title: Genome-wide sequence characterization and expression analysis of major intrinsic proteins in soybean (Glycine max L.).
abstract: Water is essential for all living organisms. Aquaporin proteins are the major facilitator of water transport activity through cell membranes of plants including soybean. These proteins are diverse in plants and belong to a large major intrinsic (MIP) protein family. In higher plants, MIPs are classified into five subfamilies including plasma membrane intrinsic proteins (PIP), tonoplast intrinsic proteins (TIP), NOD26-like intrinsic proteins (NIP), small basic intrinsic proteins (SIP), and the recently discovered X intrinsic proteins (XIP). This paper reports genome wide assembly of soybean MIPs, their functional prediction and expression analysis. Using a bioinformatic homology search, 66 GmMIPs were identified in the soybean genome. Phylogenetic analysis of amino acid sequences of GmMIPs divided the large and highly similar multi-gene family into 5 subfamilies: GmPIPs, GmTIPs, GmNIPs, GmSIPs and GmXIPs. GmPIPs consisted of 22 genes and GmTIPs 23, which showed high sequence similarity within subfamilies. GmNIPs contained 13 and GmSIPs 6 members which were diverse. In addition, we also identified a two member GmXIP, a distinct 5(th) subfamily. GmMIPs were further classified into twelve subgroups based on substrate selectivity filter analysis. Expression analyses were performed for a selected set of GmMIPs using semi-quantitative reverse transcription (semi-RT-qPCR) and qPCR. Our results suggested that many GmMIPs have high sequence similarity but diverse roles as evidenced by analysis of sequences and their expression. It can be speculated that GmMIPs contains true aquaporins, glyceroporins, aquaglyceroporins and mixed transport facilitators.
authors: Institute of Biotechnology, Jiangsu Academy of Agricultural Sciences, Nanjing, China.
authors: Da Yong
authors: DY
authors: Zhang
authors: Zulfiqar
authors: Z
authors: Ali
authors: Chang Biao
authors: CB
authors: Wang
authors: Ling
authors: L
authors: Xu
authors: Jin Xin
authors: JX
authors: Yi
authors: Zhao Long
authors: ZL
authors: Xu
authors: Xiao Qing
authors: XQ
authors: Liu
authors: Xiao Lan
authors: XL
authors: He
authors: Yi Hong
authors: YH
authors: Huang
authors: Iqrar Ahmad
authors: IA
authors: Khan
authors: Richard M
authors: RM
authors: Trethowan
authors: Hong Xiang
authors: HX
authors: Ma
mesh_terms: D000595:Amino Acid Sequence; D020346:Aquaporins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D032461:Chromosomes, Plant / Q000235:genetics; D003681:Dehydration; D005091:Exons / Q000235:genetics; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000187:drug effects; D017343:Genes, Plant / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D007438:Introns / Q000235:genetics; D008969:Molecular Sequence Data; D009928:Organ Specificity / Q000187:drug effects / Q000235:genetics; D010766:Phosphorylation / Q000187:drug effects; D010802:Phylogeny; D010940:Plant Proteins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism; D018517:Plant Roots / Q000187:drug effects / Q000235:genetics; D011092:Polyethylene Glycols / Q000494:pharmacology; D017434:Protein Structure, Tertiary; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D013025:Glycine max / Q000187:drug effects / Q000235:genetics*; D013379:Substrate Specificity / Q000187:drug effects; D009626:Terminology as Topic
chemical_list: D020346:Aquaporins; D010940:Plant Proteins; C110065:major intrinsic protein, plant; D011092:Polyethylene Glycols