Julius Kühn-Institut, Federal Research Centre for Cultivated Plants (JKI), Institute for Epidemiology and Pathogen Diagnostics, Braunschweig, Germany.
FEMS Microbiol Ecol. 2011 Mar;75(3):497-506. doi: 10.1111/j.1574-6941.2010.01025.x. Epub 2011 Jan 11.
The phylogenetic composition of bacterial communities in the rhizosphere of three potato cultivars grown at two distant field sites was analysed. Ribosomal gene fragments amplified from total community DNA were hybridized to PhyloChips. A total of 2432 operational taxonomic units (OTUs) were detected by the PhyloChips, of which 65% were found in the rhizosphere of all cultivars at both field sites. From all detected OTUs, 9% revealed a cultivar-dependent abundance at the one or the other field site and 4% at both sites. Differential abundance on the three cultivars was mainly observed for OTUs belonging to the Pseudomonadales, Actinomycetales and Enterobacteriales. More than 40% of OTUs belonging to Bradyrhizobiales, Sphingomonadales, Burkholderiales, Rhodocyclales, Xanthomonadales and Actinomycetales differed significantly in their abundance between the sites. A sequence analysis of six 16S rRNA gene clone libraries corresponded well with the taxonomic community structure evidenced by the PhyloChip hybridization. Most ribotypes matched OTUs detected by the PhyloChip. Those OTUs that responded to the potato cultivar at both field sites might be of interest in view of cultivar-specific effects on bacterial biocontrol strains and pathogens.
分析了在两个不同田间地点种植的三个马铃薯品种的根际细菌群落的系统发育组成。从总群落 DNA 扩增的核糖体基因片段与 PhyloChips 杂交。PhyloChips 共检测到 2432 个操作分类单元 (OTU)，其中 65%存在于两个田间地点所有品种的根际。在所有检测到的 OTU 中，有 9%在一个或另一个田间地点表现出与品种相关的丰度，有 4%在两个地点均表现出与品种相关的丰度。在假单胞菌目、放线菌目和肠杆菌目，主要观察到对三个品种的丰度有差异的 OTU。属于慢生根瘤菌目、鞘氨醇单胞菌目、伯克霍尔德氏菌目、红环菌目、黄单胞菌目和放线菌目的 OTU 中，有超过 40%的 OTU 在两个地点的丰度差异显著。对六个 16S rRNA 基因克隆文库的序列分析与 PhyloChip 杂交所证明的分类群落结构非常吻合。大多数核糖体型与 PhyloChip 检测到的 OTU 相匹配。那些在两个田间地点都对马铃薯品种有响应的 OTU 可能与品种对细菌生物防治菌株和病原体的特异性影响有关。
