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Data released on September 11, 2017

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

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 RIS BibTeX Text

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.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/gix089

Accessions (data included in GigaDB):

ENA: PRJEB16061

Keywords:

 

Metagenomic

http://gigadb.org/images/data/cropped/100342.jpg

Funding:

  • Funding body - National Natural Science Foundation of China
  • Award ID - U1301252
  • Awardee - G Chen
  • Funding body - Chinese Academy of Sciences
  • Award ID - XDB11020700
  • Comment - Strategic Priority Research Program
  • Awardee - Y Bai
  • Funding body - Chinese Academy of Sciences
  • Award ID - QYZDB-SSW-SMC021
  • Comment - Priority Research Program
  • Awardee - Y Bai

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
YL.RP.1133410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1134410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1135410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1136410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1137410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1138410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1139410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1140410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1141410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
YL.RP.1142410658Soil Metagenome soil metagenome Description:Metagenome sequences from foxtail mill...
Analyte type:DNA
Geographic location (latitude and longitude):34.27...
...
+
Displaying 91-100 of 2882 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
fastaFASTA-0 KB2017-08-23
TextTEXT-0 KB2017-08-23
otherUNKNOWN-0 KB2017-08-23
otherUNKNOWN-0 KB2017-08-23
archiveTAR-0 KB2017-08-23
otherUNKNOWN-0 KB2017-08-23
fastaFASTA-0 KB2017-08-23
TextTEXT244.67 KB2017-08-23
Tabular DataUNKNOWN-0 KB2017-08-23
TextTEXT179.93 MB2017-08-23
Displaying 1-10 of 16 File(s).

History:

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