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Genome-wide identification and expression analysis of the IQD gene family in moso bamboo (Phyllostachys edulis).

Wu M, Li Y, Chen D, Liu H, Zhu D, Xiang Y - Sci Rep (2016)

Bottom Line: We surveyed the putative promoter regions of the PeIQD genes, which showed that largely stress-related cis-elements existed in these genes.The expression profiles of the IQD genes shed light on their functional divergence.Additionally, a yeast two-hybrid assay proved that PeIQD8 can interact with PeCaM2 and that IQ or I in the IQ motif is required for PeIQD8 to combine with CaM2.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Crop Biology of Anhui Province, School of Life Sciences, Anhui Agricultural University, Hefei 230036, China.

ABSTRACT
Members of the plant-specific IQ67-domain (IQD) protein family are involved in various aspects of normal plant growth and developmental processes as well as basal defence response. Although hundreds of IQD proteins have been identified, only a small number of IQDs have been functionally characterized. Moreover, no systematic study has been performed on moso bamboo. In this study, we performed for the first time a genome-wide identification and expression analysis of the IQD gene family in moso bamboo. We identified 29 non-redundant PeIQD encoding genes. Analysis of the evolutionary patterns and divergence revealed that the IQD genes underwent a large-scale event around 12 million years ago and the division times of IQD family genes between moso bamboo and rice, and, between moso bamboo and Brachypodium, were found to be 20-35 MYA and 25-40 MYA, respectively. We surveyed the putative promoter regions of the PeIQD genes, which showed that largely stress-related cis-elements existed in these genes. The expression profiles of the IQD genes shed light on their functional divergence. Additionally, a yeast two-hybrid assay proved that PeIQD8 can interact with PeCaM2 and that IQ or I in the IQ motif is required for PeIQD8 to combine with CaM2.

No MeSH data available.


Related in: MedlinePlus

Heat map of the real-time quantitative PCR (qRT-PCR) analysis results of PeIQD genes in leaves under drought treatment, with three biological and technical replicates.The scale representing the relative signal intensity values is shown above. Hierarchical clustering was was used in the data analysis.
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f7: Heat map of the real-time quantitative PCR (qRT-PCR) analysis results of PeIQD genes in leaves under drought treatment, with three biological and technical replicates.The scale representing the relative signal intensity values is shown above. Hierarchical clustering was was used in the data analysis.

Mentions: In plants, quite a few members of the IQD family have been showed to be regulated by insect injury, disease, and drought61213. However, no IQD genes responsive to drought and MeJA stresses have been reported in moso bamboo. We used qRT-PCR to analyze the expression levels of PeIQD family genes under drought and MeJA treatments. As shown in Fig. 7, drought (PEG) treatment caused a marked change in the transcription levels of all 29 IQD genes. To clearly realize the expression patterns of the 29 PeIQD genes, we further revealed the expression levels of each gene for each time period (Figure S5). Of the 29 genes, 14 (PeIQD9, −10, −11, −12, −14, −16, −7, −20, −1, −23, −24, −26, −27 and −28) showed the highest transcript levels in response to drought (PEG) treatment. Eight genes were expressed specifically during early treatment: PeIQD10, −12, −21 and −23 were highly expressed at 1 h, and PeIQD16, −20, −24 and −26 were highly expressed at 3 h. The expression level of PeIQD12 and PeIQD21 at 1 h was 6-fold greater than that at 0 h. PeIQD16 at 3 h was 13-fold than that at 0 h. In addition, PeIQD9, −11 and −17 were strongly expressed at 12 h, while PeIQD14, −27 and −28 were strongly positive expressed at 24 h. In fact, the expression level of PeIQD9 was enhanced by more than 12-fold.


Genome-wide identification and expression analysis of the IQD gene family in moso bamboo (Phyllostachys edulis).

Wu M, Li Y, Chen D, Liu H, Zhu D, Xiang Y - Sci Rep (2016)

Heat map of the real-time quantitative PCR (qRT-PCR) analysis results of PeIQD genes in leaves under drought treatment, with three biological and technical replicates.The scale representing the relative signal intensity values is shown above. Hierarchical clustering was was used in the data analysis.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4837358&req=5

f7: Heat map of the real-time quantitative PCR (qRT-PCR) analysis results of PeIQD genes in leaves under drought treatment, with three biological and technical replicates.The scale representing the relative signal intensity values is shown above. Hierarchical clustering was was used in the data analysis.
Mentions: In plants, quite a few members of the IQD family have been showed to be regulated by insect injury, disease, and drought61213. However, no IQD genes responsive to drought and MeJA stresses have been reported in moso bamboo. We used qRT-PCR to analyze the expression levels of PeIQD family genes under drought and MeJA treatments. As shown in Fig. 7, drought (PEG) treatment caused a marked change in the transcription levels of all 29 IQD genes. To clearly realize the expression patterns of the 29 PeIQD genes, we further revealed the expression levels of each gene for each time period (Figure S5). Of the 29 genes, 14 (PeIQD9, −10, −11, −12, −14, −16, −7, −20, −1, −23, −24, −26, −27 and −28) showed the highest transcript levels in response to drought (PEG) treatment. Eight genes were expressed specifically during early treatment: PeIQD10, −12, −21 and −23 were highly expressed at 1 h, and PeIQD16, −20, −24 and −26 were highly expressed at 3 h. The expression level of PeIQD12 and PeIQD21 at 1 h was 6-fold greater than that at 0 h. PeIQD16 at 3 h was 13-fold than that at 0 h. In addition, PeIQD9, −11 and −17 were strongly expressed at 12 h, while PeIQD14, −27 and −28 were strongly positive expressed at 24 h. In fact, the expression level of PeIQD9 was enhanced by more than 12-fold.

Bottom Line: We surveyed the putative promoter regions of the PeIQD genes, which showed that largely stress-related cis-elements existed in these genes.The expression profiles of the IQD genes shed light on their functional divergence.Additionally, a yeast two-hybrid assay proved that PeIQD8 can interact with PeCaM2 and that IQ or I in the IQ motif is required for PeIQD8 to combine with CaM2.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Crop Biology of Anhui Province, School of Life Sciences, Anhui Agricultural University, Hefei 230036, China.

ABSTRACT
Members of the plant-specific IQ67-domain (IQD) protein family are involved in various aspects of normal plant growth and developmental processes as well as basal defence response. Although hundreds of IQD proteins have been identified, only a small number of IQDs have been functionally characterized. Moreover, no systematic study has been performed on moso bamboo. In this study, we performed for the first time a genome-wide identification and expression analysis of the IQD gene family in moso bamboo. We identified 29 non-redundant PeIQD encoding genes. Analysis of the evolutionary patterns and divergence revealed that the IQD genes underwent a large-scale event around 12 million years ago and the division times of IQD family genes between moso bamboo and rice, and, between moso bamboo and Brachypodium, were found to be 20-35 MYA and 25-40 MYA, respectively. We surveyed the putative promoter regions of the PeIQD genes, which showed that largely stress-related cis-elements existed in these genes. The expression profiles of the IQD genes shed light on their functional divergence. Additionally, a yeast two-hybrid assay proved that PeIQD8 can interact with PeCaM2 and that IQ or I in the IQ motif is required for PeIQD8 to combine with CaM2.

No MeSH data available.


Related in: MedlinePlus