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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

Chromosomal locations of StHsf genes. Chromosome numbers and length are represented at the top of each chromosome. Paralogous genes are linked by green lines. Genes belonging to clusters are indicated in black box. Tandem duplications are marked by red lines.
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Figure 2: Chromosomal locations of StHsf genes. Chromosome numbers and length are represented at the top of each chromosome. Paralogous genes are linked by green lines. Genes belonging to clusters are indicated in black box. Tandem duplications are marked by red lines.

Mentions: In order to investigate the distribution of Hsf genes on different chromosomes in potato, the location of 27 deduced StHsfs were identified according to the information of potato genome database on Spud DB Potato Genomics Resources. These StHsfs could be mapped to 10 of the 12 potato chromosomes, with no StHsf found on chromosome 1 and chromosome 5 (Figure 2). They unevenly distributed across the chromosomes of the potato genome: Chr10 contains only one StHsf, while relatively high densities of StHsf genes were discovered on Chr02 and Chr09 (5 StHsfs respectively). Most chromosomes contain two (Chr04, Chr06, Chr07, Chr11, and Chr12) or three StHsfs (Chr03 and Chr08).


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)

Chromosomal locations of StHsf genes. Chromosome numbers and length are represented at the top of each chromosome. Paralogous genes are linked by green lines. Genes belonging to clusters are indicated in black box. Tandem duplications are marked by red lines.
© Copyright Policy
Related In: Results  -  Collection

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

Figure 2: Chromosomal locations of StHsf genes. Chromosome numbers and length are represented at the top of each chromosome. Paralogous genes are linked by green lines. Genes belonging to clusters are indicated in black box. Tandem duplications are marked by red lines.
Mentions: In order to investigate the distribution of Hsf genes on different chromosomes in potato, the location of 27 deduced StHsfs were identified according to the information of potato genome database on Spud DB Potato Genomics Resources. These StHsfs could be mapped to 10 of the 12 potato chromosomes, with no StHsf found on chromosome 1 and chromosome 5 (Figure 2). They unevenly distributed across the chromosomes of the potato genome: Chr10 contains only one StHsf, while relatively high densities of StHsf genes were discovered on Chr02 and Chr09 (5 StHsfs respectively). Most chromosomes contain two (Chr04, Chr06, Chr07, Chr11, and Chr12) or three StHsfs (Chr03 and Chr08).

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