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A genome-wide analysis of the LBD (LATERAL ORGAN BOUNDARIES domain) gene family in Malus domestica with a functional characterization of MdLBD11.

Wang X, Zhang S, Su L, Liu X, Hao Y - PLoS ONE (2013)

Bottom Line: At the same time, the expression analysis implied that members of this apple gene family were responsive to hormones and stress and that they may participate in hormone-mediated plant organogenesis, which was demonstrated with the overexpression of the apple LBD gene MdLBD11, resulting in an abnormal phenotype.This phenotype included upward curling leaves, delayed flowering, downward-pointing flowers, siliques and other abnormal traits.Based on these data, we concluded that the MdLBD genes may play an important role in apple growth and development as in Arabidopsis and other species.

View Article: PubMed Central - PubMed

Affiliation: National Key laboratory of Crop Biology, Shandong Agricultural University, Tai-An, Shandong, China.

ABSTRACT
The plant-specific LBD (LATERAL ORGAN BOUNDARIES domain) genes belong to a major family of transcription factor that encode a zinc finger-like domain. It has been shown that LBD genes play crucial roles in the growth and development of Arabidopsis and other plant species. However, no detailed information concerning this family is available for apple. In the present study, we analyzed the apple (Malus domestica) genome and identified 58 LBD genes. This gene family was tested for its phylogenetic relationships with homologous genes in the Arabidopsis genome, as well as its location in the genome, structure and expression. We also transformed one MdLBD gene into Arabidopsis to evaluate its function. Like Arabidopsis, apple LBD genes also have a conserved CX2CX6CX3C zinc finger-like domain in the N terminus and can be divided into two classes. The expression profile indicated that apple LBD genes exhibited a variety of expression patterns, suggesting that they have diverse functions. At the same time, the expression analysis implied that members of this apple gene family were responsive to hormones and stress and that they may participate in hormone-mediated plant organogenesis, which was demonstrated with the overexpression of the apple LBD gene MdLBD11, resulting in an abnormal phenotype. This phenotype included upward curling leaves, delayed flowering, downward-pointing flowers, siliques and other abnormal traits. Based on these data, we concluded that the MdLBD genes may play an important role in apple growth and development as in Arabidopsis and other species.

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Conserved domains of MdLBDs gene family.A. The CX2CX6CX3C zinc finger-like domain sequence logos. B. The LX6LX3LX6L leucine zipper-like domain sequences Logos. Sequence alignment of two domains by ClustalX and conserved motifs Logos was performed by the WebLogo program.
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pone-0057044-g004: Conserved domains of MdLBDs gene family.A. The CX2CX6CX3C zinc finger-like domain sequence logos. B. The LX6LX3LX6L leucine zipper-like domain sequences Logos. Sequence alignment of two domains by ClustalX and conserved motifs Logos was performed by the WebLogo program.

Mentions: In Arabidopsis, the LBD genes had a conserved LOB domain in the N terminus of the genes, and there were two conserved blocks in the LOB domain of the class I proteins, that is, the C block and GAS block. To identify conserved domains within the MdLBD genes, we performed an alignment within all of the MdLBD genes and a separate one for the class I and class II protein sequences. As with the AtLBD genes, multiple sequence alignment showed that all 58 predicted MdLBD protein sequences had a completely conserved CX2CX6CX3C zinc finger-like domain while a LX6LX3LX6L leucine zipper-like domain existed only in 17 of the class I LBD genes (Fig. 4; Fig. S1). In contrast with the AtLBD genes, the MdLBD genes had completely conserved H/G amino acids at the GAS block. The GAS block ended with a DPVYG motif but not with a DP (V/I) YG motif.


A genome-wide analysis of the LBD (LATERAL ORGAN BOUNDARIES domain) gene family in Malus domestica with a functional characterization of MdLBD11.

Wang X, Zhang S, Su L, Liu X, Hao Y - PLoS ONE (2013)

Conserved domains of MdLBDs gene family.A. The CX2CX6CX3C zinc finger-like domain sequence logos. B. The LX6LX3LX6L leucine zipper-like domain sequences Logos. Sequence alignment of two domains by ClustalX and conserved motifs Logos was performed by the WebLogo program.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3585328&req=5

pone-0057044-g004: Conserved domains of MdLBDs gene family.A. The CX2CX6CX3C zinc finger-like domain sequence logos. B. The LX6LX3LX6L leucine zipper-like domain sequences Logos. Sequence alignment of two domains by ClustalX and conserved motifs Logos was performed by the WebLogo program.
Mentions: In Arabidopsis, the LBD genes had a conserved LOB domain in the N terminus of the genes, and there were two conserved blocks in the LOB domain of the class I proteins, that is, the C block and GAS block. To identify conserved domains within the MdLBD genes, we performed an alignment within all of the MdLBD genes and a separate one for the class I and class II protein sequences. As with the AtLBD genes, multiple sequence alignment showed that all 58 predicted MdLBD protein sequences had a completely conserved CX2CX6CX3C zinc finger-like domain while a LX6LX3LX6L leucine zipper-like domain existed only in 17 of the class I LBD genes (Fig. 4; Fig. S1). In contrast with the AtLBD genes, the MdLBD genes had completely conserved H/G amino acids at the GAS block. The GAS block ended with a DPVYG motif but not with a DP (V/I) YG motif.

Bottom Line: At the same time, the expression analysis implied that members of this apple gene family were responsive to hormones and stress and that they may participate in hormone-mediated plant organogenesis, which was demonstrated with the overexpression of the apple LBD gene MdLBD11, resulting in an abnormal phenotype.This phenotype included upward curling leaves, delayed flowering, downward-pointing flowers, siliques and other abnormal traits.Based on these data, we concluded that the MdLBD genes may play an important role in apple growth and development as in Arabidopsis and other species.

View Article: PubMed Central - PubMed

Affiliation: National Key laboratory of Crop Biology, Shandong Agricultural University, Tai-An, Shandong, China.

ABSTRACT
The plant-specific LBD (LATERAL ORGAN BOUNDARIES domain) genes belong to a major family of transcription factor that encode a zinc finger-like domain. It has been shown that LBD genes play crucial roles in the growth and development of Arabidopsis and other plant species. However, no detailed information concerning this family is available for apple. In the present study, we analyzed the apple (Malus domestica) genome and identified 58 LBD genes. This gene family was tested for its phylogenetic relationships with homologous genes in the Arabidopsis genome, as well as its location in the genome, structure and expression. We also transformed one MdLBD gene into Arabidopsis to evaluate its function. Like Arabidopsis, apple LBD genes also have a conserved CX2CX6CX3C zinc finger-like domain in the N terminus and can be divided into two classes. The expression profile indicated that apple LBD genes exhibited a variety of expression patterns, suggesting that they have diverse functions. At the same time, the expression analysis implied that members of this apple gene family were responsive to hormones and stress and that they may participate in hormone-mediated plant organogenesis, which was demonstrated with the overexpression of the apple LBD gene MdLBD11, resulting in an abnormal phenotype. This phenotype included upward curling leaves, delayed flowering, downward-pointing flowers, siliques and other abnormal traits. Based on these data, we concluded that the MdLBD genes may play an important role in apple growth and development as in Arabidopsis and other species.

Show MeSH
Related in: MedlinePlus