Analysis of the Pantoea ananatis pan-genome reveals factors underlying its ability to colonize and interact with plant, insect and vertebrate hosts.
Analysis of the Pantoea ananatis pan-genome reveals factors underlying its ability to colonize and interact with plant, insect and vertebrate hosts.
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DOI：
10.1186/1471-2164-15-404
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发表时间：
2014-05-27
期刊：
影响因子：
4.4
通讯作者：
Coutinho TA
中科院分区：
文献类型：
--
作者：
De Maayer P;Chan WY;Rubagotti E;Venter SN;Toth IK;Birch PR;Coutinho TA
菠萝泛菌存在于广泛的自然环境中，包括水、土壤、作为各种植物宿主的表生和内生植物群的一部分以及昆虫肠道中。一些菌株已被证明是有效的生物控制剂和植物生长促进剂，而其他菌株则与广泛的植物宿主和人类疾病有关。通过分析从不同来源分离的八种测序的菠萝假单胞菌菌株的泛基因组，我们确定了其在植物和动物界中定殖和与宿主相互作用的潜在因素。8个比较的菠萝假单胞菌菌株的泛基因组由3，876个蛋白编码序列（CDS）组成的核心基因组和1，690个CDS组成的相当大的辅助基因组组成。我们估计，未来每增加一个菠萝斑潜蝇基因组测序，将有约106个独特的CDS被添加到泛基因组中。辅助组分主要来源于整合的前噬菌体，主要编码功能未知的蛋白质。将菠萝假单胞菌泛基因组上翻译的CDS与目前可用的所有测序细菌基因组上编码的蛋白质进行比较，揭示菠萝假单胞菌携带许多CDS，其直系同源物限于与不同宿主相关的细菌，即植物、动物和昆虫相关的细菌。这些CDS编码的蛋白质在碳水化合物和氨基酸底物的运输和代谢、对宿主组织的粘附、对植物和动物防御机制的保护以及潜在致病性决定因子（包括杀虫肽、植物毒素和VI型分泌系统效应物）的生物合成中具有推定的作用。菠萝假单胞菌有一个“开放”的泛基因组，这是细菌物种的典型特征，可以在几个不同的环境中定居。泛基因组整合了大量编码蛋白质的基因，这些蛋白质可能使菠萝疫霉能够在广泛的植物和动物宿主中定殖、持续存在并可能引起疾病症状。本文的在线版本（doi：10.1186/1471-2164-15-404）包含补充材料，可供授权用户使用。
Pantoea ananatis is found in a wide range of natural environments, including water, soil, as part of the epi- and endophytic flora of various plant hosts, and in the insect gut. Some strains have proven effective as biological control agents and plant-growth promoters, while other strains have been implicated in diseases of a broad range of plant hosts and humans. By analysing the pan-genome of eight sequenced P. ananatis strains isolated from different sources we identified factors potentially underlying its ability to colonize and interact with hosts in both the plant and animal Kingdoms. The pan-genome of the eight compared P. ananatis strains consisted of a core genome comprised of 3,876 protein coding sequences (CDSs) and a sizeable accessory genome consisting of 1,690 CDSs. We estimate that ~106 unique CDSs would be added to the pan-genome with each additional P. ananatis genome sequenced in the future. The accessory fraction is derived mainly from integrated prophages and codes mostly for proteins of unknown function. Comparison of the translated CDSs on the P. ananatis pan-genome with the proteins encoded on all sequenced bacterial genomes currently available revealed that P. ananatis carries a number of CDSs with orthologs restricted to bacteria associated with distinct hosts, namely plant-, animal- and insect-associated bacteria. These CDSs encode proteins with putative roles in transport and metabolism of carbohydrate and amino acid substrates, adherence to host tissues, protection against plant and animal defense mechanisms and the biosynthesis of potential pathogenicity determinants including insecticidal peptides, phytotoxins and type VI secretion system effectors. P. ananatis has an ‘open’ pan-genome typical of bacterial species that colonize several different environments. The pan-genome incorporates a large number of genes encoding proteins that may enable P. ananatis to colonize, persist in and potentially cause disease symptoms in a wide range of plant and animal hosts. The online version of this article (doi: 10.1186/1471-2164-15-404) contains supplementary material, which is available to authorized users.
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影响因子：
9.4
作者：
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通讯作者：
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