Dichotomy in the NRT gene families of dicots and grass species.
Identifieur interne : 003313 ( Main/Exploration ); précédent : 003312; suivant : 003314Dichotomy in the NRT gene families of dicots and grass species.
Auteurs : Darren Plett [Australie] ; John Toubia ; Trevor Garnett ; Mark Tester ; Brent N. Kaiser ; Ute BaumannSource :
- PloS one [ 1932-6203 ] ; 2010.
Descripteurs français
- KwdFr :
- ADN des plantes (génétique), Analyse de séquence d'ADN (MeSH), Arabidopsis (génétique), Arabidopsis (physiologie), Bases de données génétiques (MeSH), Biologie informatique (MeSH), Chromosomes de plante (ultrastructure), Gènes de plante (MeSH), Génome végétal (MeSH), Modèles génétiques (MeSH), Nitrates (composition chimique), Phylogenèse (MeSH), Protéines végétales (métabolisme), Régulation de l'expression des gènes végétaux (MeSH), Spécificité d'espèce (MeSH).
- MESH :
- composition chimique : Nitrates.
- génétique : ADN des plantes, Arabidopsis.
- métabolisme : Protéines végétales.
- physiologie : Arabidopsis.
- ultrastructure : Analyse de séquence d'ADN, Bases de données génétiques, Biologie informatique, Chromosomes de plante, Gènes de plante, Génome végétal, Modèles génétiques, Phylogenèse, Régulation de l'expression des gènes végétaux, Spécificité d'espèce.
English descriptors
- KwdEn :
- Arabidopsis (genetics), Arabidopsis (physiology), Chromosomes, Plant (ultrastructure), Computational Biology (MeSH), DNA, Plant (genetics), Databases, Genetic (MeSH), Gene Expression Regulation, Plant (MeSH), Genes, Plant (MeSH), Genome, Plant (MeSH), Models, Genetic (MeSH), Nitrates (chemistry), Phylogeny (MeSH), Plant Proteins (metabolism), Sequence Analysis, DNA (MeSH), Species Specificity (MeSH).
- MESH :
- chemical , chemistry : Nitrates.
- chemical , genetics : DNA, Plant.
- genetics : Arabidopsis.
- chemical , metabolism : Plant Proteins.
- physiology : Arabidopsis.
- ultrastructure : Chromosomes, Plant.
- Computational Biology, Databases, Genetic, Gene Expression Regulation, Plant, Genes, Plant, Genome, Plant, Models, Genetic, Phylogeny, Sequence Analysis, DNA, Species Specificity.
Abstract
A large proportion of the nitrate (NO(3)(-)) acquired by plants from soil is actively transported via members of the NRT families of NO(3)(-) transporters. In Arabidopsis, the NRT1 family has eight functionally characterised members and predominantly comprises low-affinity transporters; the NRT2 family contains seven members which appear to be high-affinity transporters; and there are two NRT3 (NAR2) family members which are known to participate in high-affinity transport. A modified reciprocal best hit (RBH) approach was used to identify putative orthologues of the Arabidopsis NRT genes in the four fully sequenced grass genomes (maize, rice, sorghum, Brachypodium). We also included the poplar genome in our analysis to establish whether differences between Arabidopsis and the grasses may be generally applicable to monocots and dicots. Our analysis reveals fundamental differences between Arabidopsis and the grass species in the gene number and family structure of all three families of NRT transporters. All grass species possessed additional NRT1.1 orthologues and appear to lack NRT1.6/NRT1.7 orthologues. There is significant separation in the NRT2 phylogenetic tree between NRT2 genes from dicots and grass species. This indicates that determination of function of NRT2 genes in grass species will not be possible in cereals based simply on sequence homology to functionally characterised Arabidopsis NRT2 genes and that proper functional analysis will be required. Arabidopsis has a unique NRT3.2 gene which may be a fusion of the NRT3.1 and NRT3.2 genes present in all other species examined here. This work provides a framework for future analysis of NO(3)(-) transporters and NO(3)(-) transport in grass crop species.
DOI: 10.1371/journal.pone.0015289
PubMed: 21151904
PubMed Central: PMC2997785
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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In Arabidopsis, the NRT1 family has eight functionally characterised members and predominantly comprises low-affinity transporters; the NRT2 family contains seven members which appear to be high-affinity transporters; and there are two NRT3 (NAR2) family members which are known to participate in high-affinity transport. A modified reciprocal best hit (RBH) approach was used to identify putative orthologues of the Arabidopsis NRT genes in the four fully sequenced grass genomes (maize, rice, sorghum, Brachypodium). We also included the poplar genome in our analysis to establish whether differences between Arabidopsis and the grasses may be generally applicable to monocots and dicots. Our analysis reveals fundamental differences between Arabidopsis and the grass species in the gene number and family structure of all three families of NRT transporters. All grass species possessed additional NRT1.1 orthologues and appear to lack NRT1.6/NRT1.7 orthologues. There is significant separation in the NRT2 phylogenetic tree between NRT2 genes from dicots and grass species. This indicates that determination of function of NRT2 genes in grass species will not be possible in cereals based simply on sequence homology to functionally characterised Arabidopsis NRT2 genes and that proper functional analysis will be required. Arabidopsis has a unique NRT3.2 gene which may be a fusion of the NRT3.1 and NRT3.2 genes present in all other species examined here. This work provides a framework for future analysis of NO(3)(-) transporters and NO(3)(-) transport in grass crop species.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21151904</PMID><DateCompleted><Year>2011</Year><Month>07</Month><Day>05</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>5</Volume><Issue>12</Issue><PubDate><Year>2010</Year><Month>Dec</Month><Day>06</Day></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>Dichotomy in the NRT gene families of dicots and grass species.</ArticleTitle><Pagination><MedlinePgn>e15289</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0015289</ELocationID><Abstract><AbstractText>A large proportion of the nitrate (NO(3)(-)) acquired by plants from soil is actively transported via members of the NRT families of NO(3)(-) transporters. In Arabidopsis, the NRT1 family has eight functionally characterised members and predominantly comprises low-affinity transporters; the NRT2 family contains seven members which appear to be high-affinity transporters; and there are two NRT3 (NAR2) family members which are known to participate in high-affinity transport. A modified reciprocal best hit (RBH) approach was used to identify putative orthologues of the Arabidopsis NRT genes in the four fully sequenced grass genomes (maize, rice, sorghum, Brachypodium). We also included the poplar genome in our analysis to establish whether differences between Arabidopsis and the grasses may be generally applicable to monocots and dicots. Our analysis reveals fundamental differences between Arabidopsis and the grass species in the gene number and family structure of all three families of NRT transporters. All grass species possessed additional NRT1.1 orthologues and appear to lack NRT1.6/NRT1.7 orthologues. There is significant separation in the NRT2 phylogenetic tree between NRT2 genes from dicots and grass species. This indicates that determination of function of NRT2 genes in grass species will not be possible in cereals based simply on sequence homology to functionally characterised Arabidopsis NRT2 genes and that proper functional analysis will be required. Arabidopsis has a unique NRT3.2 gene which may be a fusion of the NRT3.1 and NRT3.2 genes present in all other species examined here. This work provides a framework for future analysis of NO(3)(-) transporters and NO(3)(-) transport in grass crop species.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Plett</LastName><ForeName>Darren</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>Australian Centre for Plant Functional Genomics, Waite Research Institute, University of Adelaide, Adelaide, South Australia, Australia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Toubia</LastName><ForeName>John</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Garnett</LastName><ForeName>Trevor</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Tester</LastName><ForeName>Mark</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Kaiser</LastName><ForeName>Brent N</ForeName><Initials>BN</Initials></Author><Author 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uniqKey="Garnett T" first="Trevor" last="Garnett">Trevor Garnett</name><name sortKey="Kaiser, Brent N" sort="Kaiser, Brent N" uniqKey="Kaiser B" first="Brent N" last="Kaiser">Brent N. Kaiser</name><name sortKey="Tester, Mark" sort="Tester, Mark" uniqKey="Tester M" first="Mark" last="Tester">Mark Tester</name><name sortKey="Toubia, John" sort="Toubia, John" uniqKey="Toubia J" first="John" last="Toubia">John Toubia</name></noCountry><country name="Australie"><noRegion><name sortKey="Plett, Darren" sort="Plett, Darren" uniqKey="Plett D" first="Darren" last="Plett">Darren Plett</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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|texte= Dichotomy in the NRT gene families of dicots and grass species.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:21151904" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |