Evolutionary history exposes radical diversification among classes of interaction partners of the MLLE domain of plant poly(A)-binding proteins
Identifieur interne : 000652 ( Main/Exploration ); précédent : 000651; suivant : 000653Evolutionary history exposes radical diversification among classes of interaction partners of the MLLE domain of plant poly(A)-binding proteins
Auteurs : Domingo Jiménez-L Pez ; Jaime Bravo [États-Unis] ; Plinio GuzmánSource :
- BMC Evolutionary Biology [ 1471-2148 ] ; 2015.
Abstract
Poly(A)-binding proteins (PABPs) are evolutionarily conserved proteins that have important functions in the regulation of translation and the control of mRNA stability in eukaryotes. Most PABPs encode a C-terminal domain known as the MLLE domain (previously PABC or CTC), which can mediate protein interactions. In earlier work we identified and predicted that four classes of MLLE-interacting proteins were present in
We extended our analysis to other classes of CIDs present in the viridiplantae. We found that novel variants also evolved in classes CID A and CID C. A specific transcription factor domain is present in a distinct lineage in class A, and a variant that lacks at least two distinct domains was also identified in a divergent lineage in class C. We did not detect any variants in Class D CIDs. This class often consists of four to six highly conserved RNA-binding proteins, which suggests that major redundancy is present in this class.
CIDs are likely to operate as components of posttranscriptional regulatory assemblies. The evident diversification of CIDs may be neutral or may be important for plant adaptation to the environment and for acquisition of specific traits during evolution. The fact that CIDs subclasses are maintained in early lineages suggest that a presumed interference between duplicates was resolved, and a defined function for each subclass was achieved.
The online version of this article (doi:10.1186/s12862-015-0475-1) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12862-015-0475-1
PubMed: 26377114
PubMed Central: 4574140
Affiliations:
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code="subfield">Gto. 36821 Mexico</wicri:noCountry></affiliation><affiliation wicri:level="2"><nlm:aff id="Aff2">Present address: Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston, TX 77555 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Texas</region></placeName><wicri:cityArea>Present address: Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston</wicri:cityArea></affiliation></author><author><name sortKey="Guzman, Plinio" sort="Guzman, Plinio" uniqKey="Guzman P" first="Plinio" last="Guzmán">Plinio Guzmán</name><affiliation><nlm:aff id="Aff1">Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Apartado Postal 629, Irapuato, Gto. 36821 Mexico</nlm:aff><wicri:noCountry code="subfield">Gto. 36821 Mexico</wicri:noCountry></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26377114</idno><idno type="pmc">4574140</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4574140</idno><idno type="RBID">PMC:4574140</idno><idno type="doi">10.1186/s12862-015-0475-1</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000563</idno><idno type="wicri:Area/Pmc/Curation">000562</idno><idno type="wicri:Area/Pmc/Checkpoint">000513</idno><idno type="wicri:Area/Ncbi/Merge">001D09</idno><idno type="wicri:Area/Ncbi/Curation">001D09</idno><idno type="wicri:Area/Ncbi/Checkpoint">001D09</idno><idno type="wicri:Area/Main/Merge">000652</idno><idno type="wicri:Area/Main/Curation">000652</idno><idno type="wicri:Area/Main/Exploration">000652</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Evolutionary history exposes radical diversification among classes of interaction partners of the MLLE domain of plant poly(A)-binding proteins</title><author><name sortKey="Jimenez L Pez, Domingo" sort="Jimenez L Pez, Domingo" uniqKey="Jimenez L Pez D" first="Domingo" last="Jiménez-L Pez">Domingo Jiménez-L Pez</name><affiliation><nlm:aff id="Aff1">Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Apartado Postal 629, Irapuato, Gto. 36821 Mexico</nlm:aff><wicri:noCountry code="subfield">Gto. 36821 Mexico</wicri:noCountry></affiliation></author><author><name sortKey="Bravo, Jaime" sort="Bravo, Jaime" uniqKey="Bravo J" first="Jaime" last="Bravo">Jaime Bravo</name><affiliation><nlm:aff id="Aff1">Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Apartado Postal 629, Irapuato, Gto. 36821 Mexico</nlm:aff><wicri:noCountry code="subfield">Gto. 36821 Mexico</wicri:noCountry></affiliation><affiliation wicri:level="2"><nlm:aff id="Aff2">Present address: Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston, TX 77555 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Texas</region></placeName><wicri:cityArea>Present address: Department of Microbiology and Immunology, University of Texas Medical Branch, Galveston</wicri:cityArea></affiliation></author><author><name sortKey="Guzman, Plinio" sort="Guzman, Plinio" uniqKey="Guzman P" first="Plinio" last="Guzmán">Plinio Guzmán</name><affiliation><nlm:aff id="Aff1">Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados, Unidad Irapuato, Apartado Postal 629, Irapuato, Gto. 36821 Mexico</nlm:aff><wicri:noCountry code="subfield">Gto. 36821 Mexico</wicri:noCountry></affiliation></author></analytic><series><title level="j">BMC Evolutionary Biology</title><idno type="eISSN">1471-2148</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Poly(A)-binding proteins (PABPs) are evolutionarily conserved proteins that have important functions in the regulation of translation and the control of mRNA stability in eukaryotes. Most PABPs encode a C-terminal domain known as the MLLE domain (previously PABC or CTC), which can mediate protein interactions. In earlier work we identified and predicted that four classes of MLLE-interacting proteins were present in <italic>Arabidopsis thaliana</italic>, which we named CID A, B, C, and D. These proteins encode transcription-activating domains (CID A), the Lsm and LsmAD domains of ataxin-2 (CID B), the CUE and small MutS-related domains (CID C), and two RNA recognition domains (CID D). We recently found that a novel class that lacks the LsmAD domain is present in CID B proteins.</p></sec><sec><title>Results</title><p>We extended our analysis to other classes of CIDs present in the viridiplantae. We found that novel variants also evolved in classes CID A and CID C. A specific transcription factor domain is present in a distinct lineage in class A, and a variant that lacks at least two distinct domains was also identified in a divergent lineage in class C. We did not detect any variants in Class D CIDs. This class often consists of four to six highly conserved RNA-binding proteins, which suggests that major redundancy is present in this class.</p></sec><sec><title>Conclusions</title><p>CIDs are likely to operate as components of posttranscriptional regulatory assemblies. The evident diversification of CIDs may be neutral or may be important for plant adaptation to the environment and for acquisition of specific traits during evolution. The fact that CIDs subclasses are maintained in early lineages suggest that a presumed interference between duplicates was resolved, and a defined function for each subclass was achieved.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12862-015-0475-1) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Wells, Se" uniqKey="Wells S">SE Wells</name></author><author><name sortKey="Hillner, Pe" uniqKey="Hillner P">PE Hillner</name></author><author><name sortKey="Vale, Rd" uniqKey="Vale R">RD Vale</name></author><author><name sortKey="Sachs, Ab" uniqKey="Sachs A">AB Sachs</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Belostotsky, Da" uniqKey="Belostotsky D">DA Belostotsky</name></author></analytic></biblStruct><biblStruct><analytic><author><name 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uniqKey="Thornton J">JW Thornton</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Federhen, S" uniqKey="Federhen S">S Federhen</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>États-Unis</li></country><region><li>Texas</li></region></list><tree><noCountry><name sortKey="Guzman, Plinio" sort="Guzman, Plinio" uniqKey="Guzman P" first="Plinio" last="Guzmán">Plinio Guzmán</name><name sortKey="Jimenez L Pez, Domingo" sort="Jimenez L Pez, Domingo" uniqKey="Jimenez L Pez D" first="Domingo" last="Jiménez-L Pez">Domingo Jiménez-L Pez</name></noCountry><country name="États-Unis"><region name="Texas"><name sortKey="Bravo, Jaime" sort="Bravo, Jaime" uniqKey="Bravo J" first="Jaime" last="Bravo">Jaime Bravo</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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