From genome to function: the Arabidopsis aquaporins

Abstract

Background: In the post-genomic era newly sequenced genomes can be used to deduce organismal functions from our knowledge of other systems. Here we apply this approach to analyzing the aquaporin gene family in Arabidopsis thaliana. The aquaporins are intrinsic membrane proteins that have been characterized as facilitators of water flux. Originally termed major intrinsic proteins (MIPs), they are now also known as water channels, glycerol facilitators and aquaglyceroporins, yet recent data suggest that they facilitate the movement of other low-molecularweight metabolites as well.

Comprehensive analysis of the Aquaporin genes in Eucalyptus grandis suggests potential targets for drought stress tolerance

“…Furthermore, some EgAQP-SIP sequences do not possess conserved AQP motifs and the motifs they do have are not shared across the subfamily as indicated by our parameter analysis (using an E-value threshold of ≤ 0.05). These unique characteristics of the EgAQP-SIPs have been previously reported, which supports our findings about this subfamily (Quigley et al . 2001).…”

Comprehensive analysis of the Aquaporin genes in Eucalyptus grandis suggests potential targets for drought stress tolerance

“…Furthermore, some EgAQP-SIP sequences do not possess conserved AQP motifs and the motifs they do have are not shared across the subfamily as indicated by our parameter analysis (using an E-value threshold of ≤ 0.05). These unique characteristics of the EgAQP-SIPs have been previously reported, which supports our findings about this subfamily (Quigley et al . 2001).…”

Identification of Aquaporin Gene Family in Response to Natural Cold Stress in Ligustrum × vicaryi Rehd.

“…At this time, the transmembrane transport of water in Ligustrum × vicaryi mainly depends on the PIPs subfamily of the aquaporin family. This study found that the number of PIPs subfamily was the largest in the LvAQP gene family, which was consistent with the results of previous studies [4][5][6][7][8][9][10]. The differences from previous studies were that Arabidopsis thaliana and Oryza sativa have 13 and 11 PIPs genes, respectively, while this study found 32 PIPs subfamily genes in Ligustrum × vicaryi.…”

Genome-wide identification and expression analysis of aquaporins in salt cress ( Eutrema salsugineum )

“…This result implies that EsTIP2;4 may evolved from EsTIP2;1. A. thaliana has two NIP4s located closely at chromosome 5 (Quigley et al, 2001). The same phenomenon was also found in our study, which three EsNIP4s were very close at chromosome 7 (Table 1 and Fig.…”

“…The comparison of EsAQPs with AtAQPs showed that EsNIP1;2 shared 86% and 88% sequence similarities with AtNIP1;1 and AtNIP1;2 in nucleotide sequence and 83% and 91% sequence similarities with AtNIP1;1 and AtNIP1;2 in protein sequence, respectively; so it was named as EsNIP1;2. However, the position of AtNIP1;1 and AtNIP1;2 are very close at chromosome 4 and had the same ar/R filter (W-V-A-R) and P5 position (F-S-A-Y-L) (Quigley et al, 2001), it is same as EsNIP1;2 in our study (Table 1). This suggests that these genes may have same function.…”

Comprehensive analysis of the Aquaporin genes in Eucalyptus grandis suggests potential targets for drought stress tolerance

“…Furthermore, some EgAQP-SIP sequences do not possess conserved AQP motifs and the motifs they do have are not shared across the subfamily as indicated by our parameter analysis (using an E-value threshold of ≤ 0.05). These unique characteristics of the EgAQP-SIPs have been previously reported, which supports our findings about this subfamily (Quigley et al . 2001).…”

Identification of Aquaporin Gene Family in Response to Natural Cold Stress in Ligustrum × vicaryi Rehd.

“…At this time, the transmembrane transport of water in Ligustrum × vicaryi mainly depends on the PIPs subfamily of the aquaporin family. This study found that the number of PIPs subfamily was the largest in the LvAQP gene family, which was consistent with the results of previous studies [4][5][6][7][8][9][10]. The differences from previous studies were that Arabidopsis thaliana and Oryza sativa have 13 and 11 PIPs genes, respectively, while this study found 32 PIPs subfamily genes in Ligustrum × vicaryi.…”

Genome-wide identification and expression analysis of aquaporins in salt cress ( Eutrema salsugineum )

“…This result implies that EsTIP2;4 may evolved from EsTIP2;1. A. thaliana has two NIP4s located closely at chromosome 5 (Quigley et al, 2001). The same phenomenon was also found in our study, which three EsNIP4s were very close at chromosome 7 (Table 1 and Fig.…”

“…The comparison of EsAQPs with AtAQPs showed that EsNIP1;2 shared 86% and 88% sequence similarities with AtNIP1;1 and AtNIP1;2 in nucleotide sequence and 83% and 91% sequence similarities with AtNIP1;1 and AtNIP1;2 in protein sequence, respectively; so it was named as EsNIP1;2. However, the position of AtNIP1;1 and AtNIP1;2 are very close at chromosome 4 and had the same ar/R filter (W-V-A-R) and P5 position (F-S-A-Y-L) (Quigley et al, 2001), it is same as EsNIP1;2 in our study (Table 1). This suggests that these genes may have same function.…”

Comprehensive analysis of the Aquaporin genes in Eucalyptus grandis suggests potential targets for drought stress tolerance

“…Furthermore, some EgAQP-SIP sequences do not possess conserved AQP motifs and the motifs they do have are not shared across the subfamily as indicated by our parameter analysis (using an E-value threshold of ≤ 0.05). These unique characteristics of the EgAQP-SIPs have been previously reported, which supports our findings about this subfamily (Quigley et al . 2001).…”

Identification of Aquaporin Gene Family in Response to Natural Cold Stress in Ligustrum × vicaryi Rehd.

“…At this time, the transmembrane transport of water in Ligustrum × vicaryi mainly depends on the PIPs subfamily of the aquaporin family. This study found that the number of PIPs subfamily was the largest in the LvAQP gene family, which was consistent with the results of previous studies [4][5][6][7][8][9][10]. The differences from previous studies were that Arabidopsis thaliana and Oryza sativa have 13 and 11 PIPs genes, respectively, while this study found 32 PIPs subfamily genes in Ligustrum × vicaryi.…”

Genome-wide identification and expression analysis of aquaporins in salt cress ( Eutrema salsugineum )

“…This result implies that EsTIP2;4 may evolved from EsTIP2;1. A. thaliana has two NIP4s located closely at chromosome 5 (Quigley et al, 2001). The same phenomenon was also found in our study, which three EsNIP4s were very close at chromosome 7 (Table 1 and Fig.…”

“…The comparison of EsAQPs with AtAQPs showed that EsNIP1;2 shared 86% and 88% sequence similarities with AtNIP1;1 and AtNIP1;2 in nucleotide sequence and 83% and 91% sequence similarities with AtNIP1;1 and AtNIP1;2 in protein sequence, respectively; so it was named as EsNIP1;2. However, the position of AtNIP1;1 and AtNIP1;2 are very close at chromosome 4 and had the same ar/R filter (W-V-A-R) and P5 position (F-S-A-Y-L) (Quigley et al, 2001), it is same as EsNIP1;2 in our study (Table 1). This suggests that these genes may have same function.…”