
Yasir, Muhammad [3 ]
Yoon, Hwan Sik [1 ]
Jeon, Che Ok [4 ]
Chung, Young Ryun [1 ]
机构
[1] Gyeongsang Natl Univ, Plant Mol Biol & Biotechnol Res Ctr, Div Appl Life Sci BK 21, Jinju 660701, South Korea
[2] Univ Agr Faisalabad, Dept Agron, Faisalabad 38040, Pakistan
[3] King Abdulaziz Univ, King Fahd Med Res Ctr, Jeddah 21589, Saudi Arabia
[4] Chung Ang Univ, Res Ctr Biomol & Biosyst, Sch Biol Sci, Seoul 156756, South Korea
关键词
rice; no-tillage; diversity; phylogeny; actinobacteria; 16S RIBOSOMAL-RNA; MICROBIAL COMMUNITIES; CLASS ACTINOBACTERIA; ORGANIC-MATTER; SOIL TYPE; IDENTIFICATION; DATABASE; PRIMERS; GENE;
D O I
10.1007/s12275-013-2528-8
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Bacterial diversity in the rice rhizosphere at different rice growth stages, managed under conventional and no-tillage practices, was explored using a culture-based approach. Actinobacteria are among the bacterial phyla abundant in the rice rhizosphere. Their diversity was further examined by constructing metagenomic libraries based on the 16S rRNA gene, using actinobacterial- and streptomycete-specific polymerase chain reaction (PCR) primers. The study included 132 culturable strains and 125 clones from the 16S rRNA gene libraries. In conventional tillage, there were 38% Proteobacteria, 22% Actinobacteria, 33% Firmicutes, 5% Bacteroidetes, and 2% Acidobacteria, whereas with no-tillage management there were 63% Proteobacteria, 24% Actinobacteria, 6% Firmicutes, and 8% Bacteroidetes as estimated using the culture-dependent method during the four stages of rice cultivation. Principal coordinates analysis was used to cluster the bacterial communities along axes of maximal variance. The different growth stages of rice appeared to influence the rhizosphere bacterial profile for both cultivation practices. Novel clones with low similarities (89-97%) to Actinobacteria and Streptomyces were retrieved from both rice fields by screening the 16S rRNA gene libraries using actinobacterial- and streptomycete-specific primers. By comparing the actinobacterial community retrieved by culture-dependent and molecular methods, it was clear that a more comprehensive assessment of microbial diversity in the rice rhizosphere can be obtained using a combination of both techniques than by using either method alone. We also succeeded in culturing a number of bacteria that were previously described as unculturable. These were in a phylogenetically deep lineage when compared with related cultivable genera.
引用
收藏
页码:747 / 756
页数:10
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