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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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Phylogenetic trees of Brassica and Arabidopsis NF-Y families based on the nucleotide sequences in the promoter regions.The phylogenetic trees were constructed by the neighbor-joining method implemented by MEGA software, version 4.1. The numbers at each branch point represent the bootstrap scores (1,000 replicates). A branch with a bootstrap score of below 50 was usually considered unreliable. a Phylogenetic tree of Brassica and Arabidopsis NF-YA promoters. Due to low levels of nucleotide similarity, BnNF-YA4 homologues in B. oleracea were not included here. b Phylogenetic tree of Brassica and Arabidopsis NF-YB promoters. Due to low levels of nucleotide similarity, BnNF-YB14 homologues in B. oleracea were not included here. c Phylogenetic tree of Brassica and Arabidopsis NF-YC promoters. Bol and Bra represent B. oleracea and B. rapa, respectively. The numbers after the species abbreviation correspond to the individual gene name. Most promoters were at least 1000bp in length, except for those of BnNF-YA1 (595bp), BnNF-YA4/5 (577), BnNF-YA6 (806), BnNF-YA10 (892), BnNF-YB1 (519), BnNF-YB7 (988), BnNF-YB8 (391), and BnNF-YB13 (867) and their homologues in B. oleracea, B. rapa, and Arabidopsis.
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pone-0111354-g006: Phylogenetic trees of Brassica and Arabidopsis NF-Y families based on the nucleotide sequences in the promoter regions.The phylogenetic trees were constructed by the neighbor-joining method implemented by MEGA software, version 4.1. The numbers at each branch point represent the bootstrap scores (1,000 replicates). A branch with a bootstrap score of below 50 was usually considered unreliable. a Phylogenetic tree of Brassica and Arabidopsis NF-YA promoters. Due to low levels of nucleotide similarity, BnNF-YA4 homologues in B. oleracea were not included here. b Phylogenetic tree of Brassica and Arabidopsis NF-YB promoters. Due to low levels of nucleotide similarity, BnNF-YB14 homologues in B. oleracea were not included here. c Phylogenetic tree of Brassica and Arabidopsis NF-YC promoters. Bol and Bra represent B. oleracea and B. rapa, respectively. The numbers after the species abbreviation correspond to the individual gene name. Most promoters were at least 1000bp in length, except for those of BnNF-YA1 (595bp), BnNF-YA4/5 (577), BnNF-YA6 (806), BnNF-YA10 (892), BnNF-YB1 (519), BnNF-YB7 (988), BnNF-YB8 (391), and BnNF-YB13 (867) and their homologues in B. oleracea, B. rapa, and Arabidopsis.

Mentions: We previously showed that canola NF-Ys were more similar to those of the dicot Arabidopsis than to those of the monocot Oryza sativa (rice) based on putative amino acid sequences. In this study, we also used the promoter sequences to further explore the phylogenetic relationship amongst members of this family. All canola promoters grouped with promoters of their own homologs and formed clades with the corresponding subfamily members in the other species (Fig. 6). The promoter sequence of each canola NF-Y usually had the highest level of identity with B. rapa, and the lowest with Arabidopsis, with the exceptions of BnNF-YA6, BnNF-YB2 and BnNF-YB8. The promoter regions of these three BnNF-Ys were more similar to those of B. oleracea than to those of B. rapa.


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)

Phylogenetic trees of Brassica and Arabidopsis NF-Y families based on the nucleotide sequences in the promoter regions.The phylogenetic trees were constructed by the neighbor-joining method implemented by MEGA software, version 4.1. The numbers at each branch point represent the bootstrap scores (1,000 replicates). A branch with a bootstrap score of below 50 was usually considered unreliable. a Phylogenetic tree of Brassica and Arabidopsis NF-YA promoters. Due to low levels of nucleotide similarity, BnNF-YA4 homologues in B. oleracea were not included here. b Phylogenetic tree of Brassica and Arabidopsis NF-YB promoters. Due to low levels of nucleotide similarity, BnNF-YB14 homologues in B. oleracea were not included here. c Phylogenetic tree of Brassica and Arabidopsis NF-YC promoters. Bol and Bra represent B. oleracea and B. rapa, respectively. The numbers after the species abbreviation correspond to the individual gene name. Most promoters were at least 1000bp in length, except for those of BnNF-YA1 (595bp), BnNF-YA4/5 (577), BnNF-YA6 (806), BnNF-YA10 (892), BnNF-YB1 (519), BnNF-YB7 (988), BnNF-YB8 (391), and BnNF-YB13 (867) and their homologues in B. oleracea, B. rapa, and Arabidopsis.
© Copyright Policy
Related In: Results  -  Collection

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

pone-0111354-g006: Phylogenetic trees of Brassica and Arabidopsis NF-Y families based on the nucleotide sequences in the promoter regions.The phylogenetic trees were constructed by the neighbor-joining method implemented by MEGA software, version 4.1. The numbers at each branch point represent the bootstrap scores (1,000 replicates). A branch with a bootstrap score of below 50 was usually considered unreliable. a Phylogenetic tree of Brassica and Arabidopsis NF-YA promoters. Due to low levels of nucleotide similarity, BnNF-YA4 homologues in B. oleracea were not included here. b Phylogenetic tree of Brassica and Arabidopsis NF-YB promoters. Due to low levels of nucleotide similarity, BnNF-YB14 homologues in B. oleracea were not included here. c Phylogenetic tree of Brassica and Arabidopsis NF-YC promoters. Bol and Bra represent B. oleracea and B. rapa, respectively. The numbers after the species abbreviation correspond to the individual gene name. Most promoters were at least 1000bp in length, except for those of BnNF-YA1 (595bp), BnNF-YA4/5 (577), BnNF-YA6 (806), BnNF-YA10 (892), BnNF-YB1 (519), BnNF-YB7 (988), BnNF-YB8 (391), and BnNF-YB13 (867) and their homologues in B. oleracea, B. rapa, and Arabidopsis.
Mentions: We previously showed that canola NF-Ys were more similar to those of the dicot Arabidopsis than to those of the monocot Oryza sativa (rice) based on putative amino acid sequences. In this study, we also used the promoter sequences to further explore the phylogenetic relationship amongst members of this family. All canola promoters grouped with promoters of their own homologs and formed clades with the corresponding subfamily members in the other species (Fig. 6). The promoter sequence of each canola NF-Y usually had the highest level of identity with B. rapa, and the lowest with Arabidopsis, with the exceptions of BnNF-YA6, BnNF-YB2 and BnNF-YB8. The promoter regions of these three BnNF-Ys were more similar to those of B. oleracea than to those of B. rapa.

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.

Show MeSH
Related in: MedlinePlus