Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus

Detalhes bibliográficos
Autor(a) principal: Ribeiro, Cintia L.
Data de Publicação: 2016
Outros Autores: Silva, Cynthia M., Drost, Derek R., Novaes, Evandro, Novaes, Carolina R. D. B., Dervinis, Christopher, Kirst, Matias
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UFLA
Texto Completo: http://repositorio.ufla.br/jspui/handle/1/29989
Resumo: Background Adventitious roots (AR) develop from tissues other than the primary root, in a process physiologically regulated by phytohormones. Adventitious roots provide structural support and contribute to water and nutrient absorption, and are critical for commercial vegetative propagation of several crops. Here we quantified the number of AR, root architectural traits and root biomass in cuttings from a pseudo-backcross population of Populus deltoides and Populus trichocarpa. Quantitative trait loci (QTL) mapping and whole-transcriptome analysis of individuals with alternative QTL alleles for AR number were used to identify putative regulators of AR development. Results Parental individuals and progeny showed extensive segregation for AR developmental traits. Quantitative trait loci for number of AR mapped consistently in the same interval of linkage group (LG) II and LG XIV, explaining 7–10 % of the phenotypic variation. A time series transcriptome analysis identified 26,121 genes differentially expressed during AR development, particularly during the first 24 h after cuttings were harvested. Of those, 1929 genes were differentially regulated between individuals carrying alternative alleles for the two QTL for number of AR, in one or more time point. Eighty-one of these genes were physically located within the QTL intervals for number of AR, including putative homologs of the Arabidopsis genes SUPERROOT2 (SUR2) and TRYPTOPHAN SYNTHASE ALPHA CHAIN (TSA1), both of which are involved in the auxin indole-3-acetic acid (IAA) biosynthesis pathway. Conclusions This study suggests the involvement of two genes of the tryptophan-dependent auxin biosynthesis pathway, SUR2 and TSA1, in the regulation of a critical trait for the clonal propagation of woody species. A possible model for this regulation is that poplar individuals that have poor AR formation synthesize auxin indole-3-acetic acid (IAA) primarily through the tryptophan (Trp) pathway. Much of the Trp pathway flux appears to be directed to the synthesis of indole glucosinolates (IG), as suggested by the over-expression of SUR2. Individuals that are efficient in AR formation may utilize alternative (non-Trp) pathways to synthesize IAA, based on the observation that they down-regulate the expression of TSA1, one of the critical steps in the synthesis of tryptophan.
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spelling Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in PopulusAdventitious rootQuantitative trait loci (QTL)PopulusSuperroot2 (SUR2)Vegetative propagationBackground Adventitious roots (AR) develop from tissues other than the primary root, in a process physiologically regulated by phytohormones. Adventitious roots provide structural support and contribute to water and nutrient absorption, and are critical for commercial vegetative propagation of several crops. Here we quantified the number of AR, root architectural traits and root biomass in cuttings from a pseudo-backcross population of Populus deltoides and Populus trichocarpa. Quantitative trait loci (QTL) mapping and whole-transcriptome analysis of individuals with alternative QTL alleles for AR number were used to identify putative regulators of AR development. Results Parental individuals and progeny showed extensive segregation for AR developmental traits. Quantitative trait loci for number of AR mapped consistently in the same interval of linkage group (LG) II and LG XIV, explaining 7–10 % of the phenotypic variation. A time series transcriptome analysis identified 26,121 genes differentially expressed during AR development, particularly during the first 24 h after cuttings were harvested. Of those, 1929 genes were differentially regulated between individuals carrying alternative alleles for the two QTL for number of AR, in one or more time point. Eighty-one of these genes were physically located within the QTL intervals for number of AR, including putative homologs of the Arabidopsis genes SUPERROOT2 (SUR2) and TRYPTOPHAN SYNTHASE ALPHA CHAIN (TSA1), both of which are involved in the auxin indole-3-acetic acid (IAA) biosynthesis pathway. Conclusions This study suggests the involvement of two genes of the tryptophan-dependent auxin biosynthesis pathway, SUR2 and TSA1, in the regulation of a critical trait for the clonal propagation of woody species. A possible model for this regulation is that poplar individuals that have poor AR formation synthesize auxin indole-3-acetic acid (IAA) primarily through the tryptophan (Trp) pathway. Much of the Trp pathway flux appears to be directed to the synthesis of indole glucosinolates (IG), as suggested by the over-expression of SUR2. Individuals that are efficient in AR formation may utilize alternative (non-Trp) pathways to synthesize IAA, based on the observation that they down-regulate the expression of TSA1, one of the critical steps in the synthesis of tryptophan.BioMed Central (BMC)2018-08-16T18:49:38Z2018-08-16T18:49:38Z2016-03info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfRIBEIRO, C. L. et al. Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus. BMC Plant Biology, [S.l.], v. 16, p. 1-11, Mar. 2016.http://repositorio.ufla.br/jspui/handle/1/29989BMC Plant Biologyreponame:Repositório Institucional da UFLAinstname:Universidade Federal de Lavras (UFLA)instacron:UFLAAttribution 4.0 Internationalhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessRibeiro, Cintia L.Silva, Cynthia M.Drost, Derek R.Novaes, EvandroNovaes, Carolina R. D. B.Dervinis, ChristopherKirst, Matiaseng2018-08-16T18:49:39Zoai:localhost:1/29989Repositório InstitucionalPUBhttp://repositorio.ufla.br/oai/requestnivaldo@ufla.br || repositorio.biblioteca@ufla.bropendoar:2018-08-16T18:49:39Repositório Institucional da UFLA - Universidade Federal de Lavras (UFLA)false
dc.title.none.fl_str_mv Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
title Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
spellingShingle Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
Ribeiro, Cintia L.
Adventitious root
Quantitative trait loci (QTL)
Populus
Superroot2 (SUR2)
Vegetative propagation
title_short Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
title_full Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
title_fullStr Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
title_full_unstemmed Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
title_sort Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus
author Ribeiro, Cintia L.
author_facet Ribeiro, Cintia L.
Silva, Cynthia M.
Drost, Derek R.
Novaes, Evandro
Novaes, Carolina R. D. B.
Dervinis, Christopher
Kirst, Matias
author_role author
author2 Silva, Cynthia M.
Drost, Derek R.
Novaes, Evandro
Novaes, Carolina R. D. B.
Dervinis, Christopher
Kirst, Matias
author2_role author
author
author
author
author
author
dc.contributor.author.fl_str_mv Ribeiro, Cintia L.
Silva, Cynthia M.
Drost, Derek R.
Novaes, Evandro
Novaes, Carolina R. D. B.
Dervinis, Christopher
Kirst, Matias
dc.subject.por.fl_str_mv Adventitious root
Quantitative trait loci (QTL)
Populus
Superroot2 (SUR2)
Vegetative propagation
topic Adventitious root
Quantitative trait loci (QTL)
Populus
Superroot2 (SUR2)
Vegetative propagation
description Background Adventitious roots (AR) develop from tissues other than the primary root, in a process physiologically regulated by phytohormones. Adventitious roots provide structural support and contribute to water and nutrient absorption, and are critical for commercial vegetative propagation of several crops. Here we quantified the number of AR, root architectural traits and root biomass in cuttings from a pseudo-backcross population of Populus deltoides and Populus trichocarpa. Quantitative trait loci (QTL) mapping and whole-transcriptome analysis of individuals with alternative QTL alleles for AR number were used to identify putative regulators of AR development. Results Parental individuals and progeny showed extensive segregation for AR developmental traits. Quantitative trait loci for number of AR mapped consistently in the same interval of linkage group (LG) II and LG XIV, explaining 7–10 % of the phenotypic variation. A time series transcriptome analysis identified 26,121 genes differentially expressed during AR development, particularly during the first 24 h after cuttings were harvested. Of those, 1929 genes were differentially regulated between individuals carrying alternative alleles for the two QTL for number of AR, in one or more time point. Eighty-one of these genes were physically located within the QTL intervals for number of AR, including putative homologs of the Arabidopsis genes SUPERROOT2 (SUR2) and TRYPTOPHAN SYNTHASE ALPHA CHAIN (TSA1), both of which are involved in the auxin indole-3-acetic acid (IAA) biosynthesis pathway. Conclusions This study suggests the involvement of two genes of the tryptophan-dependent auxin biosynthesis pathway, SUR2 and TSA1, in the regulation of a critical trait for the clonal propagation of woody species. A possible model for this regulation is that poplar individuals that have poor AR formation synthesize auxin indole-3-acetic acid (IAA) primarily through the tryptophan (Trp) pathway. Much of the Trp pathway flux appears to be directed to the synthesis of indole glucosinolates (IG), as suggested by the over-expression of SUR2. Individuals that are efficient in AR formation may utilize alternative (non-Trp) pathways to synthesize IAA, based on the observation that they down-regulate the expression of TSA1, one of the critical steps in the synthesis of tryptophan.
publishDate 2016
dc.date.none.fl_str_mv 2016-03
2018-08-16T18:49:38Z
2018-08-16T18:49:38Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv RIBEIRO, C. L. et al. Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus. BMC Plant Biology, [S.l.], v. 16, p. 1-11, Mar. 2016.
http://repositorio.ufla.br/jspui/handle/1/29989
identifier_str_mv RIBEIRO, C. L. et al. Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus. BMC Plant Biology, [S.l.], v. 16, p. 1-11, Mar. 2016.
url http://repositorio.ufla.br/jspui/handle/1/29989
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv BioMed Central (BMC)
publisher.none.fl_str_mv BioMed Central (BMC)
dc.source.none.fl_str_mv BMC Plant Biology
reponame:Repositório Institucional da UFLA
instname:Universidade Federal de Lavras (UFLA)
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instname_str Universidade Federal de Lavras (UFLA)
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institution UFLA
reponame_str Repositório Institucional da UFLA
collection Repositório Institucional da UFLA
repository.name.fl_str_mv Repositório Institucional da UFLA - Universidade Federal de Lavras (UFLA)
repository.mail.fl_str_mv nivaldo@ufla.br || repositorio.biblioteca@ufla.br
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