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Open Access Highly Accessed Research article

Comparative expression profiling of miRNA during anther development in genetic male sterile and wild type cotton

Mingming Wei12, Hengling Wei1, Man Wu1, Meizhen Song1, Jinfa Zhang3, Jiwen Yu1*, Shuli Fan1* and Shuxun Yu12*

Author Affiliations

1 State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, 455000 Henan, P. R. China

2 College of Agronomy, Northwest A&F University, Yangling, 712100 Shaanxi, P. R. China

3 Department of biology, New Mexico State University, Montreal 880033, USA

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BMC Plant Biology 2013, 13:66  doi:10.1186/1471-2229-13-66

Published: 19 April 2013

Additional files

Additional file 1:

The number of total miRNA and siRNA in six small RNA libraries.

Format: XLSX Size: 35KB Download file

Open Data

Additional file 2:

Cotton conserved miRNA families in six small RNA libraries.

Format: XLSX Size: 14KB Download file

Open Data

Additional file 3:

The number of significant differentially expressed cotton conserved miRNA in the six small RNA.

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Additional file 4:

Length distribution of small RNAs in degradome library.

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Additional file 5:

The number of distinct transcripts targeted by unique miRNAs detected in degradome library.

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Additional file 6:

GO analysis of miRNA target genes identified in the WT and GMS mutant anthers representing three stages of development.

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Additional file 7:

The significant sites on the t-plots.

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Additional file 8:

Comparison of the qRT-PCR results of the identified cotton miRNAs with the Solexa sequencing results of the corresponding miRNAs. (a), (c), (e) Solexa sequencing results of miRNAs; (b), (d), (f) qRT-PCR results of miRNAs. F-1 and S-1: meiosis stage of the wild and mutant anthers; F-2 and S-2: tetrad stage of the wild and mutant anthers; F-3 and S-3: uninucleate microspore stage of the wild and mutant anthers. Relative expression levels (R.E.Ls) were calculated using 18S as a control.

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Open Data

Additional file 9:

Novel miRNAs identified from six small RNA libraries.

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Additional file 10:

The number of significant differentially expressed novel cotton miRNA in the six libraries.

Format: XLSX Size: 23KB Download file

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Additional file 11:

Target plots (t-plots) of identified novel miRNA (Mar-F-1-m0031) targets using degradome sequencing. The abundance of each signature is plotted as a function of its position in the transcript. The red colored italicized nucleotide on the target transcript from the 3 end indicates the cleavage site detected in the degradome library.

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Open Data

Additional file 12:

Measurment of IAA contents in the uninucleate microspore stage of WT and GMS mutant anthers using high performance liquid chromatography. F-3 and S-3: uninucleate microspore stage wild type and mutant anthers.

Format: JPEG Size: 27KB Download file

Open Data

Additional file 13:

The qRT-PCR results of cytochrome c in anthers of the WT and GMS mutant.

Format: XLSX Size: 15KB Download file

Open Data