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Transcript profiles of maize embryo sacs and preliminary identification of genes involved in the embryo sac-pollen tube interaction.

Wang SS, Wang F, Tan SJ, Wang MX, Sui N, Zhang XS - Front Plant Sci (2014)

Bottom Line: Additionally, our analyses indicate that the expression of 112 genes encoding cysteine-rich proteins (CRPs) is induced during pollination and fertilization.The CRPs likely regulate pollen tube guidance and embryo sac development.These results provide important information on the genes involved in the embryo sac-pollen tube interaction in maize.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Science and Veterinary Medicine, Shandong Agricultural University Tai'an, China.

ABSTRACT
The embryo sac, the female gametophyte of flowering plants, plays important roles in the pollination and fertilization process. Maize (Zea mays L.) is a model monocot, but little is known about the interactions between its embryo sac and the pollen tube. In this study, we compared the transcript profiles of mature embryo sacs, mature embryo sacs 14-16 h after pollination, and mature nucelli. Comparing the transcript profiles of the embryo sacs before and after the entry of the pollen tube, we identified 3467 differentially expressed transcripts (3382 differentially expressed genes; DEGs). The DEGs were grouped into 22 functional categories. Among the DEGs, 221 genes were induced upon the entry of the pollen tube, and many of them encoded proteins involved in RNA binding, processing, and transcription, signaling, miscellaneous enzyme family processes, and lipid metabolism processes. Genes in the DEG dataset were grouped into 17 classes in a gene ontology enrichment analysis. The DEGs included many genes encoding proteins involved in protein amino acid phosphorylation and protein ubiquitination, implying that these processes might play important roles in the embryo sac-pollen tube interaction. Additionally, our analyses indicate that the expression of 112 genes encoding cysteine-rich proteins (CRPs) is induced during pollination and fertilization. The CRPs likely regulate pollen tube guidance and embryo sac development. These results provide important information on the genes involved in the embryo sac-pollen tube interaction in maize.

No MeSH data available.


Related in: MedlinePlus

Validation of RNA-seq results by RT-qPCR. Transcript levels of 10 randomly selected genes in the four samples were detected by RT-qPCR. A heat map (center) was constructed using mean values of transcript levels detected in three biological replicates. Normalized RPKM values of RNA-seq results are shown (left). For each gene, maximum transcript level in a certain sample was set to 100, and transcript levels in other samples are shown relative to the maximum level. Relative transcript levels are shown by color scales (right). R, correlation coefficient value between RNA-seq data and RT-qPCR data.
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Figure 9: Validation of RNA-seq results by RT-qPCR. Transcript levels of 10 randomly selected genes in the four samples were detected by RT-qPCR. A heat map (center) was constructed using mean values of transcript levels detected in three biological replicates. Normalized RPKM values of RNA-seq results are shown (left). For each gene, maximum transcript level in a certain sample was set to 100, and transcript levels in other samples are shown relative to the maximum level. Relative transcript levels are shown by color scales (right). R, correlation coefficient value between RNA-seq data and RT-qPCR data.

Mentions: To validate the RNA-seq analysis, ten genes were selected randomly for real-time qRT-PCR analyses. The details of these transcripts and their specific primers are shown in Additional file 2. The transcript profiles obtained by RT-qPCR were strongly correlated with those obtained in the RNA-seq analysis (R = 0.9495), confirming the reliability of the RNA-seq data (Figure 9).


Transcript profiles of maize embryo sacs and preliminary identification of genes involved in the embryo sac-pollen tube interaction.

Wang SS, Wang F, Tan SJ, Wang MX, Sui N, Zhang XS - Front Plant Sci (2014)

Validation of RNA-seq results by RT-qPCR. Transcript levels of 10 randomly selected genes in the four samples were detected by RT-qPCR. A heat map (center) was constructed using mean values of transcript levels detected in three biological replicates. Normalized RPKM values of RNA-seq results are shown (left). For each gene, maximum transcript level in a certain sample was set to 100, and transcript levels in other samples are shown relative to the maximum level. Relative transcript levels are shown by color scales (right). R, correlation coefficient value between RNA-seq data and RT-qPCR data.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4269116&req=5

Figure 9: Validation of RNA-seq results by RT-qPCR. Transcript levels of 10 randomly selected genes in the four samples were detected by RT-qPCR. A heat map (center) was constructed using mean values of transcript levels detected in three biological replicates. Normalized RPKM values of RNA-seq results are shown (left). For each gene, maximum transcript level in a certain sample was set to 100, and transcript levels in other samples are shown relative to the maximum level. Relative transcript levels are shown by color scales (right). R, correlation coefficient value between RNA-seq data and RT-qPCR data.
Mentions: To validate the RNA-seq analysis, ten genes were selected randomly for real-time qRT-PCR analyses. The details of these transcripts and their specific primers are shown in Additional file 2. The transcript profiles obtained by RT-qPCR were strongly correlated with those obtained in the RNA-seq analysis (R = 0.9495), confirming the reliability of the RNA-seq data (Figure 9).

Bottom Line: Additionally, our analyses indicate that the expression of 112 genes encoding cysteine-rich proteins (CRPs) is induced during pollination and fertilization.The CRPs likely regulate pollen tube guidance and embryo sac development.These results provide important information on the genes involved in the embryo sac-pollen tube interaction in maize.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Science and Veterinary Medicine, Shandong Agricultural University Tai'an, China.

ABSTRACT
The embryo sac, the female gametophyte of flowering plants, plays important roles in the pollination and fertilization process. Maize (Zea mays L.) is a model monocot, but little is known about the interactions between its embryo sac and the pollen tube. In this study, we compared the transcript profiles of mature embryo sacs, mature embryo sacs 14-16 h after pollination, and mature nucelli. Comparing the transcript profiles of the embryo sacs before and after the entry of the pollen tube, we identified 3467 differentially expressed transcripts (3382 differentially expressed genes; DEGs). The DEGs were grouped into 22 functional categories. Among the DEGs, 221 genes were induced upon the entry of the pollen tube, and many of them encoded proteins involved in RNA binding, processing, and transcription, signaling, miscellaneous enzyme family processes, and lipid metabolism processes. Genes in the DEG dataset were grouped into 17 classes in a gene ontology enrichment analysis. The DEGs included many genes encoding proteins involved in protein amino acid phosphorylation and protein ubiquitination, implying that these processes might play important roles in the embryo sac-pollen tube interaction. Additionally, our analyses indicate that the expression of 112 genes encoding cysteine-rich proteins (CRPs) is induced during pollination and fertilization. The CRPs likely regulate pollen tube guidance and embryo sac development. These results provide important information on the genes involved in the embryo sac-pollen tube interaction in maize.

No MeSH data available.


Related in: MedlinePlus