Characterization of the first cultured free-living representative of Candidatus Izemoplasma uncovers its unique biology.
Characterization of the first cultured free-living representative of Candidatus Izemoplasma uncovers its unique biology.
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对第一个培养的自由生活的念珠菌代表的特征揭示了它独特的生物学特性。
DOI：
10.1038/s41396-021-00961-7
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发表时间：
2021-09
期刊：
影响因子：
--
通讯作者：
Sun C
中科院分区：
文献类型：
--
作者：
Zheng R;Liu R;Shan Y;Cai R;Liu G;Sun C
假丝酵母菌Izemodium是从Firmicuts到Mollicuts的还原进化的中间产物，被认为是Tenericuts门中一类新的自由生活的无壁细菌。不幸的是，纯培养的匮乏限制了人们对它们的生理和代谢特征以及生态作用的进一步了解。在这里，我们报告了第一次成功地从深海甲烷渗漏中分离出一株具有代表性的Izemodium，菌株zrk13，利用DNA降解驱动的方法，考虑到Izemodium突出的DNA降解潜力。我们进一步对新菌株的生理、基因组和代谢特性进行了详细的描述，这首次允许重建暂定的念珠菌Izemodium成员的代谢潜力和生活方式。在对菌株zrk13进行描述的基础上，提出了新种和新属--仙福鱼冷饮原虫属。利用生化和转录学相结合的方法，进一步证明添加有机质、硫代硫酸盐或细菌基因组DNA对菌株Zrk13的生长有明显的促进作用。特别是，菌株zrk13可以降解和利用胞外DNA在实验室和深海条件下生长。此外，预测的决定DNA降解的基因广泛分布在其他Izemodium成员的基因组中。鉴于胞外DNA对海底微生物来说是一种特别重要的磷以及氮和碳源，丝状支原体细菌被认为是深海生物地球化学循环的重要贡献者。
Candidatus Izemoplasma, an intermediate in the reductive evolution from Firmicutes to Mollicutes, was proposed to represent a novel class of free-living wall-less bacteria within the phylum Tenericutes. Unfortunately, the paucity of pure cultures has limited further insights into their physiological and metabolic features as well as ecological roles. Here, we report the first successful isolation of an Izemoplasma representative from the deep-sea methane seep, strain zrk13, using a DNA degradation-driven method given Izemoplasma’s prominent DNA-degradation potentials. We further present a detailed description of the physiological, genomic and metabolic traits of the novel strain, which allows for the first time the reconstruction of the metabolic potential and lifestyle of a member of the tentatively defined Candidatus Izemoplasma. On the basis of the description of strain zrk13, the novel species and genus Xianfuyuplasma coldseepsis is proposed. Using a combined biochemical and transcriptomic method, we further show the supplement of organic matter, thiosulfate or bacterial genomic DNA could evidently promote the growth of strain zrk13. In particular, strain zrk13 could degrade and utilize the extracellular DNA for growth in both laboraterial and deep-sea conditions. Moreover, the predicted genes determining DNA-degradation broadly distribute in the genomes of other Izemoplasma members. Given that extracellular DNA is a particularly crucial phosphorus as well as nitrogen and carbon source for microorganisms in the seafloor, Izemoplasma bacteria are thought to be important contributors to the biogeochemical cycling in the deep ocean.
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影响因子：
2.9
作者：
Gao, Huanyao;Subramanian, Sowmya;Johnson, Michael K.
通讯作者：
Johnson, Michael K.
影响因子：
64.8
作者：
Efremov, Rouslan G.;Sazanov, Leonid A.
通讯作者：
Sazanov, Leonid A.
DOI：
10.1099/00207713-47-4-1013
发表时间：
1997-10-01
期刊：
INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY
影响因子：
--
作者：
Fardeau, ML;Ollivier, B;Garcia, JL
通讯作者：
Garcia, JL
Soapnuke：MAPREDUCE加速支持的软件，用于集成质量控制和预处理高通量测序数据。
影响因子：
9.2
作者：
Chen Y;Chen Y;Shi C;Huang Z;Zhang Y;Li S;Li Y;Ye J;Yu C;Li Z;Zhang X;Wang J;Yang H;Fang L;Chen Q
通讯作者：
Chen Q
DOI：
10.1016/s0967-0637(98)00101-0
发表时间：
1999-06-01
影响因子：
2.4
作者：
Danovaro, R;Dell'anno, A;Fabiano, M
通讯作者：
Fabiano, M