Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.)
[EN] Background: Frost is one of the main abiotic stresses limiting plant distribution and crop production. To cope with the stress, plants evolved adaptations known as cold acclimation or chilling tolerance to maximize frost tolerance. Cold acclimation is a progressive acquisition of freezing toler...
| Autores: | , , , , , , |
|---|---|
| Formato: | artículo |
| Estado: | Versión publicada |
| Fecha de publicación: | 2017 |
| País: | España |
| Recursos: | Universidad de León |
| Repositorio: | BULERIA. Repositorio Institucional de la Universidad de León |
| OAI Identifier: | oai:buleria.unileon.es:10612/20495 |
| Acesso em linha: | https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-017-1057-8 https://hdl.handle.net/10612/20495 |
| Access Level: | acceso abierto |
| Palavra-chave: | Biología Genética Lentil Deep Super-SAGE Gene expression Frost Stress Cold acclimation 2417.14 Genética Vegetal 2409.92 Genética Molecular de Plantas |
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Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.)Barrios Casado, AbelCaminero Saldaña, ConstantinoGarcía García, Pedro, 1957-Krezdorn, NicolasHoffmeier, KlausWinter, PeterPérez de la Vega, MarcelinoBiologíaGenéticaLentilDeep Super-SAGEGene expressionFrostStressCold acclimation2417.14 Genética Vegetal2409.92 Genética Molecular de Plantas[EN] Background: Frost is one of the main abiotic stresses limiting plant distribution and crop production. To cope with the stress, plants evolved adaptations known as cold acclimation or chilling tolerance to maximize frost tolerance. Cold acclimation is a progressive acquisition of freezing tolerance by plants subjected to low non-freezing temperatures which subsequently allows them to survive exposure to frost. Lentil is a cool season grain legume that is challenged by winter frost in some areas of its cultivation. Results: To better understand the genetic base of frost tolerance differential gene expression in response to cold acclimation was investigated. Recombinant inbred lines (RILs) from the cross Precoz x WA8649041 were first classified as cold tolerant or cold susceptible according to their response to temperatures between -3 to -15 °C. Then, RILs from both extremes of the response curve were cold acclimated and the leaf transcriptomes of two bulks each of eight frost tolerant and seven cold susceptible RILs were investigated by Deep Super-SAGE transcriptome profiling. Thus, four RNA bulks were analysed: the acclimated susceptible, the acclimated tolerant and the respective controls (non-acclimated susceptible and non-acclimated tolerant). Approximately 16.5 million 26 nucleotide long Super-SAGE tags were sequenced in the four sets (between ~3 and 5.4 millions). In total, 133,077 different unitags, each representing a particular transcript isoform, were identified in these four sets. Tags which showed a significantly different abundance in any of the bulks (fold change ≥4.0 and a significant p-value <0.001) were selected and used to identify the corresponding lentil gene sequence. Three hundred of such lentil sequences were identified. Most of their known homologs coded for glycine-rich, cold and drought-regulated proteins, dormancy-associated proteins, proline-rich proteins (PRPs) and other membrane proteins. These were generally but not exclusively over-expressed in the acclimated tolerant lines. Conclusions: This set of candidate genes implicated in the response to frost in lentil represents an useful base for deeper and more detailed investigations into this important agronomic trait in futureSIThis work was supported by the E.U. ERA-PG 075B LEGRESIST project, the AGL2013-44714-R project from the Spanish Ministerio de Economía y Competitividad (co-financed with FEDER funds), and a predoctoral fellowship (A. Barrios) from the ITACyL.BioMed Central (BMC)GeneticaFacultad de Ciencias Biologicas y Ambientales2017info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttps://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-017-1057-8https://hdl.handle.net/10612/20495reponame:BULERIA. Repositorio Institucional de la Universidad de Leóninstname:Universidad de LeónInglésinfo:eu-repo/grantAgreement/MINECO/Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia/AGL2013-44714-Rhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:buleria.unileon.es:10612/204952026-06-24T12:43:27Z |
| dc.title.none.fl_str_mv |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| title |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| spellingShingle |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) Barrios Casado, Abel Biología Genética Lentil Deep Super-SAGE Gene expression Frost Stress Cold acclimation 2417.14 Genética Vegetal 2409.92 Genética Molecular de Plantas |
| title_short |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| title_full |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| title_fullStr |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| title_full_unstemmed |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| title_sort |
Deep Super-SAGE transcriptomic analysis of cold acclimation in lentil (Lens culinaris Medik.) |
| dc.creator.none.fl_str_mv |
Barrios Casado, Abel Caminero Saldaña, Constantino García García, Pedro, 1957- Krezdorn, Nicolas Hoffmeier, Klaus Winter, Peter Pérez de la Vega, Marcelino |
| author |
Barrios Casado, Abel |
| author_facet |
Barrios Casado, Abel Caminero Saldaña, Constantino García García, Pedro, 1957- Krezdorn, Nicolas Hoffmeier, Klaus Winter, Peter Pérez de la Vega, Marcelino |
| author_role |
author |
| author2 |
Caminero Saldaña, Constantino García García, Pedro, 1957- Krezdorn, Nicolas Hoffmeier, Klaus Winter, Peter Pérez de la Vega, Marcelino |
| author2_role |
author author author author author author |
| dc.contributor.none.fl_str_mv |
Genetica Facultad de Ciencias Biologicas y Ambientales |
| dc.subject.none.fl_str_mv |
Biología Genética Lentil Deep Super-SAGE Gene expression Frost Stress Cold acclimation 2417.14 Genética Vegetal 2409.92 Genética Molecular de Plantas |
| topic |
Biología Genética Lentil Deep Super-SAGE Gene expression Frost Stress Cold acclimation 2417.14 Genética Vegetal 2409.92 Genética Molecular de Plantas |
| description |
[EN] Background: Frost is one of the main abiotic stresses limiting plant distribution and crop production. To cope with the stress, plants evolved adaptations known as cold acclimation or chilling tolerance to maximize frost tolerance. Cold acclimation is a progressive acquisition of freezing tolerance by plants subjected to low non-freezing temperatures which subsequently allows them to survive exposure to frost. Lentil is a cool season grain legume that is challenged by winter frost in some areas of its cultivation. Results: To better understand the genetic base of frost tolerance differential gene expression in response to cold acclimation was investigated. Recombinant inbred lines (RILs) from the cross Precoz x WA8649041 were first classified as cold tolerant or cold susceptible according to their response to temperatures between -3 to -15 °C. Then, RILs from both extremes of the response curve were cold acclimated and the leaf transcriptomes of two bulks each of eight frost tolerant and seven cold susceptible RILs were investigated by Deep Super-SAGE transcriptome profiling. Thus, four RNA bulks were analysed: the acclimated susceptible, the acclimated tolerant and the respective controls (non-acclimated susceptible and non-acclimated tolerant). Approximately 16.5 million 26 nucleotide long Super-SAGE tags were sequenced in the four sets (between ~3 and 5.4 millions). In total, 133,077 different unitags, each representing a particular transcript isoform, were identified in these four sets. Tags which showed a significantly different abundance in any of the bulks (fold change ≥4.0 and a significant p-value <0.001) were selected and used to identify the corresponding lentil gene sequence. Three hundred of such lentil sequences were identified. Most of their known homologs coded for glycine-rich, cold and drought-regulated proteins, dormancy-associated proteins, proline-rich proteins (PRPs) and other membrane proteins. These were generally but not exclusively over-expressed in the acclimated tolerant lines. Conclusions: This set of candidate genes implicated in the response to frost in lentil represents an useful base for deeper and more detailed investigations into this important agronomic trait in future |
| publishDate |
2017 |
| dc.date.none.fl_str_mv |
2017 |
| dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion |
| format |
article |
| status_str |
publishedVersion |
| dc.identifier.none.fl_str_mv |
https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-017-1057-8 https://hdl.handle.net/10612/20495 |
| url |
https://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-017-1057-8 https://hdl.handle.net/10612/20495 |
| dc.language.none.fl_str_mv |
Inglés |
| language_invalid_str_mv |
Inglés |
| dc.relation.none.fl_str_mv |
info:eu-repo/grantAgreement/MINECO/Programa Estatal de Fomento de la Investigación Científica y Técnica de Excelencia/AGL2013-44714-R |
| dc.rights.none.fl_str_mv |
http://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess |
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http://creativecommons.org/licenses/by/4.0/ |
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openAccess |
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BioMed Central (BMC) |
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BioMed Central (BMC) |
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reponame:BULERIA. Repositorio Institucional de la Universidad de León instname:Universidad de León |
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Universidad de León |
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BULERIA. Repositorio Institucional de la Universidad de León |
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BULERIA. Repositorio Institucional de la Universidad de León |
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