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Data released on July 05, 2017

Supporting data for "Large-scale phenomics analysis of a T-DNA tagged mutant population."

Chen, L; Chen, S; Fan, M; Ho, T, D; Hsing, Y, C; Lai, M; Lo, S; Wei, F; Wen, I; Wu, C; Wu, H; Yu, S (2017): Supporting data for "Large-scale phenomics analysis of a T-DNA tagged mutant population." GigaScience Database. http://dx.doi.org/10.5524/100314 RIS BibTeX Text

Rice, Oryza sativa L., is one of the most important crops in the world. With the rising world population, feeding people in a more sustainable and environment-friendly way becomes increasingly important. Therefore, rice research community needs to share resources to better understand functions of rice genes that are the foundation for future agricultural biotechnology development, and one way to achieve this goal is via the extensive study of insertional mutants.
We have constructed a large rice insertional mutant population in a japonica rice variety, Tainung 67. The collection contains about 93,000 mutant lines, among them 85% with phenomics data and 65% with flanking sequence data. We screened the phenotypes of 12 individual plants for each line grown under field conditions according to 68 subcategories and 3 quantitative traits. Both phenotypes and integration sites are searchable in the database at Taiwan Rice Insertional Mutants Database (http://trim.sinica.edu.tw).
Detailed analyses of phenomics data, T-DNA flanking sequences and whole-genome sequencing data for rice insertional mutants can lead to the discovery of novel genes. In addition, studies of mutant phenotypes can reveal relationships among varieties, cultivation locations, and cropping seasons.

Contact Submitter

Related manuscripts:

doi:10.1093/gigascience/gix055

Additional information:

http://trim.sinica.edu.tw/

Accessions (data included in GigaDB):

GenBank: LIBGSS_009952
BioProject: PRJNA299530

Keywords:

Flanking sequence large-scale phenomics rice sequence analysis T-DNA insertional mutants 

Phenotyping, Genomic

http://gigadb.org/images/data/cropped/100314.jpg

Funding:

  • Funding body - Academia Sinica
  • Award ID - 098S0030032-AH
  • Comment - Genomics and Proteomics Integrated Program
  • Awardee - Yue-ie C Hsing
  • Funding body - Academia Sinica
  • Comment - 100-ASIA
  • Awardee - Yue-ie C Hsing
  • Funding body - National Science Council Taiwan
  • Award ID - 103-2321-B-001-049
  • Awardee - Su-may Yu
  • Funding body - Ministry of Science and Technology Taiwan
  • Award ID - 104-2321-B-001-044
  • Awardee - Su-may Yu
  • Funding body - Ministry of Science and Technology Taiwan
  • Award ID - 105-2321-B-001-028
  • Awardee - Su-may Yu
  • Funding body - Ministry of Science and Technology Taiwan
  • Award ID - 106-2321-B-001-016
  • Awardee - Tuan-hua D Ho
  • Funding body - National Science and Technology Program
  • Award ID - NSTP/AB 96S-1501
  • Awardee - Yue-ie C Hsing

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
M0000060-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:11
Height:94.5
...
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M0000061-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:14
Height:91.5
...
+
M0000062-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:18.25
Height:82.25
...
+
M0000063-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:17
Height:82.25
...
+
M0000065-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:16.25
Height:87.25
...
+
M0000066-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:17.5
Height:92.5
...
+
M0000067-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:18
Height:98
...
+
M0000068-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:13
Height:95.75
...
+
M0000069-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:14
Height:93
...
+
M0000071-A39947Japonica riceJapanese riceOryza sativa Japonica Group Miscallaneous parameter:cropping season;2
Panicle number:15.5
Height:101
...
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Displaying 31-40 of 65535 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 
ReadmeTEXT1.88 KB2017-06-22
annotationUNKNOWN1.45 MB2017-06-22
Displaying 1-2 of 2 File(s).

History:

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