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Multiple NUCLEAR FACTOR Y transcription factors respond to abiotic stress in Brassica napus L.

Xu L, Lin Z, Tao Q, Liang M, Zhao G, Yin X, Fu R - PLoS ONE (2014)

Bottom Line: Several NF-Y subfamily members exhibited collinear expression patterns.The cis-element organization of BnNF-Ys was similar to that of Arabidopsis thaliana, and the promoter regions exhibited higher levels of nucleotide sequence identity with Brassica rapa than with Brassica oleracea.This work represents an entry point for investigating the roles of canola NF-Y proteins during abiotic stress responses and provides insight into the genetic evolution of Brassica NF-Ys.

View Article: PubMed Central - PubMed

Affiliation: College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China.

ABSTRACT
Members of the plant NUCLEAR FACTOR Y (NF-Y) family are composed of the NF-YA, NF-YB, and NF-YC subunits. In Brassica napus (canola), each of these subunits forms a multimember subfamily. Plant NF-Ys were reported to be involved in several abiotic stresses. In this study, we demonstrated that multiple members of thirty three BnNF-Ys responded rapidly to salinity, drought, or ABA treatments. Transcripts of five BnNF-YAs, seven BnNF-YBs, and two BnNF-YCs were up-regulated by salinity stress, whereas the expression of thirteen BnNF-YAs, ten BnNF-YBs, and four BnNF-YCs were induced by drought stress. Under NaCl treatments, the expression of one BnNF-YA10 and four NF-YBs (BnNF-YB3, BnNF-YB7, BnNF-YB10, and BnNF-YB14) were greatly increased. Under PEG treatments, the expression levels of four NF-YAs (BnNF-YA9, BnNF-YA10, BnNF-YA11, and BnNF-YA12) and five NF-YBs (BnNF-YB1, BnNF-YB8, BnNF-YB10, BnNF-YB13, and BnNF-YB14) were greatly induced. The expression profiles of 20 of the 27 salinity- or drought-induced BnNF-Ys were also affected by ABA treatment. The expression levels of six NF-YAs (BnNF-YA1, BnNF-YA7, BnNF-YA8, BnNF-YA9, BnNF-YA10, and BnNF-YA12) and seven BnNF-YB members (BnNF-YB2, BnNF-YB3, BnNF-YB7, BnNF-YB10, BnNF-YB11, BnNF-YB13, and BnNF-YB14) and two NF-YC members (BnNF-YC2 and BnNF-YC3) were greatly up-regulated by ABA treatments. Only a few BnNF-Ys were inhibited by the above three treatments. Several NF-Y subfamily members exhibited collinear expression patterns. The promoters of all stress-responsive BnNF-Ys harbored at least two types of stress-related cis-elements, such as ABRE, DRE, MYB, or MYC. The cis-element organization of BnNF-Ys was similar to that of Arabidopsis thaliana, and the promoter regions exhibited higher levels of nucleotide sequence identity with Brassica rapa than with Brassica oleracea. This work represents an entry point for investigating the roles of canola NF-Y proteins during abiotic stress responses and provides insight into the genetic evolution of Brassica NF-Ys.

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Diagrammatic representation of stress-related elements in the BnNF-Y promoters. Elements in the BnNF-YA (A), BnNF-YB (B), and BnNF-YC (C) promoters.Symbols above the top line indicate elements that are in the forward orientation, and those below the bottom line indicate elements in the reverse orientation. MYC(CANNTG) sequences are between the double lines, to indicate their palindromic nature. Numbers are the distance in nucleotides between the sequences and ATG start codon.
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pone-0111354-g005: Diagrammatic representation of stress-related elements in the BnNF-Y promoters. Elements in the BnNF-YA (A), BnNF-YB (B), and BnNF-YC (C) promoters.Symbols above the top line indicate elements that are in the forward orientation, and those below the bottom line indicate elements in the reverse orientation. MYC(CANNTG) sequences are between the double lines, to indicate their palindromic nature. Numbers are the distance in nucleotides between the sequences and ATG start codon.

Mentions: Since most BnNF-Y members were found to be regulated by abiotic stress, we sought to identify the promoter sequences of their corresponding genes and to identify stress-relative cis-elements. We cloned the promoters of 12 BnNF-YAs, 13 BnNF-YBs, and 3 BnNF-YCs that were responsive to one or more of the three treatments used above (i.e., NaCl, PEG6000, and ABA). Using a BLASTN search and genome walking, we successfully acquired all the promoter sequences, most of which consisted of around 1000bp upstream of the ATG start codon. However, we were unable to acquire the promoter sequences of two BnNF-YA members (BnNF-YA4/5 and BnNF-YA6) and two BnNF-YB members (BnNF-YB1 and BnNF-YB8) longer than 1000bp. We then identified cis-elements in these promoters using PLACE and PlantCARE software (Fig. 5), focusing on stress-related cis-elements, such as ABRE, CBF/DRE, MYB, and MYC. The promoters of each of the above-mentioned BnNF-Ys included at least two types of cis-elements, with the exception of the truncated BnNF-YA4/5 promoter sequences. All of the promoters, except for the promoter of BnNF-YA4/5, harbored MYB and MYC elements. More than half of the BnNF-YA and BnNF-YC promoters harbored at least one ABRE element, while only a few BnNF-Ys had DRE elements. We also constructed Arabidopsis cis-elements in the homologous NF-Y family and compared the arrangement of cis-elements in canola and Arabidopsis. Most canola NF-Y members had analogous cis-elements in Arabidopsis, but the number and arrangement of cis-elements differed (Fig. S5).


Multiple NUCLEAR FACTOR Y transcription factors respond to abiotic stress in Brassica napus L.

Xu L, Lin Z, Tao Q, Liang M, Zhao G, Yin X, Fu R - PLoS ONE (2014)

Diagrammatic representation of stress-related elements in the BnNF-Y promoters. Elements in the BnNF-YA (A), BnNF-YB (B), and BnNF-YC (C) promoters.Symbols above the top line indicate elements that are in the forward orientation, and those below the bottom line indicate elements in the reverse orientation. MYC(CANNTG) sequences are between the double lines, to indicate their palindromic nature. Numbers are the distance in nucleotides between the sequences and ATG start codon.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4214726&req=5

pone-0111354-g005: Diagrammatic representation of stress-related elements in the BnNF-Y promoters. Elements in the BnNF-YA (A), BnNF-YB (B), and BnNF-YC (C) promoters.Symbols above the top line indicate elements that are in the forward orientation, and those below the bottom line indicate elements in the reverse orientation. MYC(CANNTG) sequences are between the double lines, to indicate their palindromic nature. Numbers are the distance in nucleotides between the sequences and ATG start codon.
Mentions: Since most BnNF-Y members were found to be regulated by abiotic stress, we sought to identify the promoter sequences of their corresponding genes and to identify stress-relative cis-elements. We cloned the promoters of 12 BnNF-YAs, 13 BnNF-YBs, and 3 BnNF-YCs that were responsive to one or more of the three treatments used above (i.e., NaCl, PEG6000, and ABA). Using a BLASTN search and genome walking, we successfully acquired all the promoter sequences, most of which consisted of around 1000bp upstream of the ATG start codon. However, we were unable to acquire the promoter sequences of two BnNF-YA members (BnNF-YA4/5 and BnNF-YA6) and two BnNF-YB members (BnNF-YB1 and BnNF-YB8) longer than 1000bp. We then identified cis-elements in these promoters using PLACE and PlantCARE software (Fig. 5), focusing on stress-related cis-elements, such as ABRE, CBF/DRE, MYB, and MYC. The promoters of each of the above-mentioned BnNF-Ys included at least two types of cis-elements, with the exception of the truncated BnNF-YA4/5 promoter sequences. All of the promoters, except for the promoter of BnNF-YA4/5, harbored MYB and MYC elements. More than half of the BnNF-YA and BnNF-YC promoters harbored at least one ABRE element, while only a few BnNF-Ys had DRE elements. We also constructed Arabidopsis cis-elements in the homologous NF-Y family and compared the arrangement of cis-elements in canola and Arabidopsis. Most canola NF-Y members had analogous cis-elements in Arabidopsis, but the number and arrangement of cis-elements differed (Fig. S5).

Bottom Line: Several NF-Y subfamily members exhibited collinear expression patterns.The cis-element organization of BnNF-Ys was similar to that of Arabidopsis thaliana, and the promoter regions exhibited higher levels of nucleotide sequence identity with Brassica rapa than with Brassica oleracea.This work represents an entry point for investigating the roles of canola NF-Y proteins during abiotic stress responses and provides insight into the genetic evolution of Brassica NF-Ys.

View Article: PubMed Central - PubMed

Affiliation: College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China.

ABSTRACT
Members of the plant NUCLEAR FACTOR Y (NF-Y) family are composed of the NF-YA, NF-YB, and NF-YC subunits. In Brassica napus (canola), each of these subunits forms a multimember subfamily. Plant NF-Ys were reported to be involved in several abiotic stresses. In this study, we demonstrated that multiple members of thirty three BnNF-Ys responded rapidly to salinity, drought, or ABA treatments. Transcripts of five BnNF-YAs, seven BnNF-YBs, and two BnNF-YCs were up-regulated by salinity stress, whereas the expression of thirteen BnNF-YAs, ten BnNF-YBs, and four BnNF-YCs were induced by drought stress. Under NaCl treatments, the expression of one BnNF-YA10 and four NF-YBs (BnNF-YB3, BnNF-YB7, BnNF-YB10, and BnNF-YB14) were greatly increased. Under PEG treatments, the expression levels of four NF-YAs (BnNF-YA9, BnNF-YA10, BnNF-YA11, and BnNF-YA12) and five NF-YBs (BnNF-YB1, BnNF-YB8, BnNF-YB10, BnNF-YB13, and BnNF-YB14) were greatly induced. The expression profiles of 20 of the 27 salinity- or drought-induced BnNF-Ys were also affected by ABA treatment. The expression levels of six NF-YAs (BnNF-YA1, BnNF-YA7, BnNF-YA8, BnNF-YA9, BnNF-YA10, and BnNF-YA12) and seven BnNF-YB members (BnNF-YB2, BnNF-YB3, BnNF-YB7, BnNF-YB10, BnNF-YB11, BnNF-YB13, and BnNF-YB14) and two NF-YC members (BnNF-YC2 and BnNF-YC3) were greatly up-regulated by ABA treatments. Only a few BnNF-Ys were inhibited by the above three treatments. Several NF-Y subfamily members exhibited collinear expression patterns. The promoters of all stress-responsive BnNF-Ys harbored at least two types of stress-related cis-elements, such as ABRE, DRE, MYB, or MYC. The cis-element organization of BnNF-Ys was similar to that of Arabidopsis thaliana, and the promoter regions exhibited higher levels of nucleotide sequence identity with Brassica rapa than with Brassica oleracea. This work represents an entry point for investigating the roles of canola NF-Y proteins during abiotic stress responses and provides insight into the genetic evolution of Brassica NF-Ys.

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