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The complete set of genes encoding major intrinsic proteins in Arabidopsis provides a framework for a new nomenclature for major intrinsic proteins in plants

Johanson, Urban LU ; Karlsson, Maria LU ; Johansson, Ingela LU ; Gustavsson, Sofia LU ; Sjövall Larsen, Sara LU ; Fraysse, Laure LU ; Weig, Alfons R. and Kjellbom, Per LU (2001) In Plant Physiology 126(4). p.1358-1369
Abstract
Major intrinsic proteins (MIPs) facilitate the passive transport of small polar molecules across membranes. MIPs constitute a very old family of proteins and different forms have been found in all kinds of living organisms, including bacteria, fungi, animals, and plants. In the genomic sequence of Arabidopsis, we have identified 35 different MIP-encoding genes. Based on sequence similarity, these 35 proteins are divided into four different subfamilies: plasma membrane intrinsic proteins, tonoplast intrinsic proteins, NOD26-like intrinsic proteins also called NOD26-like MIPs, and the recently discovered small basic intrinsic proteins. In Arabidopsis, there are 13 plasma membrane intrinsic proteins, 10 tonoplast intrinsic proteins, nine... (More)
Major intrinsic proteins (MIPs) facilitate the passive transport of small polar molecules across membranes. MIPs constitute a very old family of proteins and different forms have been found in all kinds of living organisms, including bacteria, fungi, animals, and plants. In the genomic sequence of Arabidopsis, we have identified 35 different MIP-encoding genes. Based on sequence similarity, these 35 proteins are divided into four different subfamilies: plasma membrane intrinsic proteins, tonoplast intrinsic proteins, NOD26-like intrinsic proteins also called NOD26-like MIPs, and the recently discovered small basic intrinsic proteins. In Arabidopsis, there are 13 plasma membrane intrinsic proteins, 10 tonoplast intrinsic proteins, nine NOD26-like intrinsic proteins, and three small basic intrinsic proteins. The gene structure in general is conserved within each subfamily, although there is a tendency to lose introns. Based on phylogenetic comparisons of maize (Zea mays) and Arabidopsis MIPs (AtMIPs), it is argued that the general intron patterns in the subfamilies were formed before the split of monocotyledons and dicotyledons. Although the gene structure is unique for each subfamily, there is a common pattern in how transmembrane helices are encoded on the exons in three of the subfamilies. The nomenclature for plant MIPs varies widely between different species but also between subfamilies in the same species. Based on the phylogeny of all AtMIPs, a new and more consistent nomenclature is proposed. The complete set of AtMIPs, together with the new nomenclature, will facilitate the isolation, classification, and labeling of plant MIPs from other species. (Less)
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published
subject
keywords
*Aquaporins, Arabidopsis/*genetics, *Arabidopsis Proteins, Exons, Algorithms, Biological Transport, Cell Membrane/genetics/physiology, Genes, Plant, Introns, Ion Channels/classification/*genetics/isolation & purification/physiology, Membrane Proteins/*genetics/physiology, Phylogeny, Plant Proteins/classification/*genetics/isolation &, Terminology as Topic, purification/physiology, Species Specificity, Sequence Alignment, Subcellular Fractions/physiology
in
Plant Physiology
volume
126
issue
4
pages
1358 - 1369
publisher
American Society of Plant Biologists
external identifiers
  • scopus:0034870819
ISSN
1532-2548
DOI
10.1104/pp.126.4.1358
language
English
LU publication?
yes
id
e44a8ba0-442c-424b-9f6e-7b67b9e719f7 (old id 1428939)
alternative location
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11500536
date added to LUP
2009-06-23 16:40:40
date last changed
2018-04-22 04:06:36
@article{e44a8ba0-442c-424b-9f6e-7b67b9e719f7,
  abstract     = {Major intrinsic proteins (MIPs) facilitate the passive transport of small polar molecules across membranes. MIPs constitute a very old family of proteins and different forms have been found in all kinds of living organisms, including bacteria, fungi, animals, and plants. In the genomic sequence of Arabidopsis, we have identified 35 different MIP-encoding genes. Based on sequence similarity, these 35 proteins are divided into four different subfamilies: plasma membrane intrinsic proteins, tonoplast intrinsic proteins, NOD26-like intrinsic proteins also called NOD26-like MIPs, and the recently discovered small basic intrinsic proteins. In Arabidopsis, there are 13 plasma membrane intrinsic proteins, 10 tonoplast intrinsic proteins, nine NOD26-like intrinsic proteins, and three small basic intrinsic proteins. The gene structure in general is conserved within each subfamily, although there is a tendency to lose introns. Based on phylogenetic comparisons of maize (Zea mays) and Arabidopsis MIPs (AtMIPs), it is argued that the general intron patterns in the subfamilies were formed before the split of monocotyledons and dicotyledons. Although the gene structure is unique for each subfamily, there is a common pattern in how transmembrane helices are encoded on the exons in three of the subfamilies. The nomenclature for plant MIPs varies widely between different species but also between subfamilies in the same species. Based on the phylogeny of all AtMIPs, a new and more consistent nomenclature is proposed. The complete set of AtMIPs, together with the new nomenclature, will facilitate the isolation, classification, and labeling of plant MIPs from other species.},
  author       = {Johanson, Urban and Karlsson, Maria and Johansson, Ingela and Gustavsson, Sofia and Sjövall Larsen, Sara and Fraysse, Laure and Weig, Alfons R. and Kjellbom, Per},
  issn         = {1532-2548},
  keyword      = {*Aquaporins,Arabidopsis/*genetics,*Arabidopsis Proteins,Exons,Algorithms,Biological Transport,Cell Membrane/genetics/physiology,Genes,Plant,Introns,Ion Channels/classification/*genetics/isolation & purification/physiology,Membrane Proteins/*genetics/physiology,Phylogeny,Plant Proteins/classification/*genetics/isolation &,Terminology as Topic,purification/physiology,Species Specificity,Sequence Alignment,Subcellular Fractions/physiology},
  language     = {eng},
  number       = {4},
  pages        = {1358--1369},
  publisher    = {American Society of Plant Biologists},
  series       = {Plant Physiology},
  title        = {The complete set of genes encoding major intrinsic proteins in Arabidopsis provides a framework for a new nomenclature for major intrinsic proteins in plants},
  url          = {http://dx.doi.org/10.1104/pp.126.4.1358},
  volume       = {126},
  year         = {2001},
}