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Genome-wide survey of the soybean GATA transcription factor gene family and expression analysis under low nitrogen stress.

Zhang C, Hou Y, Hao Q, Chen H, Chen L, Yuan S, Shan Z, Zhang X, Yang Z, Qiu D, Zhou X, Huang W - PLoS ONE (2015)

Bottom Line: Numerous GATA factors displayed upregulation or downregulation in soybean leaf in response to low nitrogen stress, and two GATA factors GATA44 and GATA58 were likely to be involved in the regulation of nitrogen metabolism in soybean.Overexpression of GmGATA44 complemented the reduced chlorophyll phenotype of the Arabidopsis ortholog AtGATA21 mutant, implying that GmGATA44 played an important role in modulating chlorophyll biosynthesis.Overall, our study provides useful information for the further analysis of the biological functions of GATA factors in soybean and other crops.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China.

ABSTRACT
GATA transcription factors are transcriptional regulatory proteins that contain a characteristic type-IV zinc finger DNA-binding domain and recognize the conserved GATA motif in the promoter sequence of target genes. Previous studies demonstrated that plant GATA factors possess critical functions in developmental control and responses to the environment. To date, the GATA factors in soybean (Glycine max) have yet to be characterized. Thus, this study identified 64 putative GATA factors from the entire soybean genomic sequence. The chromosomal distributions, gene structures, duplication patterns, phylogenetic tree, tissue expression patterns, and response to low nitrogen stress of the 64 GATA factors in soybean were analyzed to further investigate the functions of these factors. Results indicated that segmental duplication predominantly contributed to the expansion of the GATA factor gene family in soybean. These GATA proteins were phylogenetically clustered into four distinct subfamilies, wherein their gene structure and motif compositions were considerably conserved. A comparative phylogenetic analysis of the GATA factor zinc finger domain sequences in soybean, Arabidopsis (Arabidopsis thaliana), and rice (Oryza sativa) revealed four major classes. The GATA factors in soybean exhibited expression diversity among different tissues; some of these factors showed tissue-specific expression patterns. Numerous GATA factors displayed upregulation or downregulation in soybean leaf in response to low nitrogen stress, and two GATA factors GATA44 and GATA58 were likely to be involved in the regulation of nitrogen metabolism in soybean. Overexpression of GmGATA44 complemented the reduced chlorophyll phenotype of the Arabidopsis ortholog AtGATA21 mutant, implying that GmGATA44 played an important role in modulating chlorophyll biosynthesis. Overall, our study provides useful information for the further analysis of the biological functions of GATA factors in soybean and other crops.

No MeSH data available.


Related in: MedlinePlus

Expression of soybean GATA genes in roots in response to low nitrogen stress.Data were obtained by real-time PCR normalized against the reference gene ACT11 and shown as a percentage of expression in control roots at 4 h. White column represents the expression under normal nitrogen condition, and black column represents the expression under limited nitrogen condition. Fourteen genes (GmGATA12/17/18/28/29/32/33/40/44/46/48/51/53/58) not expressed in soybean root under normal condition were not induced under low nitrogen stress and not present in this figure.
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pone.0125174.g007: Expression of soybean GATA genes in roots in response to low nitrogen stress.Data were obtained by real-time PCR normalized against the reference gene ACT11 and shown as a percentage of expression in control roots at 4 h. White column represents the expression under normal nitrogen condition, and black column represents the expression under limited nitrogen condition. Fourteen genes (GmGATA12/17/18/28/29/32/33/40/44/46/48/51/53/58) not expressed in soybean root under normal condition were not induced under low nitrogen stress and not present in this figure.

Mentions: Previous studies showed that some members of the plant GATA factor gene family are involved in nitrogen response [7, 27, 48]. Therefore, we analyzed transcript abundance from low nitrogen solution-grown and half Hoagland solution-grown soybean seedlings by real-time PCR to determine whether or not the soybean GATA factor genes are nitrogen regulated. The expression data in leaf and root are shown in Figs 6 and 7, respectively. We compared the expression levels of GmGATA genes in these seedlings at 4 h, 3 d, and 6 d after treatment.


Genome-wide survey of the soybean GATA transcription factor gene family and expression analysis under low nitrogen stress.

Zhang C, Hou Y, Hao Q, Chen H, Chen L, Yuan S, Shan Z, Zhang X, Yang Z, Qiu D, Zhou X, Huang W - PLoS ONE (2015)

Expression of soybean GATA genes in roots in response to low nitrogen stress.Data were obtained by real-time PCR normalized against the reference gene ACT11 and shown as a percentage of expression in control roots at 4 h. White column represents the expression under normal nitrogen condition, and black column represents the expression under limited nitrogen condition. Fourteen genes (GmGATA12/17/18/28/29/32/33/40/44/46/48/51/53/58) not expressed in soybean root under normal condition were not induced under low nitrogen stress and not present in this figure.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4401516&req=5

pone.0125174.g007: Expression of soybean GATA genes in roots in response to low nitrogen stress.Data were obtained by real-time PCR normalized against the reference gene ACT11 and shown as a percentage of expression in control roots at 4 h. White column represents the expression under normal nitrogen condition, and black column represents the expression under limited nitrogen condition. Fourteen genes (GmGATA12/17/18/28/29/32/33/40/44/46/48/51/53/58) not expressed in soybean root under normal condition were not induced under low nitrogen stress and not present in this figure.
Mentions: Previous studies showed that some members of the plant GATA factor gene family are involved in nitrogen response [7, 27, 48]. Therefore, we analyzed transcript abundance from low nitrogen solution-grown and half Hoagland solution-grown soybean seedlings by real-time PCR to determine whether or not the soybean GATA factor genes are nitrogen regulated. The expression data in leaf and root are shown in Figs 6 and 7, respectively. We compared the expression levels of GmGATA genes in these seedlings at 4 h, 3 d, and 6 d after treatment.

Bottom Line: Numerous GATA factors displayed upregulation or downregulation in soybean leaf in response to low nitrogen stress, and two GATA factors GATA44 and GATA58 were likely to be involved in the regulation of nitrogen metabolism in soybean.Overexpression of GmGATA44 complemented the reduced chlorophyll phenotype of the Arabidopsis ortholog AtGATA21 mutant, implying that GmGATA44 played an important role in modulating chlorophyll biosynthesis.Overall, our study provides useful information for the further analysis of the biological functions of GATA factors in soybean and other crops.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Oil Crop Biology of the Ministry of Agriculture, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan, China.

ABSTRACT
GATA transcription factors are transcriptional regulatory proteins that contain a characteristic type-IV zinc finger DNA-binding domain and recognize the conserved GATA motif in the promoter sequence of target genes. Previous studies demonstrated that plant GATA factors possess critical functions in developmental control and responses to the environment. To date, the GATA factors in soybean (Glycine max) have yet to be characterized. Thus, this study identified 64 putative GATA factors from the entire soybean genomic sequence. The chromosomal distributions, gene structures, duplication patterns, phylogenetic tree, tissue expression patterns, and response to low nitrogen stress of the 64 GATA factors in soybean were analyzed to further investigate the functions of these factors. Results indicated that segmental duplication predominantly contributed to the expansion of the GATA factor gene family in soybean. These GATA proteins were phylogenetically clustered into four distinct subfamilies, wherein their gene structure and motif compositions were considerably conserved. A comparative phylogenetic analysis of the GATA factor zinc finger domain sequences in soybean, Arabidopsis (Arabidopsis thaliana), and rice (Oryza sativa) revealed four major classes. The GATA factors in soybean exhibited expression diversity among different tissues; some of these factors showed tissue-specific expression patterns. Numerous GATA factors displayed upregulation or downregulation in soybean leaf in response to low nitrogen stress, and two GATA factors GATA44 and GATA58 were likely to be involved in the regulation of nitrogen metabolism in soybean. Overexpression of GmGATA44 complemented the reduced chlorophyll phenotype of the Arabidopsis ortholog AtGATA21 mutant, implying that GmGATA44 played an important role in modulating chlorophyll biosynthesis. Overall, our study provides useful information for the further analysis of the biological functions of GATA factors in soybean and other crops.

No MeSH data available.


Related in: MedlinePlus