Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos

doi:10.1186/s13568-018-0713-1

	Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos
	Wang, Fan 1,2; Men, Xiao 1,2; Zhang, Ge 1,2; Liang, Kaichao 3; Xin, Yuhua 3; Wang, Juan 3; Li, Aijun 3; Zhang, Haibo 1,2; Liu, Haobao 3,4; Wu, Lijun 5
刊名	AMB EXPRESS
	2018-11-10
卷号	8 页码:9
关键词	Microbial community diversity 16S rRNA gene sequencing Optimal primer sets Aging flue-cured tobaccos PICRUSt Functional profiling prediction
ISSN号	2191-0855
DOI	10.1186/s13568-018-0713-1
英文摘要	Selection of optimal primer pairs in 16S rRNA gene sequencing is a pivotal issue in microorganism diversity analysis. However, limited effort has been put into investigation of specific primer sets for analysis of the bacterial diversity of aging flue-cured tobaccos (AFTs), as well as prediction of the function of the bacterial community. In this study, the performance of four primer pairs in determining bacterial community structure based on 16S rRNA gene sequences in AFTs was assessed, and the functions of genes were predicted using Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt). Results revealed that the primer set 799F-1193R covering the amplification region V5V6V7 gave a more accurate picture of the bacterial community structure of AFTs, with lower co-amplification levels of chloroplast and mitochondrial genes, and more genera covered than when using the other primers. In addition, functional gene prediction suggested that the microbiome of AFTs was involved in kinds of interested pathways. A high abundance of functional genes involved in nitrogen metabolism was detected in AFTs, reflecting a high level of bacteria involved in degrading harmful nitrogen compounds and generating nitrogenous nutrients for others. Additionally, the functional genes involved in biosynthesis of valuable metabolites and degradation of toxic compounds provided information that the AFTs possess a huge library of microorganisms and genes that could be applied to further studies. All of these findings provide a significance reference for researchers working on the bacterial diversity assessment of tobacco-related samples.
资助项目	Hainan's Key Project of Research and Development Plan[ZDYF2017155] ; Yunnan Academy of Tobacco Sciences Project[2017CP01] ; Youth Innovation Promotion Association CAS[2017252]
WOS关键词	MICROBIAL COMMUNITIES ; DIVERSITY ; MICROORGANISMS ; CHARACTERIZE ; CULTURE ; MAIZE ; PEA
WOS研究方向	Biotechnology & Applied Microbiology
语种	英语
出版者	SPRINGEROPEN
WOS记录号	WOS:000449927700001
资助机构	Hainan's Key Project of Research and Development Plan ; Yunnan Academy of Tobacco Sciences Project ; Youth Innovation Promotion Association CAS
内容类型	期刊论文
源URL	[http://ir.qibebt.ac.cn/handle/337004/11013]
专题	中国科学院青岛生物能源与过程研究所
通讯作者	Zhang, Haibo; Liu, Haobao; Wu, Lijun
作者单位	1.Chinese Acad Sci, Qingdao Inst Bioenergy & Bioproc Technol, CAS Key Lab Biobased Mat, Qingdao 266101, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 3.China Natl Tobacco Corp, Hainan Prov Branch, Hainan Cigar Res Inst, Haikou 571100, Hainan, Peoples R China 4.Chinese Acad Agr Sci, Tobacco Res Inst, Qingdao 266101, Shandong, Peoples R China 5.Yunnan Acad Tobacco Sci, Kunming 650106, Yunnan, Peoples R China
推荐引用方式 GB/T 7714	Wang, Fan,Men, Xiao,Zhang, Ge,et al. Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos[J]. AMB EXPRESS,2018,8:9.
APA	Wang, Fan.,Men, Xiao.,Zhang, Ge.,Liang, Kaichao.,Xin, Yuhua.,...&Wu, Lijun.(2018).Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos.AMB EXPRESS,8,9.
MLA	Wang, Fan,et al."Assessment of 16S rRNA gene primers for studying bacterial community structure and function of aging flue-cured tobaccos".AMB EXPRESS 8(2018):9.