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A genome-wide analysis of the auxin/indole-3-acetic acid gene family in hexaploid bread wheat (Triticum aestivum L.).

Qiao L, Zhang X, Han X, Zhang L, Li X, Zhan H, Ma J, Luo P, Zhang W, Cui L, Li X, Chang Z - Front Plant Sci (2015)

Bottom Line: The duplicated genes have undergone an evolutionary process of purifying selection, resulting in the high conservation of copy genes among sub-genomes and functional redundancy among several members of the TaIAA family.However, functional divergence probably existed in most TaIAA members due to the diversity of the functional domain and expression pattern.Our research provides useful information for further research into the function of Aux/IAA genes in wheat.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, College of Life Science, Shanxi University Taiyuan, China ; Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Institute of Crop Science, Shanxi Academy of Agricultural Sciences Taiyuan, China.

ABSTRACT
The Auxin/indole-3-acetic acid (Aux/IAA) gene family plays key roles in the primary auxin-response process and controls a number of important traits in plants. However, the characteristics of the Aux/IAA gene family in hexaploid bread wheat (Triticum aestivum L.) have long been unknown. In this study, a comprehensive identification of the Aux/IAA gene family was performed using the latest draft genome sequence of the bread wheat "Chinese Spring." Thirty-four Aux/IAA genes were identified, 30 of which have duplicated genes on the A, B or D sub-genome, with a total of 84 Aux/IAA sequences. These predicted Aux/IAA genes were non-randomly distributed in all the wheat chromosomes except for chromosome 2D. The information of wheat Aux/IAA proteins is also described. Based on an analysis of phylogeny, expression and adaptive evolution, we prove that the Aux/IAA family in wheat has been replicated twice in the two allopolyploidization events of bread wheat, when the tandem duplication also occurred. The duplicated genes have undergone an evolutionary process of purifying selection, resulting in the high conservation of copy genes among sub-genomes and functional redundancy among several members of the TaIAA family. However, functional divergence probably existed in most TaIAA members due to the diversity of the functional domain and expression pattern. Our research provides useful information for further research into the function of Aux/IAA genes in wheat.

No MeSH data available.


Related in: MedlinePlus

Chromosome distribution of TaIAA family in wheat. White ovals on the chromosomes (vertical bar) indicate the position of centromeres. The arrows next to gene names show the direction of transcription. The position of each gene can be estimated using the left scale. The chromosome numbers are indicated at the top of each bar.
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Figure 2: Chromosome distribution of TaIAA family in wheat. White ovals on the chromosomes (vertical bar) indicate the position of centromeres. The arrows next to gene names show the direction of transcription. The position of each gene can be estimated using the left scale. The chromosome numbers are indicated at the top of each bar.

Mentions: The genome distribution of 84 wheat Aux/IAA genes is shown in Figure 2. Respectively, 31, 27, and 26 Aux/IAA genes are non-randomly distributed in the three wheat sub-genomes. According to chromosome position and genomic homology, all these wheat Aux/IAA genes (TaIAAs) were named TaIAA1-A~TaIAA34-D and distributed on every wheat chromosome except for chromosome 2D (Figure 2). Each of the 20 TaIAA genes (TaIAA1, 2, 3, 4, 5, 11, 13, 15, 17, 18, 19, 20, 22, 23, 24, 26, 28, 32, 33, and 34) contains three copies in chromosome A, B and D; 10 TaIAAs have two copies each including TaIAA-A/-B (TaIAA6, 9, 10, and 12), TaIAA-B/-D (TaIAA21), and TaIAA-A/-D (TaIAA14, 25, 27, 29 and 30); and TaIAA7, 8, 16, and 31 have just one copy in wheat chromosomes.


A genome-wide analysis of the auxin/indole-3-acetic acid gene family in hexaploid bread wheat (Triticum aestivum L.).

Qiao L, Zhang X, Han X, Zhang L, Li X, Zhan H, Ma J, Luo P, Zhang W, Cui L, Li X, Chang Z - Front Plant Sci (2015)

Chromosome distribution of TaIAA family in wheat. White ovals on the chromosomes (vertical bar) indicate the position of centromeres. The arrows next to gene names show the direction of transcription. The position of each gene can be estimated using the left scale. The chromosome numbers are indicated at the top of each bar.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4588698&req=5

Figure 2: Chromosome distribution of TaIAA family in wheat. White ovals on the chromosomes (vertical bar) indicate the position of centromeres. The arrows next to gene names show the direction of transcription. The position of each gene can be estimated using the left scale. The chromosome numbers are indicated at the top of each bar.
Mentions: The genome distribution of 84 wheat Aux/IAA genes is shown in Figure 2. Respectively, 31, 27, and 26 Aux/IAA genes are non-randomly distributed in the three wheat sub-genomes. According to chromosome position and genomic homology, all these wheat Aux/IAA genes (TaIAAs) were named TaIAA1-A~TaIAA34-D and distributed on every wheat chromosome except for chromosome 2D (Figure 2). Each of the 20 TaIAA genes (TaIAA1, 2, 3, 4, 5, 11, 13, 15, 17, 18, 19, 20, 22, 23, 24, 26, 28, 32, 33, and 34) contains three copies in chromosome A, B and D; 10 TaIAAs have two copies each including TaIAA-A/-B (TaIAA6, 9, 10, and 12), TaIAA-B/-D (TaIAA21), and TaIAA-A/-D (TaIAA14, 25, 27, 29 and 30); and TaIAA7, 8, 16, and 31 have just one copy in wheat chromosomes.

Bottom Line: The duplicated genes have undergone an evolutionary process of purifying selection, resulting in the high conservation of copy genes among sub-genomes and functional redundancy among several members of the TaIAA family.However, functional divergence probably existed in most TaIAA members due to the diversity of the functional domain and expression pattern.Our research provides useful information for further research into the function of Aux/IAA genes in wheat.

View Article: PubMed Central - PubMed

Affiliation: Department of Biological Sciences, College of Life Science, Shanxi University Taiyuan, China ; Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Institute of Crop Science, Shanxi Academy of Agricultural Sciences Taiyuan, China.

ABSTRACT
The Auxin/indole-3-acetic acid (Aux/IAA) gene family plays key roles in the primary auxin-response process and controls a number of important traits in plants. However, the characteristics of the Aux/IAA gene family in hexaploid bread wheat (Triticum aestivum L.) have long been unknown. In this study, a comprehensive identification of the Aux/IAA gene family was performed using the latest draft genome sequence of the bread wheat "Chinese Spring." Thirty-four Aux/IAA genes were identified, 30 of which have duplicated genes on the A, B or D sub-genome, with a total of 84 Aux/IAA sequences. These predicted Aux/IAA genes were non-randomly distributed in all the wheat chromosomes except for chromosome 2D. The information of wheat Aux/IAA proteins is also described. Based on an analysis of phylogeny, expression and adaptive evolution, we prove that the Aux/IAA family in wheat has been replicated twice in the two allopolyploidization events of bread wheat, when the tandem duplication also occurred. The duplicated genes have undergone an evolutionary process of purifying selection, resulting in the high conservation of copy genes among sub-genomes and functional redundancy among several members of the TaIAA family. However, functional divergence probably existed in most TaIAA members due to the diversity of the functional domain and expression pattern. Our research provides useful information for further research into the function of Aux/IAA genes in wheat.

No MeSH data available.


Related in: MedlinePlus