Supporting data for "Taxonomic structure and functional association of foxtail millet root microbiome"

Dataset type: Metagenomic
Data released on September 11, 2017

Jin T; Wang Y; Huang Y; Xu J; Zhang P; Wang N; Liu X; Chu H; Liu G; Jiang H; Li Y; Xu J; Kristiansen K; Xiao L; Zhang Y; Zhang G; Du G; Zhang H; Zou H; Zhang H; Jie Z; Liang S; Jia H; Wan J; Lin D; Li J; Fan G; Yang H; Wang J; Bai Y; Xu X (2017): Supporting data for "Taxonomic structure and functional association of foxtail millet root microbiome" GigaScience Database. http://dx.doi.org/10.5524/100342

DOI10.5524/100342

The root microbes play pivotal roles in plant productivity, nutrient uptakes and disease resistance. The root microbial community structure has been extensively investigated by 16S/18S/ITS amplicons and metagenomic sequencing in crops and model plants. However, the functional associations between root microbes and host plant growth are poorly understood. This work investigates the root bacterial community of foxtail millet (Setaria italica) and its potential effects on host plant productivity.
We determined the bacterial composition of 2,882 samples from foxtail millet rhizoplane, rhizosphere and corresponding bulk soils from two well-separated geographic locations by 16S rRNA gene amplicon sequencing. We identified 16,109 OTUs, and defined 187 OTUs as shared rhizoplane core OTUs. The β-diversity analysis revealed that microhabitat was the major factor shaping foxtail millet root bacterial community, followed by geographic locations. Large-scale association analysis identified the potential beneficial bacteria correlated with plant high productivity. Besides, the functional prediction revealed specific pathways enriched in foxtail millet rhizoplane bacterial community.

Keywords:

Additional details

Read the peer-reviewed publication(s):

Jin, T., Wang, Y., Huang, Y., Xu, J., Zhang, P., Wang, N., … Xu, X. (2017). Taxonomic structure and functional association of foxtail millet root microbiome. GigaScience, 6(10), 1–12. doi:10.1093/gigascience/gix089

Accessions (data included in GigaDB):

ENA: PRJEB16061





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
ZJK.RS.913410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):40.60...
...
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ZJK.RS.941410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):40.60...
...
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Displaying 2881-2882 of 2882 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
TextTEXT15.26 MB2017-08-23
Tabular DataUNKNOWN-0 KB2017-08-23
TextTEXT2.7 KB2017-08-23
ReadmeTEXT3.36 KB2017-08-23
Tabular DataEXCEL272.5 KB2017-08-23
scriptTAR-0 KB2017-08-23
Displaying 11-16 of 16 File(s).
Funding body Awardee Award ID Comments
National Natural Science Foundation of China G Chen U1301252
Chinese Academy of Sciences Y Bai XDB11020700 Strategic Priority Research Program
Chinese Academy of Sciences Y Bai QYZDB-SSW-SMC021 Priority Research Program
Date Action
September 11, 2017 Dataset publish
October 17, 2017 Manuscript Link added : 10.1093/gigascience/gix089