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The IDA/IDA-LIKE and PIP/PIP-LIKE gene families in Arabidopsis: phylogenetic relationship, expression patterns, and transcriptional effect of the PIPL3 peptide.

Vie AK, Najafi J, Liu B, Winge P, Butenko MA, Hornslien KS, Kumpf R, Aalen RB, Bones AM, Brembu T - J. Exp. Bot. (2015)

Bottom Line: Here we present three novel members of the IDL subfamily and show that two of them are strongly and rapidly induced by different biotic and abiotic stresses.Expression patterns of the IDA/IDL and PIP/PIPL genes were analysed using in silico data, qRT-PCR and GUS promoter lines.Transcriptomic responses to PIPL3 peptide treatment suggested a role in regulation of biotic stress responses and cell wall modification.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Norwegian University of Science and Technology, N-7491 Trondheim, Norway.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic relationship between the IDA/IDL and PIP/PIPL peptides. (A) Sequence logo representation of the conserved C-terminal of IDA/IDL, PIP/PIPL and CEP peptides. (B) N-J and ML trees were constructed based on the protein alignment of the IDA/IDL and PIP/PIPL families shown in Fig. 1A. The N-J trees are shown. The overall topologies for the N-J and ML trees are the same. Bootstrap confidence values above 50% for N-J (first value) and ML (second value) are shown in the tree.
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Figure 2: Phylogenetic relationship between the IDA/IDL and PIP/PIPL peptides. (A) Sequence logo representation of the conserved C-terminal of IDA/IDL, PIP/PIPL and CEP peptides. (B) N-J and ML trees were constructed based on the protein alignment of the IDA/IDL and PIP/PIPL families shown in Fig. 1A. The N-J trees are shown. The overall topologies for the N-J and ML trees are the same. Bootstrap confidence values above 50% for N-J (first value) and ML (second value) are shown in the tree.

Mentions: Two studies of the CEP family of small peptides, consisting of 15 members, have recently been published (Delay et al., 2013; Roberts et al., 2013). Two of the CEP family members, CEP13 and CEP14, show similarity to the PIP/PIPLs. A sequence consensus logo of the SGPS motif and surrounding residues was made for the IDL and PIP/PIPL families as well as for the CEP family (Fig. 2A). The SGPS motif (position 4–7) is conserved in IDLs and PIP/PIPLs. A second conserved motif (GxGH, where x is any amino acid) was seen at the C-terminal end of all PIP/PIPLs. The SGPS motif was not found in the CEPs; however, the family was characterized by the C-terminal SPG(I/V)GH sequence, which resembles the C-terminal end of the PIP/PIPLs. Thus, the putative ligand domain of the PIP/PIPLs shares features with both IDLs and CEPs.


The IDA/IDA-LIKE and PIP/PIP-LIKE gene families in Arabidopsis: phylogenetic relationship, expression patterns, and transcriptional effect of the PIPL3 peptide.

Vie AK, Najafi J, Liu B, Winge P, Butenko MA, Hornslien KS, Kumpf R, Aalen RB, Bones AM, Brembu T - J. Exp. Bot. (2015)

Phylogenetic relationship between the IDA/IDL and PIP/PIPL peptides. (A) Sequence logo representation of the conserved C-terminal of IDA/IDL, PIP/PIPL and CEP peptides. (B) N-J and ML trees were constructed based on the protein alignment of the IDA/IDL and PIP/PIPL families shown in Fig. 1A. The N-J trees are shown. The overall topologies for the N-J and ML trees are the same. Bootstrap confidence values above 50% for N-J (first value) and ML (second value) are shown in the tree.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4526919&req=5

Figure 2: Phylogenetic relationship between the IDA/IDL and PIP/PIPL peptides. (A) Sequence logo representation of the conserved C-terminal of IDA/IDL, PIP/PIPL and CEP peptides. (B) N-J and ML trees were constructed based on the protein alignment of the IDA/IDL and PIP/PIPL families shown in Fig. 1A. The N-J trees are shown. The overall topologies for the N-J and ML trees are the same. Bootstrap confidence values above 50% for N-J (first value) and ML (second value) are shown in the tree.
Mentions: Two studies of the CEP family of small peptides, consisting of 15 members, have recently been published (Delay et al., 2013; Roberts et al., 2013). Two of the CEP family members, CEP13 and CEP14, show similarity to the PIP/PIPLs. A sequence consensus logo of the SGPS motif and surrounding residues was made for the IDL and PIP/PIPL families as well as for the CEP family (Fig. 2A). The SGPS motif (position 4–7) is conserved in IDLs and PIP/PIPLs. A second conserved motif (GxGH, where x is any amino acid) was seen at the C-terminal end of all PIP/PIPLs. The SGPS motif was not found in the CEPs; however, the family was characterized by the C-terminal SPG(I/V)GH sequence, which resembles the C-terminal end of the PIP/PIPLs. Thus, the putative ligand domain of the PIP/PIPLs shares features with both IDLs and CEPs.

Bottom Line: Here we present three novel members of the IDL subfamily and show that two of them are strongly and rapidly induced by different biotic and abiotic stresses.Expression patterns of the IDA/IDL and PIP/PIPL genes were analysed using in silico data, qRT-PCR and GUS promoter lines.Transcriptomic responses to PIPL3 peptide treatment suggested a role in regulation of biotic stress responses and cell wall modification.

View Article: PubMed Central - PubMed

Affiliation: Department of Biology, Norwegian University of Science and Technology, N-7491 Trondheim, Norway.

No MeSH data available.


Related in: MedlinePlus