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How much metagenomic sequencing is enough to achieve a given goal?
Ni, Jiajia1,2; Yan, Qingyun1; Yu, Yuhe1; Yu, YH (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
2013-06-11
Source PublicationSCIENTIFIC REPORTS
ISSN2045-2322
Volume3Issue:-
AbstractMetagenomic studies have dramatically expanded our knowledge of the microbial world. Furthermore, the amount of sample for sequencing has significantly increased with the development of high-throughput sequencing technologies. However, fully capturing all DNA sequences carried by every microorganism in the environment is still impossible. Therefore, estimating a reasonable and practical amount for sequencing to achieve the objectives is particularly necessary. In the present study, we introduce a novel method for estimating the required minimum amount for metagenomic sequencing for a given goal. We also calculated the genomic proportion of each operational taxonomic unit and the detection efficiency of a specific gene (we have used SSU rRNA gene as an example) based on a given amount for random metagenomic sequencing. The reasonable and practical estimated amount for sequencing in metagenomic studies will provide good reference information when applying high-throughput sequencing for a given goal.; Metagenomic studies have dramatically expanded our knowledge of the microbial world. Furthermore, the amount of sample for sequencing has significantly increased with the development of high-throughput sequencing technologies. However, fully capturing all DNA sequences carried by every microorganism in the environment is still impossible. Therefore, estimating a reasonable and practical amount for sequencing to achieve the objectives is particularly necessary. In the present study, we introduce a novel method for estimating the required minimum amount for metagenomic sequencing for a given goal. We also calculated the genomic proportion of each operational taxonomic unit and the detection efficiency of a specific gene (we have used SSU rRNA gene as an example) based on a given amount for random metagenomic sequencing. The reasonable and practical estimated amount for sequencing in metagenomic studies will provide good reference information when applying high-throughput sequencing for a given goal.
SubtypeArticle
KeywordMicrobial Diversity Gut Microbiome Deep-sea Biosphere Communities
Department[Ni, Jiajia; Yan, Qingyun; Yu, Yuhe] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China; [Ni, Jiajia] Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China
DOI10.1038/srep01968
WOS HeadingsScience & Technology
Funding OrganizationMajor State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084]
Indexed BySCI
Language英语
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000320130300007
WOS KeywordMICROBIAL DIVERSITY ; GUT MICROBIOME ; DEEP-SEA ; BIOSPHERE ; COMMUNITIES
Funding OrganizationMajor State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084] ; Major State Basic Research Development Program of China [2009CB118705]; National Natural Science Foundation of China [30970358, 31172084]
Citation statistics
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/19556
Collection淡水生态学研究中心_期刊论文
Corresponding AuthorYu, YH (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China
2.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China
Recommended Citation
GB/T 7714
Ni, Jiajia,Yan, Qingyun,Yu, Yuhe,et al. How much metagenomic sequencing is enough to achieve a given goal?[J]. SCIENTIFIC REPORTS,2013,3(-).
APA Ni, Jiajia,Yan, Qingyun,Yu, Yuhe,&Yu, YH .(2013).How much metagenomic sequencing is enough to achieve a given goal?.SCIENTIFIC REPORTS,3(-).
MLA Ni, Jiajia,et al."How much metagenomic sequencing is enough to achieve a given goal?".SCIENTIFIC REPORTS 3.-(2013).
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