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Genome-Wide Identification and Function Analyses of Heat Shock Transcription Factors in Potato.

Tang R, Zhu W, Song X, Lin X, Cai J, Wang M, Yang Q - Front Plant Sci (2016)

Bottom Line: Expression profiles of StHsfs in 12 different organs and tissues uncovered distinct spatial expression patterns of these genes and their potential roles in the process of growth and development.StHsf004, StHsf007, StHsf009, StHsf014, and StHsf019 were constitutively expressed under non-stress conditions, and some specific Hsfs became the predominant Hsfs in response to different abiotic stresses, indicating their important and diverse regulatory roles in adverse conditions.A co-expression network between StHsfs and StHsf -co-expressed genes was generated based on the publicly-available potato transcriptomic databases and identified key candidate StHsfs for further functional studies.

View Article: PubMed Central - PubMed

Affiliation: Biochemistry and Molecular Biology, College of Life Sciences, Nanjing Agricultural University Nanjing, China.

ABSTRACT
Heat shock transcription factors (Hsfs) play vital roles in the regulation of tolerance to various stresses in living organisms. To dissect the mechanisms of the Hsfs in potato adaptation to abiotic stresses, genome and transcriptome analyses of Hsf gene family were investigated in Solanum tuberosum L. Twenty-seven StHsf members were identified by bioinformatics and phylogenetic analyses and were classified into A, B, and C groups according to their structural and phylogenetic features. StHsfs in the same class shared similar gene structures and conserved motifs. The chromosomal location analysis showed that 27 Hsfs were located in 10 of 12 chromosomes (except chromosome 1 and chromosome 5) and that 18 of these genes formed 9 paralogous pairs. Expression profiles of StHsfs in 12 different organs and tissues uncovered distinct spatial expression patterns of these genes and their potential roles in the process of growth and development. Promoter and quantitative real-time polymerase chain reaction (qRT-PCR) detections of StHsfs were conducted and demonstrated that these genes were all responsive to various stresses. StHsf004, StHsf007, StHsf009, StHsf014, and StHsf019 were constitutively expressed under non-stress conditions, and some specific Hsfs became the predominant Hsfs in response to different abiotic stresses, indicating their important and diverse regulatory roles in adverse conditions. A co-expression network between StHsfs and StHsf -co-expressed genes was generated based on the publicly-available potato transcriptomic databases and identified key candidate StHsfs for further functional studies.

No MeSH data available.


Related in: MedlinePlus

Expression profiles of the StHsf genes in different potato organs and tissues.
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Figure 4: Expression profiles of the StHsf genes in different potato organs and tissues.

Mentions: A StHsf expression heatmap of 12 different organs and tissues, which established using RNA-seq data (Supplementary Table S2), showed a higher expression of most genes in tubers, callus, shoots and roots than in other tissues, such as leaves, stamens and petals (Figure 4). Some StHsf genes shared a highly similar expression profile in various potato tissues. For example, StHsf012 and StHsf013, belonging to HsfA7, were highly expressed in tubers and callus while lowly expressed in stamens, petals, sepals and carpels. Other members of B group, such as StHsf019, StHsf020, StHsf021, StHsf022, StHsf023, and StHsf024, exhibited high levels of expression in vegetative organs, such as shoots, roots, tubers, stolons and callus, suggesting an involvement of class B members in plant vegetative growth. Some members of class A including StHsf002, StHsf003 and class C member StHsf027, were characterized by high expression amounts in vegetative organs and also in sepals, petals, carpals and the whole flowers than other StHsf members. Within the HsfA1 group, StHsf001 was highly expressed in roots, tubers and carpels while StHsf002 had high expression in tubers, stolons, flowers, petals, sepals and callus and the expression of StHsf003 were high in roots, flowers, carpels and sepals. This analysis indicated that the plants have adaptation reaction to harmful environment through compensation of Hsf genes to lighten the menace action of adversity.


Genome-Wide Identification and Function Analyses of Heat Shock Transcription Factors in Potato.

Tang R, Zhu W, Song X, Lin X, Cai J, Wang M, Yang Q - Front Plant Sci (2016)

Expression profiles of the StHsf genes in different potato organs and tissues.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4836240&req=5

Figure 4: Expression profiles of the StHsf genes in different potato organs and tissues.
Mentions: A StHsf expression heatmap of 12 different organs and tissues, which established using RNA-seq data (Supplementary Table S2), showed a higher expression of most genes in tubers, callus, shoots and roots than in other tissues, such as leaves, stamens and petals (Figure 4). Some StHsf genes shared a highly similar expression profile in various potato tissues. For example, StHsf012 and StHsf013, belonging to HsfA7, were highly expressed in tubers and callus while lowly expressed in stamens, petals, sepals and carpels. Other members of B group, such as StHsf019, StHsf020, StHsf021, StHsf022, StHsf023, and StHsf024, exhibited high levels of expression in vegetative organs, such as shoots, roots, tubers, stolons and callus, suggesting an involvement of class B members in plant vegetative growth. Some members of class A including StHsf002, StHsf003 and class C member StHsf027, were characterized by high expression amounts in vegetative organs and also in sepals, petals, carpals and the whole flowers than other StHsf members. Within the HsfA1 group, StHsf001 was highly expressed in roots, tubers and carpels while StHsf002 had high expression in tubers, stolons, flowers, petals, sepals and callus and the expression of StHsf003 were high in roots, flowers, carpels and sepals. This analysis indicated that the plants have adaptation reaction to harmful environment through compensation of Hsf genes to lighten the menace action of adversity.

Bottom Line: Expression profiles of StHsfs in 12 different organs and tissues uncovered distinct spatial expression patterns of these genes and their potential roles in the process of growth and development.StHsf004, StHsf007, StHsf009, StHsf014, and StHsf019 were constitutively expressed under non-stress conditions, and some specific Hsfs became the predominant Hsfs in response to different abiotic stresses, indicating their important and diverse regulatory roles in adverse conditions.A co-expression network between StHsfs and StHsf -co-expressed genes was generated based on the publicly-available potato transcriptomic databases and identified key candidate StHsfs for further functional studies.

View Article: PubMed Central - PubMed

Affiliation: Biochemistry and Molecular Biology, College of Life Sciences, Nanjing Agricultural University Nanjing, China.

ABSTRACT
Heat shock transcription factors (Hsfs) play vital roles in the regulation of tolerance to various stresses in living organisms. To dissect the mechanisms of the Hsfs in potato adaptation to abiotic stresses, genome and transcriptome analyses of Hsf gene family were investigated in Solanum tuberosum L. Twenty-seven StHsf members were identified by bioinformatics and phylogenetic analyses and were classified into A, B, and C groups according to their structural and phylogenetic features. StHsfs in the same class shared similar gene structures and conserved motifs. The chromosomal location analysis showed that 27 Hsfs were located in 10 of 12 chromosomes (except chromosome 1 and chromosome 5) and that 18 of these genes formed 9 paralogous pairs. Expression profiles of StHsfs in 12 different organs and tissues uncovered distinct spatial expression patterns of these genes and their potential roles in the process of growth and development. Promoter and quantitative real-time polymerase chain reaction (qRT-PCR) detections of StHsfs were conducted and demonstrated that these genes were all responsive to various stresses. StHsf004, StHsf007, StHsf009, StHsf014, and StHsf019 were constitutively expressed under non-stress conditions, and some specific Hsfs became the predominant Hsfs in response to different abiotic stresses, indicating their important and diverse regulatory roles in adverse conditions. A co-expression network between StHsfs and StHsf -co-expressed genes was generated based on the publicly-available potato transcriptomic databases and identified key candidate StHsfs for further functional studies.

No MeSH data available.


Related in: MedlinePlus