Genome-wide identification and expression analysis of aquaporins in salt cress (Eutrema salsugineum)
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Abstract
Aquaporins (AQPs) serve as water channel proteins and belong to major intrinsic proteins (MIPs) family, functioned in rapidly and selectively transporting water and other small solutes across biological membranes. Importantly, AQPs have been shown to play critical roles in abiotic stress response of plants. Eutrema salsugineum is close to Arabidopsis thaliana and proposed as a model system for studying plant salt resistance. Here we identified 35 full-length AQP genes in E. salsugineum. Phylogenetic analysis showed EsAQPs were similar with AtAQPs and grouped into four subfamilies including 12 plasma membrane intrinsic proteins (PIPs), 11 tonoplast intrinsic proteins (TIPs), 9 NOD-like intrinsic proteins (NIPs), and 3 small basic intrinsic proteins (SIPs). Gene structure, also the conserved motifs (MEME) of EsAQPs in each subfamily shared high similarities. In detailed sequence analysis, EsAQPs comprised 237-323 amino acids, with a theoretical molecular weight (MW) of 24.31-31.80 kDa and an isoelectric point (pI) value of 4.73-10.49. Functional prediction based on the NPA motif, aromatic/arginine (ar/R) selectivity filter, Froger’s position and specificity-determining position suggested there was a big difference in the specificity of substrate transport between EsAQPs. Gene expression profiles illustrated EsAQP genes could be detected in all organs and appear to play an important role in response salt, cold and drought signals. These results will bring a better understanding on the characterizations of AQPs in E. salsugineum and its complex transport networks in homeostasis control.
Cite this as
2019. Genome-wide identification and expression analysis of aquaporins in salt cress (Eutrema salsugineum) PeerJ Preprints 7:e27563v1 https://doi.org/10.7287/peerj.preprints.27563v1Author comment
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Supplemental Information
Putative pI and MW of PIPs, TIPs, NIPs, and SIPs from E. salsugineum
Specificity determining positions (SDPs) analysis of E.salsugineum AQPs from alignments with putative amino acid sequences of AQPs transporting non-aqua substrates
Multiple alignments were performed using ClustalX. The SDPs are highlighted in yellow, mismatch site highlighted in red and the representative sequences are marked in blue. The Genbank accession numbers: AtPIP1;2 (Q06611), AtPIP2;1 (P43286), AtPIP2;4 (Q9FF53), AtTIP1;1 (P25818), AtTIP1;2 (Q41963), AtTIP1;3 (NP_192056), AtTIP2;1 (Q41951), AtTIP2;3 (Q9FGL2), AtTIP4;1 (O82316), AtTIP5;1 (NP_190328), AtNIP1;2 (Q8LFP7), AtNIP5;1 (NP_192776), AtNIP6;1 (NP_178191), CpNIP1 (CAD67694), GmNOD26 (P08995), HvPIP1;3 (BAA23745), HvPIP1;4 (BAF33068), HvPIP2;1 (BAA23744), NtAQP1 (O24662), NtTIPa (Q9XG70), OsNIP2;1 (Q6Z2T3), TaTIP2;1 (AAS19468), TaTIP2;2 (AAS19469), ZmPIP1;1 (Q41870), ZmPIP1;5 (Q9AR14).
Additional Information
Competing Interests
The authors declare that they have no competing interests.
Author Contributions
Weiguo Qian conceived and designed the experiments, performed the experiments, analyzed the data, contributed reagents/materials/analysis tools, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.
Xiaomin Yang performed the experiments.
Jiawen Li performed the experiments.
Rui Luo performed the experiments.
Xiufeng Yan conceived and designed the experiments, contributed reagents/materials/analysis tools, approved the final draft.
Qiuying Pang conceived and designed the experiments, contributed reagents/materials/analysis tools, authored or reviewed drafts of the paper, approved the final draft.
Data Deposition
The following information was supplied regarding data availability:
The primers used in qRT-PCR are provided in the supplementary Table 1.
Specificity determining positions (SDPs) analysis of E.salsugineum AQPs from alignments with putative amino acid sequences of AQPs transporting non-aqua substrates are provided in the supplementary Figure 2.
Funding
This work was supported by the National Natural Science Foundation of China (No. 31570396). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.