Open Access Research article

Global transcriptome analysis of two ameiotic1 alleles in maize anthers: defining steps in meiotic entry and progression through prophase I

Guo-Ling Nan1*, Arnaud Ronceret2, Rachel C Wang23, John F Fernandes1, W Zacheus Cande2 and Virginia Walbot1

Author Affiliations

1 Department of Biology, Stanford University, Stanford, CA 94305, USA

2 Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA

3 Institute of Plant and Microbial Biology (IPMB), Academia Sinica, Taipei, 11529, Taiwan

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BMC Plant Biology 2011, 11:120  doi:10.1186/1471-2229-11-120

Published: 26 August 2011

Additional files

Additional file 1:

Ordered K-median (K = 4) hierarchy linkage tree of global transcriptome data among 8 biological sample types: male sterile (S) and fertile (F) am1-489 (489) and am1-praI (pra) anthers at 1.0 and 1.5 mm stages. Coph (cophenetic correlation) = 0.9842.

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Additional file 2:

Heat map of 78 probes spanning 45 meiotic genes on the Agilent 4 × 44 K array. F = fertile; S = male sterile; ND = not determined.

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Additional file 3:

Congruence between the pilot array (P) and the reported array (M) studies. A chart (a) showing average intensities as listed in (b) of 297 differentially expressed, PMC-enriched genes from the two independent studies. 489S: male sterile am1-489; praS: male sterile am1-praI; 1.0: 1.0 mm anthers; 1.5: 1.5 mm anthers. B.

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Additional file 4:

Quantitative RT-PCR (qRT) validation of the levels of Am1 and 10 other meiotic genes in anthers: male sterile (S) and fertile (F) am1-489 (489) and am1-praI (pra) anthers at 1.0 and 1.5 mm stages. Standard deviations are indicated for the qRT results.

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Additional file 5:

Western analysis of total proteins extracted from tassel branches containing anthers ranging from 1.0 to 3.0 mm in length, collected from homozygous am1-489 mutant (am1-489), homozygous am1-praI mutant (am1-praI), and wild type (WT) plants. Polyclonal antibodies raised to the AM1 protein and specific to actin (control) are described in Pawlowski et al. (10).

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Additional file 6:

Gene counts of GO-annotated transcripts of: total detected transcripts (all); differentially expressed in am1-489 and am1-praI anthers compared to common fertile dataset at 1.0 mm (489_1.0, pra_1.0) and 1.5 mm (489_1.5, pra_1.5), respectively; differentially expressed in both mutants compared to fertile at 1.0 mm (489+pra_1.0) and 1.5 mm (489+pra_1.5).

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Additional file 7:

List of 297 PMC-enriched genes differentially expressed in both am1-489 and am1-praI mutants.

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Additional file 8:

List of 37 PMC-enriched genes clustered with the Am1 transcript expression pattern as in Figure 6. Highlighted items are genes previously reported to be associated with meiosis or meiosis-related processes; ND: not determined.

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Additional file 9:

Heat map and annotation of the six transcripts most similarly regulated with the Ameiotic1 gene. F = fertile; S = male sterile; ND = not determined.

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Additional file 10:

List of 45 PMC-enriched genes clustered with the Skp1B transcript expression pattern as in Figure 7. Highlighted items are genes previously reported to be associated with meiosis or meiosis-related processes. ND: not determined.

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Additional file 11:

Primer sequences and RT product sizes of all genes surveyed in qRT validation experiments.

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