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Genome-Wide Identification and Expression Analyses of Aquaporin Gene Family during Development and Abiotic Stress in Banana.

Hu W, Hou X, Huang C, Yan Y, Tie W, Ding Z, Wei Y, Liu J, Miao H, Lu Z, Li M, Xu B, Jin Z - Int J Mol Sci (2015)

Bottom Line: Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening.Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress.Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, China. huwei2010916@126.com.

ABSTRACT
Aquaporins (AQPs) function to selectively control the flow of water and other small molecules through biological membranes, playing crucial roles in various biological processes. However, little information is available on the AQP gene family in bananas. In this study, we identified 47 banana AQP genes based on the banana genome sequence. Evolutionary analysis of AQPs from banana, Arabidopsis, poplar, and rice indicated that banana AQPs (MaAQPs) were clustered into four subfamilies. Conserved motif analysis showed that all banana AQPs contained the typical AQP-like or major intrinsic protein (MIP) domain. Gene structure analysis suggested the majority of MaAQPs had two to four introns with a highly specific number and length for each subfamily. Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening. Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress. Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars.

No MeSH data available.


Related in: MedlinePlus

Relative mRNA levels of 9 MaAQP genes in BX and FJ were determined by qRT-PCR analysis. (A–C) expression patterns of MaPIP2-7, MaPIP1-4 and MaSIP1-1 in different tissues of BX and FJ. The mRNA fold difference was relative to that of BX-root samples used as calibrator; (D–F) expression patterns of MaPIP1-6, MaPIP2-10 and MaTIP4-1 in different stages of fruit development and ripening in BX and FJ. The mRNA fold difference was relative to that of BX-0DAF samples used as calibrator; (G–I) expression patterns of MaPIP2-6, MaTIP2-1 and MaTIP4-2 in response to cold, salt and osmotic stresses in BX and FJ. The mRNA fold difference was relative to that of untreated samples used as calibrator. Log2-based values were used to display differential expression results. Data are means ± SD of n = 3 biological replicates.
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ijms-16-19728-f008: Relative mRNA levels of 9 MaAQP genes in BX and FJ were determined by qRT-PCR analysis. (A–C) expression patterns of MaPIP2-7, MaPIP1-4 and MaSIP1-1 in different tissues of BX and FJ. The mRNA fold difference was relative to that of BX-root samples used as calibrator; (D–F) expression patterns of MaPIP1-6, MaPIP2-10 and MaTIP4-1 in different stages of fruit development and ripening in BX and FJ. The mRNA fold difference was relative to that of BX-0DAF samples used as calibrator; (G–I) expression patterns of MaPIP2-6, MaTIP2-1 and MaTIP4-2 in response to cold, salt and osmotic stresses in BX and FJ. The mRNA fold difference was relative to that of untreated samples used as calibrator. Log2-based values were used to display differential expression results. Data are means ± SD of n = 3 biological replicates.

Mentions: According to the RNA-seq data, MaPIP2-7, MaPIP1-4 and MaSIP1-1 showed high expression levels (value > 7) in all three organs (root, leaf, and fruit) of BX and FJ, MaPIP1-6, MaPIP2-10 and MaTIP4-1 had abundant transcripts (value > 10) during all stages of fruit development and ripening in BX and/or FJ, and MaPIP2-6, MaTIP2-1 and MaTIP4-2 were upregulated by cold, salt and osmotic stresses in BX and/or FJ. These nine differentially expressed MaAQP genes identified in this study were selected for qRT-PCR analysis to validate the RNA-seq data. After normalization, we found that the majority of selected MaAQP genes, except for MaPIP1-4 in leaf of BX and MaPIP2-10 in 80 DAF of FJ, showed the same trend and consistent results between RNA-seq data and qRT-PCR data (Figure 8). These results indicate that RNA-seq data are suitable for supplying the expression patterns of AQP genes in two banana varieties.


Genome-Wide Identification and Expression Analyses of Aquaporin Gene Family during Development and Abiotic Stress in Banana.

Hu W, Hou X, Huang C, Yan Y, Tie W, Ding Z, Wei Y, Liu J, Miao H, Lu Z, Li M, Xu B, Jin Z - Int J Mol Sci (2015)

Relative mRNA levels of 9 MaAQP genes in BX and FJ were determined by qRT-PCR analysis. (A–C) expression patterns of MaPIP2-7, MaPIP1-4 and MaSIP1-1 in different tissues of BX and FJ. The mRNA fold difference was relative to that of BX-root samples used as calibrator; (D–F) expression patterns of MaPIP1-6, MaPIP2-10 and MaTIP4-1 in different stages of fruit development and ripening in BX and FJ. The mRNA fold difference was relative to that of BX-0DAF samples used as calibrator; (G–I) expression patterns of MaPIP2-6, MaTIP2-1 and MaTIP4-2 in response to cold, salt and osmotic stresses in BX and FJ. The mRNA fold difference was relative to that of untreated samples used as calibrator. Log2-based values were used to display differential expression results. Data are means ± SD of n = 3 biological replicates.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4581322&req=5

ijms-16-19728-f008: Relative mRNA levels of 9 MaAQP genes in BX and FJ were determined by qRT-PCR analysis. (A–C) expression patterns of MaPIP2-7, MaPIP1-4 and MaSIP1-1 in different tissues of BX and FJ. The mRNA fold difference was relative to that of BX-root samples used as calibrator; (D–F) expression patterns of MaPIP1-6, MaPIP2-10 and MaTIP4-1 in different stages of fruit development and ripening in BX and FJ. The mRNA fold difference was relative to that of BX-0DAF samples used as calibrator; (G–I) expression patterns of MaPIP2-6, MaTIP2-1 and MaTIP4-2 in response to cold, salt and osmotic stresses in BX and FJ. The mRNA fold difference was relative to that of untreated samples used as calibrator. Log2-based values were used to display differential expression results. Data are means ± SD of n = 3 biological replicates.
Mentions: According to the RNA-seq data, MaPIP2-7, MaPIP1-4 and MaSIP1-1 showed high expression levels (value > 7) in all three organs (root, leaf, and fruit) of BX and FJ, MaPIP1-6, MaPIP2-10 and MaTIP4-1 had abundant transcripts (value > 10) during all stages of fruit development and ripening in BX and/or FJ, and MaPIP2-6, MaTIP2-1 and MaTIP4-2 were upregulated by cold, salt and osmotic stresses in BX and/or FJ. These nine differentially expressed MaAQP genes identified in this study were selected for qRT-PCR analysis to validate the RNA-seq data. After normalization, we found that the majority of selected MaAQP genes, except for MaPIP1-4 in leaf of BX and MaPIP2-10 in 80 DAF of FJ, showed the same trend and consistent results between RNA-seq data and qRT-PCR data (Figure 8). These results indicate that RNA-seq data are suitable for supplying the expression patterns of AQP genes in two banana varieties.

Bottom Line: Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening.Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress.Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, Hainan, China. huwei2010916@126.com.

ABSTRACT
Aquaporins (AQPs) function to selectively control the flow of water and other small molecules through biological membranes, playing crucial roles in various biological processes. However, little information is available on the AQP gene family in bananas. In this study, we identified 47 banana AQP genes based on the banana genome sequence. Evolutionary analysis of AQPs from banana, Arabidopsis, poplar, and rice indicated that banana AQPs (MaAQPs) were clustered into four subfamilies. Conserved motif analysis showed that all banana AQPs contained the typical AQP-like or major intrinsic protein (MIP) domain. Gene structure analysis suggested the majority of MaAQPs had two to four introns with a highly specific number and length for each subfamily. Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening. Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress. Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars.

No MeSH data available.


Related in: MedlinePlus