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Open Access Research article

A novel class of heat-responsive small RNAs derived from the chloroplast genome of Chinese cabbage (Brassica rapa)

Lu Wang1, Xiang Yu1, Han Wang12, Yi-Zhen Lu34, Marjo de Ruiter2, Marcel Prins2 and Yu-Ke He1*

Author Affiliations

1 National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai 200032, China

2 Keygene, N.V., Agro Business Park 90, 6708 PW Wageningen, The Netherlands

3 James D. Watson Institute of Genome Sciences, Zhejiang University, 268 Kaixuan Road, Hangzhou 310012, China

4 T-Life Research Center Fudan University, Shanghai 200433, China

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BMC Genomics 2011, 12:289  doi:10.1186/1471-2164-12-289

Published: 3 June 2011

Additional files

Additional file 1:

Abundance of sequenced small RNAs matched to genomes of Arabidopsis thaliana (Landsberg erecta ecotype).

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Additional file 2:

Comparison analyses of Arabidopsis chloroplast-related small RNAs (Related) and chloroplast-specific small RNAs (Specific).

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Additional file 3:

RNA origin analysis of Chinese cabbage csRNAs.

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Additional file 4:

Size distribution of csRNAs in the HT seedlings.

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Additional file 5:

csRNAs of csR-5sr-1 family.

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Additional file 6:

The position analysis of the 3' ends of rRNA-derived csRNAs of Chinese cabbage.

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Additional file 7:

The csRNAs that were reduced in the HT lines (less than 20%).

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Additional file 8:

The csRNAs that were increased in the HT lines with 5 folds.

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Additional file 9:

csRNAs detected by microRNA microarray analysis.

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Additional file 10:

rRNA-derived csRNAs were drastically reduced in the HT seedlings.

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Additional file 11:

The predicted structures of some abundant csRNAs from 4.5S and 16S rRNAs, and from tRNA-Asp.

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