Defining the core Arabidopsis thaliana root microbiome.
Defining the core Arabidopsis thaliana root microbiome.
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DOI：
10.1038/nature11237
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发表时间：
2012-08-02
期刊：
影响因子：
64.8
通讯作者：
Dangl, Jeffery L.
中科院分区：
文献类型：
--
作者：
Lundberg, Derek S.;Lebeis, Sarah L.;Paredes, Sur Herrera;Yourstone, Scott;Gehring, Jase;Malfatti, Stephanie;Tremblay, Julien;Engelbrektson, Anna;Kunin, Victor;del Rio, Tijana Glavina;Edgar, Robert C.;Eickhorst, Thilo;Ley, Ruth E.;Hugenholtz, Philip;Tringe, Susannah Green;Dangl, Jeffery L.
陆地植物与根部微生物区系相联系，与周围土壤中存在的复杂微生物群落截然不同。在热圈(紧邻根部周围)和内生室(根部内)定居的微生物群有助于植物的生长、生产力、固碳和植物修复。尽管有复杂的植物免疫系统，根的定殖化还是发生了，这表明对共生体和共生体与病原体的区分是微妙的。从土壤群落中衍生出寄主特有的内生菌群落的遗传学原理知之甚少。在这里，我们报道了600多株拟南芥植物的细菌16S核糖体RNA基因的焦磷酸测序，以检验这样的假设：在自然土壤中生长的植物的根际和内生室微生物区系充分依赖于寄主，从而在不同的土壤类型和发育阶段保持一致，并且充分依赖于寄主的基因，从而在不同的近交系拟南芥材料之间存在差异。我们描述了两种不同地化性质的散装土壤中的不同细菌群落，以及由在这些土壤中生长的根制备的根际和内生室中的不同细菌群落。土壤类型对各小班群落的影响较大。来自两种土壤的内生隔间具有重叠的、低复杂性的群落，显著富含放线菌和来自其他门的特定家族，特别是变形杆菌。一些细菌在不同发育阶段和不同基因型的植物之间存在数量上的差异。我们对内生微生物群落的严格定义应该有助于对来自复杂土壤群落的植物微生物相互作用进行受控剖析。
Land plants associate with a root microbiota distinct from the complex microbial community present in surrounding soil. The microbiota colonizing therhizosphere(immediately surroundingthe root) and the endophytic compartment (within the root) contribute to plant growth, productivity, carbon sequestration and phytoremediation. Colonization of the root occurs despite a sophisticated plant immune system, suggesting finely tuned discrimination of mutualists and commensals from pathogens. Genetic principles governing the derivation of host-specific endophyte communities from soil communities are poorly understood. Here we report the pyrosequencing of the bacterial 16S ribosomal RNA gene of more than 600 Arabidopsis thaliana plants to test the hypotheses that the root rhizosphere and endophytic compartment microbiota of plants grown under controlled conditions in natural soils are sufficiently dependent on the host to remain consistent across different soil types and developmental stages, and sufficiently dependent on host genotype to vary between inbred Arabidopsis accessions. We describe different bacterial communities in two geochemically distinct bulk soils and in rhizosphere and endophytic compartments prepared from roots grown in these soils. The communities in each compartment are strongly influenced by soil type. Endophytic compartments from both soils feature overlapping, low-complexity communities that are markedly enriched in Actinobacteria and specific families from other phyla, notably Proteobacteria. Some bacteria vary quantitatively between plants of different developmental stage and genotype. Our rigorous definition of an endophytic compartment microbiome should facilitate controlled dissection of plantmicrobe interactions derived from complex soil communities.
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