40
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Mango ( Mangifera indica L.) cv. Kent fruit mesocarp de novo transcriptome assembly identifies gene families important for ripening

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Fruit ripening is a physiological and biochemical process genetically programmed to regulate fruit quality parameters like firmness, flavor, odor and color, as well as production of ethylene in climacteric fruit. In this study, a transcriptomic analysis of mango ( Mangifera indica L.) mesocarp cv. “Kent” was done to identify key genes associated with fruit ripening. Using the Illumina sequencing platform, 67,682,269 clean reads were obtained and a transcriptome of 4.8 Gb. A total of 33,142 coding sequences were predicted and after functional annotation, 25,154 protein sequences were assigned with a product according to Swiss-Prot database and 32,560 according to non-redundant database. Differential expression analysis identified 2,306 genes with significant differences in expression between mature-green and ripe mango [1,178 up-regulated and 1,128 down-regulated ( FDR ≤ 0.05)]. The expression of 10 genes evaluated by both qRT-PCR and RNA-seq data was highly correlated ( R = 0.97), validating the differential expression data from RNA-seq alone. Gene Ontology enrichment analysis, showed significantly represented terms associated to fruit ripening like “cell wall,” “carbohydrate catabolic process” and “starch and sucrose metabolic process” among others. Mango genes were assigned to 327 metabolic pathways according to Kyoto Encyclopedia of Genes and Genomes database, among them those involved in fruit ripening such as plant hormone signal transduction, starch and sucrose metabolism, galactose metabolism, terpenoid backbone, and carotenoid biosynthesis. This study provides a mango transcriptome that will be very helpful to identify genes for expression studies in early and late flowering mangos during fruit ripening.

          Related collections

          Most cited references52

          • Record: found
          • Abstract: found
          • Article: not found

          Activities at the Universal Protein Resource (UniProt)

          The mission of the Universal Protein Resource (UniProt) (http://www.uniprot.org) is to provide the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequences and functional annotation. It integrates, interprets and standardizes data from literature and numerous resources to achieve the most comprehensive catalog possible of protein information. The central activities are the biocuration of the UniProt Knowledgebase and the dissemination of these data through our Web site and web services. UniProt is produced by the UniProt Consortium, which consists of groups from the European Bioinformatics Institute (EBI), the SIB Swiss Institute of Bioinformatics (SIB) and the Protein Information Resource (PIR). UniProt is updated and distributed every 4 weeks and can be accessed online for searches or downloads.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Genetics and control of tomato fruit ripening and quality attributes.

            Tomato ripening is a highly coordinated developmental process that coincides with seed maturation. Regulated expression of thousands of genes controls fruit softening as well as accumulation of pigments, sugars, acids, and volatile compounds that increase attraction to animals. A combination of molecular tools and ripening-affected mutants has permitted researchers to establish a framework for the control of ripening. Tomato is a climacteric fruit, with an absolute requirement for the phytohormone ethylene to ripen. This dependence upon ethylene has established tomato fruit ripening as a model system for study of regulation of its synthesis and perception. In addition, several important ripening mutants, including rin, nor, and Cnr, have provided novel insights into the control of ripening processes. Here, we describe how ethylene and the transcription factors associated with the ripening process fit together into a network controlling ripening.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              Source to sink: regulation of carotenoid biosynthesis in plants.

              Carotenoids are a diverse group of colourful pigments naturally found in plants, algae, fungi and bacteria. They play essential roles in development, photosynthesis, root-mycorrhizal interactions and the production of phytohormones, such as abscisic acid and strigolactone. Carotenoid biosynthesis is regulated throughout the life cycle of a plant with dynamic changes in composition matched to prevailing developmental requirements and in response to external environmental stimuli. There are key regulatory nodes in the pathway that control the flux of metabolites into the pathway and alter flux through the pathway. The molecular nature of the mechanisms regulating carotenoid biosynthesis, including evidence for metabolite feedback, transcription and epigenetic control as well as their accumulation, storage and degradation will be the focus of this review. 2010 Elsevier Ltd. All rights reserved.
                Bookmark

                Author and article information

                Contributors
                Journal
                Front Plant Sci
                Front Plant Sci
                Front. Plant Sci.
                Frontiers in Plant Science
                Frontiers Media S.A.
                1664-462X
                18 February 2015
                2015
                : 6
                : 62
                Affiliations
                [1] 1Laboratorio de Genética y Biología Molecular de Plantas, Centro de Investigación en Alimentación y Desarrollo Hermosillo, Sonora, Mexico
                [2] 2Instituto Nacional de Medicina Genómica, Unidad de Genómica de Poblaciones, Aplicada a la Salud, Facultad de Qumica UNAM, Delegación Tlalpan, Mexico DF
                [3] 3Laboratorio de Genómica Funcional y Comparativa, División de Biología Molecular, Instituto Potosino de Investigación Científica y Tecnológica San Luis Potosí (SLP), Mexico
                [4] 4Unidad Universitaria de Secuenciación Masiva de DNA, Instituto de Biotecnología/Universidad Nacional Autónoma de México Cuernavaca, Morelos, Mexico
                [5] 5United States Department of Agriculture – Agricultural Research Service, Subtropical Horticulture Research Station Miami, FL, USA
                Author notes

                Edited by: Ariel Orellana, Universidad Andres Bello, Chile

                Reviewed by: Jingfa Xiao, Beijing Institute of Genomics – Chinese Academy of Sciences, China; Jiayan Wu, Beijing Institute of Genomics – Chinese Academy of Sciences, China

                *Correspondence: Maria A. Islas-Osuna, Laboratorio de Genética y Biología Molecular de Plantas, Centro de Investigación en Alimentación y Desarrollo, Carretera Ejido La Victoria Km 0.6, Hermosillo, Sonora 83304, Mexico e-mail: islasosu@ 123456ciad.mx

                This article was submitted to Plant Genetics and Genomics, a section of the journal Frontiers in Plant Science.

                Article
                10.3389/fpls.2015.00062
                4332321
                25741352
                d0fb919d-3dd2-4177-b86d-baa8b919c10d
                Copyright © 2015 Dautt-Castro, Ochoa-Leyva, Contreras-Vergara, Pacheco-Sanchez, Casas-Flores, Sanchez-Flores, Kuhn and Islas-Osuna.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 19 November 2014
                : 24 January 2015
                Page count
                Figures: 4, Tables: 3, Equations: 0, References: 63, Pages: 12, Words: 0
                Categories
                Plant Science
                Original Research Article

                Plant science & Botany
                mangifera indica l.,mesocarp,fruit ripening,transcriptome,cell wall hydrolytic enzymes,ethylene,fruit quality

                Comments

                Comment on this article