Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align?
Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align?
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宫颈癌患者肠道微生物组的多样性和组成：16S rRNA测序和全基因组测序方法的结果是否一致？
DOI：
10.1016/j.mimet.2021.106213
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发表时间：
2021-06
影响因子：
2.2
通讯作者：
Colbert, Lauren E.
中科院分区：
文献类型：
--
作者：
Biegert, Greyson;El Alam, Molly B.;Karpinets, Tatiana;Wu, Xiaogang;Sims, Travis T.;Yoshida-Court, Kyoko;Lynn, Erica J.;Yue, Jingyan;Medrano, Andrea Delgado;Petrosino, Joseph;Mezzari, Melissa P.;Ajami, Nadim J.;Solley, Travis;Ahmed-Kaddar, Mustapha;Klopp, Ann H.;Colbert, Lauren E.
下一代测序进展迅速，能够表征基于培养或生化技术之外的微生物群落。 16S 核糖体 RNA 基因测序 (16S) 可以产生可靠的分类学分类和相对丰度，而鸟枪法宏基因组测序 (WMS) 可以以更高的成本实现更高的分类学和功能分辨率。本研究的目的是确定 16S 和 WMS 是否可以通过配对的粪便微生物组样本为我们的患者群体提供一致的信息。 16S 和 WMS 的比较指数高度一致。 16S 和 WMS 数据最丰富的属不重叠。正如预期的那样，在门水平上观察到了重叠。然而，两种方法之间的相对丰度相关性较差（所有 P 值>0.05）。两次测序分析的层次聚类发现了重叠的肠型。两种方法在人口变量方面都是一致的。使用 16S 和 WMS 技术时，多样性、均匀度和丰富度具有可比性，但单个属的相对丰度却不然。与多样性和均匀性指标的临床关联同样通过 WMS 或 16S 来确定。
Next generation sequencing has progressed rapidly, characterizing microbial communities beyond culture-based or biochemical techniques. 16S ribosomal RNA gene sequencing (16S) produces reliable taxonomic classifications and relative abundances, while shotgun metagenome sequencing (WMS) allows higher taxonomic and functional resolution at greater cost. The purpose of this study was to determine if 16S and WMS provide congruent information for our patient population from paired fecal microbiome samples. Comparative indices were highly congruent between 16S and WMS. The most abundant genera for 16S and WMS data did not overlap. Overlap was observed at the Phylum level, as expected. However, relative abundances correlated poorly between the two methodologies (all P-value>0.05). Hierarchical clustering of both sequencing analyses identified overlapping enterotypes. Both approaches were in agreement with regard to demographic variables. Diversity, evenness and richness are comparable when using 16S and WMS techniques, however relative abundances of individual genera are not. Clinical associations with diversity and evenness metrics were similarly identified with WMS or 16S.
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DOI：
10.1016/j.bbrc.2015.12.083
发表时间：
2016-01-22
影响因子：
3.1
作者：
Ranjan R;Rani A;Metwally A;McGee HS;Perkins DL
通讯作者：
Perkins DL
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
48
作者：
Callahan BJ;McMurdie PJ;Rosen MJ;Han AW;Johnson AJ;Holmes SP
通讯作者：
Holmes SP
影响因子：
4.6
作者：
Escobar-Zepeda，Alejandra;Ernestina Godoy-Lozano，Elizabeth;Sanchez-Flores，Alejandro
通讯作者：
Sanchez-Flores，Alejandro
影响因子：
64.8
作者：
Nayfach, Stephen;Shi, Zhou Jason;Kyrpides, Nikos C.
通讯作者：
Kyrpides, Nikos C.