Gloria López‐Casado

Universidad de Málaga

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Antonio J. Matas

Universidad de Málaga

José A. Mercado

Universidad de Málaga

Sara Posé

Universidad de Málaga

Rosario Blanco‐Portales

University of Córdoba

Antonio Heredia

Universidad de Málaga

Pablo Ric‐Varas

Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora"

J. Cuartero

Universidad de Zaragoza

Juan Muñoz‐Blanco

University of Córdoba

Patricia A. Bedinger

Colorado State University

Paul A. Covey

Agricultural Research Service

Cooperative Institutions

Consejo Superior de Investigaciones Científicas

Universidad de Málaga

Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora"

Cornell University

Colorado State University

Instituto de Biología Molecular y Celular de Plantas

Universitat Politècnica de València

United States Department of Agriculture

University of Córdoba

Andalusian Institute of Agricultural and Fisheries Research and Training

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Elucidating the role of polygalacturonase genes in strawberry fruit softening

Journal of Experimental Botany (2020)

Candelas Paniagua Pablo Ric‐Varas J.A. García-Gago Gloria López‐Casado Rosario Blanco‐Portales

To disentangle the role of polygalacturonase (PG) genes in strawberry softening, the two PG genes most expressed in ripe receptacles, FaPG1 and FaPG2, were down-regulated. Transgenic ripe fruits were firmer than those of the wild type when PG genes were silenced individually. Simultaneous silencing of both PG genes by transgene stacking did not result in an additional increase in firmness. Cell walls from ripe fruits were characterized by a carbohydrate microarray. Higher signals of homogalacturonan and rhamnogalacturonan I pectin epitopes in polysaccharide fractions tightly bound to the cell wall were observed in the transgenic genotypes, suggesting a lower pectin solubilization. At the transcriptomic level, the suppression of FaPG1 or FaPG2 alone induced few transcriptomic changes in the ripe receptacle, but the amount of differentially expressed genes increased notably when both genes were silenced. Many genes encoding cell wall-modifying enzymes were down-regulated. The expression of a putative high affinity potassium transporter was induced in all transgenic genotypes, indicating that cell wall weakening and loss of cell turgor could be linked. These results suggest that, besides the disassembly of pectins tightly linked to the cell wall, PGs could play other roles in strawberry softening, such as the release of oligogalacturonides exerting a positive feedback in softening.

Fragaria

10.1093/jxb/eraa398

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Citations (57)

Enabling proteomic studies with RNA‐Seq: The proteome of tomato pollen as a test case

PROTEOMICS (2012)

Gloria López‐Casado Paul A. Covey Patricia A. Bedinger Lukas A. Mueller Theodore W. Thannhauser

Effective proteome profiling is generally considered to depend heavily on the availability of a high‐quality DNA reference database. As such, proteomics has long been taxonomically restricted, with limited inroads being made into the proteomes of “non‐model” organisms. However, next generation sequencing (NGS), and particularly RNA‐Seq, now allows deep coverage detection of expressed genes at low cost, which in turn potentially facilitates the matching of peptide mass spectra with cognate gene sequence. To test this, we performed a quantitative analysis of the proteomes of pollen from domesticated tomato ( Solanum lycopersicum ) and two wild relatives that exhibit differences in mating systems and in interspecific reproductive barriers. Using a custom tomato RNA‐Seq database created through 454 pyrosequencing, more than 1200 proteins were identified, with subsets showing expression differences between genotypes or in the accumulation of the corresponding transcripts. Importantly, no major qualitative or quantitative differences were observed in the characterized proteomes when mass spectra were used to interrogate either a highly curated community database of tomato sequences generated through traditional sequencing technologies, or the RNA‐Seq database. We conclude that RNA‐Seq provides a cost‐effective and robust platform for protein identification and will be increasingly valuable to the field of proteomics.

Proteome

Proteogenomics

RNA-Seq

10.1002/pmic.201100164

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Multi-environment QTL mapping reveals genetic architecture of fruit cracking in a tomato RIL Solanum lycopersicum × S. pimpinellifolium population

Theoretical and Applied Genetics (2016)

Carmen Capel Fernando J. Yuste‐Lisbona Gloria López‐Casado Trinidad Angosto J. Cuartero

Epistasis

Genetic architecture

Marker-Assisted Selection

Molecular marker

10.1007/s00122-016-2809-9

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Citations (42)

複数環境QTLマッピングは,Solanum lycopersicum×S.pimpinellifoliumに由来するトマトRIL集団における裂果の遺伝的構造を明らかにする

Theoretical and Applied Genetics (2017)

C Galán Carmen José Fernando Gloria López‐Casado Angosto Trinidad Cuartero Jesus

Plant biochemistry

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Developmental onset of reproductive barriers and associated proteome changes in stigma/styles ofSolanum pennellii

Journal of Experimental Botany (2012)

Chalivendra C. Subbaiah Gloria López‐Casado Aruna Kumar Alina Kassenbrock Suzanne M. Royer

Although self-incompatibility (SI) in plants has been studied extensively, far less is known about interspecific reproductive barriers. One interspecific barrier, known as unilateral incongruity or incompatibility (UI), occurs when species display unidirectional compatibility in interspecific crosses. In the wild tomato species Solanum pennellii, both SI and self-compatible (SC) populations express UI when crossed with domesticated tomato, offering a useful model system to dissect the molecular mechanisms involved in reproductive barriers. In this study, the timing of reproductive barrier establishment during pistil development was determined in SI and SC accessions of S. pennellii using a semi-in vivo system to track pollen-tube growth in developing styles. Both SI and UI barriers were absent in styles 5 days prior to flower opening, but were established by 2 days before flower opening, with partial barriers detected during a transition period 3-4 days before flower opening. The developmental expression dynamics of known SI factors, S-RNases and HT proteins, was also examined. The accumulation of HT-A protein coincided temporally and spatially with UI barriers in developing pistils. Proteomic analysis of stigma/styles from key developmental stages showed a switch in protein profiles from cell-division-associated proteins in immature stigma/styles to a set of proteins in mature stigma/styles that included S-RNases, HT-A protein and proteins associated with cell-wall loosening and defense responses, which could be involved in pollen-pistil interactions. Other prominent proteins in mature stigma/styles were those involved in lipid metabolism, consistent with the accumulation of lipid-rich material during pistil maturation.

Stigma

Proteome

10.1093/jxb/ers324

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Highly efficient genomics-assisted development of a library of introgression lines of Solanum pimpinellifolium

Molecular Breeding (2014)

Walter Barrantes Asun Fernández‐del‐Carmen Gloria López‐Casado María Ángeles González-Sánchez R. Fernández-Muñoz

Introgression

SNP genotyping

10.1007/s11032-014-0141-0

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Citations (35)

Optimización de la transfección de protoplastos para la edición génica en fresa

Cristina Sánchez-Raya Gloria López‐Casado Rosario Blanco‐Portales Sara Posé Fernando Pliego‐Alfaro

Esta investigacion ha sido financiada por los fondos FEDER EU, el Ministerio de Economia y Competitividad de Espana (AGL2017-86531-C2-1-R), y el contrato FPI PRE2018-085509.

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Systems Biology of Tomato Fruit Development: Combined Transcript, Protein, and Metabolite Analysis of Tomato Transcription Factor (nor, rin) and Ethylene Receptor (Nr) Mutants Reveals Novel Regulatory Interactions

PLANT PHYSIOLOGY (2011)

Sonia Osorio Rob Alba C. M. B. Damasceno Gloria López‐Casado Marc Lohse

Abstract Tomato (Solanum lycopersicum) is an established model to study fleshy fruit development and ripening. Tomato ripening is regulated independently and cooperatively by ethylene and transcription factors, including nonripening (NOR) and ripening-inhibitor (RIN). Mutations of NOR, RIN, and the ethylene receptor Never-ripe (Nr), which block ethylene perception and inhibit ripening, have proven to be great tools for advancing our understanding of the developmental programs regulating ripening. In this study, we present systems analysis of nor, rin, and Nr at the transcriptomic, proteomic, and metabolomic levels during development and ripening. Metabolic profiling marked shifts in the abundance of metabolites of primary metabolism, which lead to decreases in metabolic activity during ripening. When combined with transcriptomic and proteomic data, several aspects of the regulation of metabolism during ripening were revealed. First, correlations between the expression levels of a transcript and the abundance of its corresponding protein were infrequently observed during early ripening, suggesting that posttranscriptional regulatory mechanisms play an important role in these stages; however, this correlation was much greater in later stages. Second, we observed very strong correlation between ripening-associated transcripts and specific metabolite groups, such as organic acids, sugars, and cell wall-related metabolites, underlining the importance of these metabolic pathways during fruit ripening. These results further revealed multiple ethylene-associated events during tomato ripening, providing new insights into the molecular biology of ethylene-mediated ripening regulatory networks.

Metabolic pathway

10.1104/pp.111.175463

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Enhancing Strawberry Fruit Firmness by Suppressing the Rhamnogalacturonan Lyase Gene <i>FaRGLyase1</i>

Pablo Ric‐Varas Candelas Paniagua Gloria López‐Casado Francisco Javier Molina‐Hidalgo Julia Schückel

Plant rhamnogalacturonan lyases (RGLyases) cleave the backbone of rhamnogalacturonan I (RGI), the “hairy” pectin and polymer of the disaccharide rhamnose (Rha)-galacturonic acid (GalA) with arabinan, galactan or arabinogalactan side chains. It has been suggested that RGLyases could participate in remodeling cell walls during fruit softening, but clear evidence has not been reported. To investigate the role of RGLyases in strawberry softening, a genome-wide analysis of RGLyase genes in the genus Fragaria was performed. Seventeen genes encoding RGLyases with functional domains were identified in Fragaria × ananassa. FaRGLyase1 was the most expressed in the ripe receptacle. Transgenic strawberry plants expressing an RNAi sequence of FaRGLyase1 were obtained. Three transgenic lines yielded ripe fruits firmer than controls without other fruit quality parameters being significantly affected. The highest increase in firmness achieved was close to 32%. Cell walls were isolated from ripe fruits of two selected lines. The amount of water-soluble and chelated pectins was higher in transgenic lines than in the control. A carbohydrate microarray study showed a higher abundance of RGI epitopes in pectin fractions and in the cellulose-enriched fraction obtained from transgenic lines. Sixty-seven genes were differentially expressed in transgenic ripe fruits when compared with controls. These genes were involved in various physiological processes, including cell wall remodeling, ion homeostasis, lipid metabolism, protein degradation, stress response, and defense. The transcriptomic changes observed in FaRGLyase1 plants suggest that senescence was delayed in transgenic fruits.

10.2139/ssrn.4616078

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Downregulation of NAC transcription factors modifies cell wall composition and increases strawberry fruit firmness

Pablo Ric‐Varas Sara Posé Gloria López‐Casado Susan E. Marcus Pauline G. Knox

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