XTHs from Fragaria vesca: Genomic structure and transcriptomic analysis in ripening fruit and other tissues

María Cecilia Opazo, Rodrigo Lizana, Yazmina Stappung, Thomas M. Davis, Raúl Herrera, María Alejandra Moya-León

Resultado de la investigación: Article

4 Citas (Scopus)

Resumen

Background: Fragaria vesca or 'woodland strawberry' has emerged as an attractive model for the study of ripening of non-climacteric fruit. It has several advantages, such as its small genome and its diploidy. The recent availability of the complete sequence of its genome opens the possibility for further analysis and its use as a reference species. Fruit softening is a physiological event and involves many biochemical changes that take place at the final stages of fruit development; among them, the remodeling of cell walls by the action of a set of enzymes. Xyloglucan endotransglycosylase/hydrolase (XTH) is a cell wall-associated enzyme, which is encoded by a multigene family. Its action modifies the structure of xyloglucans, a diverse group of polysaccharides that crosslink with cellulose microfibrills, affecting therefore the functional structure of the cell wall. The aim of this work is to identify the XTH-encoding genes present in F. vesca and to determine its transcription level in ripening fruit. Results: The search resulted in identification of 26 XTH-encoding genes named as FvXTHs. Genetic structure and phylogenetic analyses were performed allowing the classification of FvXTH genes into three phylogenetic groups: 17 in group I/II, 2 in group IIIA and 4 in group IIIB. Two sequences were included into the ancestral group. Through a comparative analysis, characteristic structural protein domains were found in FvXTH protein sequences. In complement, expression analyses of FvXTHs by qPCR were performed in fruit at different developmental and ripening stages, as well as, in other tissues. The results showed a diverse expression pattern of FvXTHs in several tissues, although most of them are highly expressed in roots. Their expression patterns are not related to their respective phylogenetic groups. In addition, most FvXTHs are expressed in ripe fruit, and interestingly, some of them (FvXTH 18 and 20, belonging to phylogenic group I/II, and FvXTH 25 and 26 to group IIIB) display an increasing expression pattern as the fruit ripens. Conclusion: A discrete group of FvXTHs (18, 20, 25 and 26) increases their expression during softening of F. vesca fruit, and could take part in cell wall remodeling required for softening in collaboration with other cell wall degrading enzymes.

Idioma originalEnglish
Número de artículo852
PublicaciónBMC Genomics
Volumen18
N.º1
DOI
EstadoPublished - 7 nov 2017
Publicado de forma externa

Huella dactilar

Fragaria
Fruit
Cell Wall
Hydrolases
Enzymes
Genome
Genes
Genetic Structures
Multigene Family
Diploidy
Cellulose
Polysaccharides

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Citar esto

Opazo, M. C., Lizana, R., Stappung, Y., Davis, T. M., Herrera, R., & Moya-León, M. A. (2017). XTHs from Fragaria vesca: Genomic structure and transcriptomic analysis in ripening fruit and other tissues. BMC Genomics, 18(1), [852]. https://doi.org/10.1186/s12864-017-4255-8
Opazo, María Cecilia ; Lizana, Rodrigo ; Stappung, Yazmina ; Davis, Thomas M. ; Herrera, Raúl ; Moya-León, María Alejandra. / XTHs from Fragaria vesca : Genomic structure and transcriptomic analysis in ripening fruit and other tissues. En: BMC Genomics. 2017 ; Vol. 18, N.º 1.
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title = "XTHs from Fragaria vesca: Genomic structure and transcriptomic analysis in ripening fruit and other tissues",
abstract = "Background: Fragaria vesca or 'woodland strawberry' has emerged as an attractive model for the study of ripening of non-climacteric fruit. It has several advantages, such as its small genome and its diploidy. The recent availability of the complete sequence of its genome opens the possibility for further analysis and its use as a reference species. Fruit softening is a physiological event and involves many biochemical changes that take place at the final stages of fruit development; among them, the remodeling of cell walls by the action of a set of enzymes. Xyloglucan endotransglycosylase/hydrolase (XTH) is a cell wall-associated enzyme, which is encoded by a multigene family. Its action modifies the structure of xyloglucans, a diverse group of polysaccharides that crosslink with cellulose microfibrills, affecting therefore the functional structure of the cell wall. The aim of this work is to identify the XTH-encoding genes present in F. vesca and to determine its transcription level in ripening fruit. Results: The search resulted in identification of 26 XTH-encoding genes named as FvXTHs. Genetic structure and phylogenetic analyses were performed allowing the classification of FvXTH genes into three phylogenetic groups: 17 in group I/II, 2 in group IIIA and 4 in group IIIB. Two sequences were included into the ancestral group. Through a comparative analysis, characteristic structural protein domains were found in FvXTH protein sequences. In complement, expression analyses of FvXTHs by qPCR were performed in fruit at different developmental and ripening stages, as well as, in other tissues. The results showed a diverse expression pattern of FvXTHs in several tissues, although most of them are highly expressed in roots. Their expression patterns are not related to their respective phylogenetic groups. In addition, most FvXTHs are expressed in ripe fruit, and interestingly, some of them (FvXTH 18 and 20, belonging to phylogenic group I/II, and FvXTH 25 and 26 to group IIIB) display an increasing expression pattern as the fruit ripens. Conclusion: A discrete group of FvXTHs (18, 20, 25 and 26) increases their expression during softening of F. vesca fruit, and could take part in cell wall remodeling required for softening in collaboration with other cell wall degrading enzymes.",
keywords = "Cell wall disassembling, Fragaria vesca, Fruit ripening, Fruit softening, QPCR analysis, Woodland strawberry, XTH gene family, Xyloglucan endotransglycosylase/hydrolase",
author = "Opazo, {Mar{\'i}a Cecilia} and Rodrigo Lizana and Yazmina Stappung and Davis, {Thomas M.} and Ra{\'u}l Herrera and Moya-Le{\'o}n, {Mar{\'i}a Alejandra}",
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Opazo, MC, Lizana, R, Stappung, Y, Davis, TM, Herrera, R & Moya-León, MA 2017, 'XTHs from Fragaria vesca: Genomic structure and transcriptomic analysis in ripening fruit and other tissues', BMC Genomics, vol. 18, n.º 1, 852. https://doi.org/10.1186/s12864-017-4255-8

XTHs from Fragaria vesca : Genomic structure and transcriptomic analysis in ripening fruit and other tissues. / Opazo, María Cecilia; Lizana, Rodrigo; Stappung, Yazmina; Davis, Thomas M.; Herrera, Raúl; Moya-León, María Alejandra.

En: BMC Genomics, Vol. 18, N.º 1, 852, 07.11.2017.

Resultado de la investigación: Article

TY - JOUR

T1 - XTHs from Fragaria vesca

T2 - Genomic structure and transcriptomic analysis in ripening fruit and other tissues

AU - Opazo, María Cecilia

AU - Lizana, Rodrigo

AU - Stappung, Yazmina

AU - Davis, Thomas M.

AU - Herrera, Raúl

AU - Moya-León, María Alejandra

PY - 2017/11/7

Y1 - 2017/11/7

N2 - Background: Fragaria vesca or 'woodland strawberry' has emerged as an attractive model for the study of ripening of non-climacteric fruit. It has several advantages, such as its small genome and its diploidy. The recent availability of the complete sequence of its genome opens the possibility for further analysis and its use as a reference species. Fruit softening is a physiological event and involves many biochemical changes that take place at the final stages of fruit development; among them, the remodeling of cell walls by the action of a set of enzymes. Xyloglucan endotransglycosylase/hydrolase (XTH) is a cell wall-associated enzyme, which is encoded by a multigene family. Its action modifies the structure of xyloglucans, a diverse group of polysaccharides that crosslink with cellulose microfibrills, affecting therefore the functional structure of the cell wall. The aim of this work is to identify the XTH-encoding genes present in F. vesca and to determine its transcription level in ripening fruit. Results: The search resulted in identification of 26 XTH-encoding genes named as FvXTHs. Genetic structure and phylogenetic analyses were performed allowing the classification of FvXTH genes into three phylogenetic groups: 17 in group I/II, 2 in group IIIA and 4 in group IIIB. Two sequences were included into the ancestral group. Through a comparative analysis, characteristic structural protein domains were found in FvXTH protein sequences. In complement, expression analyses of FvXTHs by qPCR were performed in fruit at different developmental and ripening stages, as well as, in other tissues. The results showed a diverse expression pattern of FvXTHs in several tissues, although most of them are highly expressed in roots. Their expression patterns are not related to their respective phylogenetic groups. In addition, most FvXTHs are expressed in ripe fruit, and interestingly, some of them (FvXTH 18 and 20, belonging to phylogenic group I/II, and FvXTH 25 and 26 to group IIIB) display an increasing expression pattern as the fruit ripens. Conclusion: A discrete group of FvXTHs (18, 20, 25 and 26) increases their expression during softening of F. vesca fruit, and could take part in cell wall remodeling required for softening in collaboration with other cell wall degrading enzymes.

AB - Background: Fragaria vesca or 'woodland strawberry' has emerged as an attractive model for the study of ripening of non-climacteric fruit. It has several advantages, such as its small genome and its diploidy. The recent availability of the complete sequence of its genome opens the possibility for further analysis and its use as a reference species. Fruit softening is a physiological event and involves many biochemical changes that take place at the final stages of fruit development; among them, the remodeling of cell walls by the action of a set of enzymes. Xyloglucan endotransglycosylase/hydrolase (XTH) is a cell wall-associated enzyme, which is encoded by a multigene family. Its action modifies the structure of xyloglucans, a diverse group of polysaccharides that crosslink with cellulose microfibrills, affecting therefore the functional structure of the cell wall. The aim of this work is to identify the XTH-encoding genes present in F. vesca and to determine its transcription level in ripening fruit. Results: The search resulted in identification of 26 XTH-encoding genes named as FvXTHs. Genetic structure and phylogenetic analyses were performed allowing the classification of FvXTH genes into three phylogenetic groups: 17 in group I/II, 2 in group IIIA and 4 in group IIIB. Two sequences were included into the ancestral group. Through a comparative analysis, characteristic structural protein domains were found in FvXTH protein sequences. In complement, expression analyses of FvXTHs by qPCR were performed in fruit at different developmental and ripening stages, as well as, in other tissues. The results showed a diverse expression pattern of FvXTHs in several tissues, although most of them are highly expressed in roots. Their expression patterns are not related to their respective phylogenetic groups. In addition, most FvXTHs are expressed in ripe fruit, and interestingly, some of them (FvXTH 18 and 20, belonging to phylogenic group I/II, and FvXTH 25 and 26 to group IIIB) display an increasing expression pattern as the fruit ripens. Conclusion: A discrete group of FvXTHs (18, 20, 25 and 26) increases their expression during softening of F. vesca fruit, and could take part in cell wall remodeling required for softening in collaboration with other cell wall degrading enzymes.

KW - Cell wall disassembling

KW - Fragaria vesca

KW - Fruit ripening

KW - Fruit softening

KW - QPCR analysis

KW - Woodland strawberry

KW - XTH gene family

KW - Xyloglucan endotransglycosylase/hydrolase

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U2 - 10.1186/s12864-017-4255-8

DO - 10.1186/s12864-017-4255-8

M3 - Article

AN - SCOPUS:85033382744

VL - 18

JO - BMC Genomics

JF - BMC Genomics

SN - 1471-2164

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ER -