Assessing soil bacterial community and dynamics by integrated high-throughput absolute abundance quantification.
Assessing soil bacterial community and dynamics by integrated high-throughput absolute abundance quantification.
复制标题
通过集成高通量绝对丰度定量评估土壤细菌群落和动态
作者：
Lou J;Yang L;Wang H;Wu L;Xu J
高通量测序技术以其爆炸性的分类学和相对丰度信息，极大地推动了微生物生态学研究的发展。然而，相对丰度并不能反映微生物群落的数量和类群之间的样品间差异。在这项研究中，我们完善和应用集成的高通量绝对丰度定量（iHAAQ）方法，以更好地表征土壤定量细菌群落，通过结合相对丰度（通过高通量测序）和细菌总量（通过定量PCR）。采用内参菌株EDL 933和实验室菌株WG 5对拟定的iHAAQ方法进行了验证。将iHAAQ法应用于土壤中菲的生物降解研究，结果表明，某些细菌类群的相对丰度和绝对丰度的变化是一致的，而另一些则相反。随着微生物活性抑制剂（NaN3）的加入，土壤细菌类群的绝对丰度，包括芽孢杆菌属，黄杆菌属，类芽孢杆菌属的几个优势属，显着下降，但它们的相对丰度增加后，培养28天。iHAAQ方法可以提供更全面的信息，以反映土壤细菌群落的动态与相对和绝对丰度比相对丰度从高通量测序单独。
Microbial ecological studies have been remarkably promoted by the high-throughput sequencing approach with explosive information of taxonomy and relative abundance. However, relative abundance does not reflect the quantity of the microbial community and the inter-sample differences among taxa. In this study, we refined and applied an integrated high-throughput absolute abundance quantification (iHAAQ) method to better characterize soil quantitative bacterial community through combining the relative abundance (by high-throughput sequencing) and total bacterial quantities (by quantitative PCR). The proposed iHAAQ method was validated by an internal reference strain EDL933 and a laboratory strain WG5. Application of the iHAAQ method to a soil phenanthrene biodegradation study showed that for some bacterial taxa, the changes of relative and absolute abundances were coincident, while for others the changes were opposite. With the addition of a microbial activity inhibitor (NaN3), the absolute abundances of soil bacterial taxa, including several dominant genera of Bacillus, Flavobacterium, and Paenibacillus, decreased significantly, but their relative abundances increased after 28 days of incubation. We conclude that the iHAAQ method can offer more comprehensive information to reflect the dynamics of soil bacterial community with both relative and absolute abundances than the relative abundance from high-throughput sequencing alone.
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传统的甲烷氧化菌是造成稻田土壤中大气甲烷氧化的原因
影响因子：
16.6
作者：
Cai Y;Zheng Y;Bodelier PL;Conrad R;Jia Z
通讯作者：
Jia Z
影响因子：
5.2
作者：
Kleyer H;Tecon R;Or D
通讯作者：
Or D
DOI：
10.1038/ismej.2012.8
发表时间：
2012-08
期刊：
The ISME journal
影响因子：
--
作者：
通讯作者：
--
Massilia sp WG5（一种来自土壤的高效菲降解细菌）的完整基因组序列
影响因子：
4.1
作者：
Lou, Jun;Gu, Haiping;Xu, Jianming
通讯作者：
Xu, Jianming
影响因子：
5
作者：
Dannemiller, Karen C.;Lang-Yona, Naama;Peccia, Jordan
通讯作者：
Peccia, Jordan