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Open Access Research article

Identification of genes associated with nitrogen-use efficiency by genome-wide transcriptional analysis of two soybean genotypes

Qing N Hao123, Xin A Zhou12*, Ai H Sha12, Cheng Wang14, Rong Zhou12 and Shui L Chen12

Author Affiliations

1 Institute of Oil Crops Research, Chinese Academy of Agriculture Sciences, Wuhan 430062, China

2 Chinese Academy of Agricultural Sciences/Key Laboratory for Biological Sciences of Oil Crops, Ministry of Agriculture, Wuhan 430062, China

3 Graduate School of Chinese Academy of Agriculture Sciences, Beijing 100081, China

4 Graduate School of Nanjing Agricultural University, Nanjing, 210095, China

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BMC Genomics 2011, 12:525  doi:10.1186/1471-2164-12-525

Published: 26 October 2011

Additional files

Additional file 1:

List of the soybean varieties for screening. 145 soybean varieties from different areas of China for screening high NUE variety and low NUE variety were listed.

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Additional file 2:

Primer details for genes selected for RT-PCR analysis from results of DGE. This is the primer list of twenty-four genes which were randomly selected for quantitative RT-PCR assays to confirm the reliability of Solexa/Illumina sequencing technology.

Format: XLS Size: 16KB Download file

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Additional file 3:

Pathway enrichment analyses of differentially expressed genes. Pathway enrichment analyses of differentially expressed genes were summarized from four libraries (L1 vs. L2, L3 vs. L4, L5 vs. L6, and L7 vs. L8).

Format: XLS Size: 21KB Download file

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Additional file 4:

Differentially expressed genes involved in nitrogen metabolism. The differentially expressed genes involved in nitrogen metabolism were summarized from four libraries (L1 vs. L2, L3 vs. L4, L5 vs. L6, and L7 vs. L8): 86 were down-regulated and 85 were up-regulated.

Format: XLS Size: 23KB Download file

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Additional file 5:

Gene expression analyses of eight libraries. The details of gene expression analyses of L1, L2, L3, L4, L5, L6, L7, and L8 libraries: Gene, Synonyms, GeneExpression, TPM, GO Component, GO Function, GO Process, blast nr, transcriptID, Mapped-Tag, Nth-Tag-from-3'-end-of-Gene, Tag-Copy-Number and TPM(tag).

Format: RAR Size: 8.4MB Download file

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Additional file 6:

The RT-qPCR workflow. Detailing information about individual parameters associated with each step of the RT-qPCR workflow.

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