Characterization of microsatellite markers in mandarin orange (<i>Citrus reticulata</i> Blanco)

Froelicher, Yann; Dambier, Dominique; Bassene, Jean Baptiste; Costantino, Gilles; Lotfy, Samia; Didout, Christophe; Beaumont, Vincent; Brottier, Philippe; Risterucci, Ange-Marie; Luro, François; Ollitrault, Patrick

doi:10.1111/j.1471-8286.2007.01893.x

Cited by 94 publications

(46 citation statements)

References 6 publications

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“…Only a limited number of SSRs markers obtained from genomic libraries have been published (Kijas et al 1995;Corazza-Nunes et al 2002;Novelli et al 2006;Barkley et al 2006;Froelicher et al 2008). The implementation of large EST databases has allowed the development of many more SSRs markers.…”

Section: Nuclear Marker Developmentmentioning

confidence: 99%

Citrus genomics

Gmitter

Chen

Machado³

et al. 2012

Tree Genetics & Genomes

103

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Citrus fruits (sweet orange, mandarin, pummelo, grapefruit, lemon, lime and assorted hybrids) are among the most widely grown and economically important fruit tree crops in the world. As fresh fruit, they are an important and nutrient dense food source for human diets; as processed juice products, primarily sweet orange juice, they represent a globally traded commodity. To support genetic improvement efforts for this important crop, the international citrus genetics community has collaborated with international sequencing centers in the development of freely available genomic resources, some of which are described herein. Most notable, two full-length annotated genome assemblies have been produced and made available to the global research community. The first genome, based exclusively on Sanger sequencing, is from a haploid plant derived from 'Clementine' mandarin, to serve as the reference genome for citrus. A second genome assembly was produced from the sweet orange clone 'Ridge Pineapple', this was done primarily with 454 technology. Extensive EST datasets and a number of microarray platforms for exploring the transcriptomic responses of citrus species and hybrids to a wide range of conditions have been shared, to support exploitation and utilization of genome sequence information. As many researchers in the citrus genomics community are also actively engaged in genetic improvement programs, there has been a natural integration of improvement efforts with the rapidly evolving genomic tools. Examples described below include work designed to better understand the control of gene expression in citrus polyploids, which are being used in development of seedless triploid selections or as rootstocks; unraveling the molecular mechanisms of host-pathogen interactions to devise novel genetic strategies to overcome a multitude of devastating diseases that currently threaten citrus production globally; and the mining of SSR and SNP markers for linkage studies to enable marker-assisted parental selection and breeding strategies, illustrated bywork on two citrus traits, nucellar embryony and juvenility, which significantly impact breeding approaches. Citrus genome resources are available through publicly available web portals, through the USDOEJGI (phytozome.net) and Tree Fruit Genome Database Resources (tfGDR, citrusgenomedb.org). Work is continuing to expand and improve the citrus genome sequence resources and tools, to enable application of sequence-derived knowledge in improving citrus plants and to managing better their interactions with biotic and abiotic factors. (Résumé d'auteur

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Section: Nuclear Marker Developmentmentioning

confidence: 99%

Citrus genomics

Gmitter

Chen

Machado³

et al. 2012

Tree Genetics & Genomes

103

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“…Single-stranded conformational polymorphism (SSCP) analysis has been used for cytoplasm characterization (Olivares-Fuster et al, 2007). In the last 10 years, a limited number of Simple Sequence Repeat (SSRs) have been derived from genomic libraries (Kijas et al, 1997;Barkley et al, 2006;Froelicher et al, 2008): 56 SSRs were obtained from the Genbank citrus EST data (Chen et al, 2006) and more than 200 SSR markers have been developed from the 1,600 microsatellite sequences from 37,000 ESTs characterized by Terol et al (2007). The same group identified more than 7,600 SSRs from BAC end sequencing (Terol et al, 2008) that have been used to develop SSR markers allowing direct anchoring of the genetic and physical maps (Ollitrault et al, 2012a).…”

Section: Molecular Markers and Genetic Maps In Citrusmentioning

confidence: 99%

“…The same group identified more than 7,600 SSRs from BAC end sequencing (Terol et al, 2008) that have been used to develop SSR markers allowing direct anchoring of the genetic and physical maps (Ollitrault et al, 2012a). In addition to genetic mapping, SSRs have been used for the analysis of genetic diversity (Luro et al, 2001;Barkley et al, 2006;García-Lor et al, 2013b), characterization of somatic hybrids, discrimination between zygotic and nucellar seedlings (Ruiz et al, 2000;Ruiz and Asins, 2003), control of the origin of plants obtained by induced gynogenesis (Froelicher et al, 2007), molecular characterization of triploid cultivars (Aleza et al, 2010a; and the analysis of the origin of unreduced gametes (Luro et al, 2004;Chen et al, 2008a).…”

Section: Molecular Markers and Genetic Maps In Citrusmentioning

confidence: 99%

Mechanisms of sexual polyploidization and inheritance in triploid citrus populations

Cuenca¹

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Durante estos años, muchas han sido las personas que han contribuido de una forma o de otra en el desarrollo de esta tesis, por lo que gran parte de ella les pertenece. A todos ellos, debo y quiero expresarles mi gratitud.En primer lugar, quiero dar las gracias al IVIA y a su ex-director, Dr. Florentino Juste, por haberme dado la oportunidad de desarrollar mi trabajo en este centro. Quiero agradecer al Dr. Luis Navarro su confianza en mí para trabajar en su grupo (hace ahora 13 años) y realizar posteriormente esta tesis doctoral bajo su dirección. Durante todos estos años, su consejo y guía han sido imprescindibles para mi formación como profesional. Quiero agradecer de forma especial al Dr. Patrick Ollitrault, codirector de esta tesis, su apoyo y confianza en mi trabajo desde el principio. Su gran capacidad para orientar las investigaciones ha sido definitiva para el desarrollo de esta tesis, la cual no se habría podido concebir sin su inestimable participación. Quiero dar las gracias también a mi tutora, Dra. Mª José Díez, por estar siempre dispuesta a ayudar en cualquier tarea necesaria para el desarrollo de la tesis.Quiero dar las gracias a mis compañeros del Laboratorio de Cultivo de Tejidos. A Pepe Juárez, su apoyo incondicional y confianza en mi; siempre he recibido de él buenos consejos y me ha enseñado todo lo que puedo saber sobre cultivo in vitro. A Pablo Aleza debo agradecerle, ante todo, su amistad y, por supuesto, su colaboración en todos los trabajos desarrollados en esta tesis. Gracias también a Juana Mª, Carmen, Toni, Vio, Cloti y Marga por ayudarme siempre en todo lo que he necesitado. Quiero agradecer a mis compañeros del laboratorio CIRAD-IVIA, su inestimable ayuda en este trabajo y su paciencia para aguantarme (Frederique, Juan, María, Marta, Ana, Houssem). De forma especial, quiero dar las gracias a Andrés (Dr. García-Lor et al) por su amistad, su gran predisposición a ayudarme y colaboración en esta tesis.Agradecer también a todos aquéllos que en algún momento me han aconsejado y guiado en mis investigaciones (José Guerri, Leandro Peña, Gema Ancillo, José A. Pina, Alejandro Medina). Gracias a todos mis compañeros del centro, tanto a los que trabajan en los laboratorios (Ana, Elsa, Nuria, Berta, Montse, Jesús, Karelia, Vero, Toni, Daniel, Sandra, Pilar, Sawsen) como a los que trabajan en el campo o invernaderos (Vicente Lloris, José Manuel, Octavio (Paco), Fran, Aurelio, José Lloris, Diego, Raquel, Toni, Ramón, Ferran) y, en especial, a Rafa Montalt y Josep Peris (xufa) por ser más amigos que compañeros. Quiero agradecer a todos los que, de alguna forma, han convivido conmigo durante estos años (administración, conserjería, cafetería, limpieza, mantenimiento). Quiero recordar también a todos los que han pasado por el IVIA durante un tiempo más o menos largo (Magda, Mamen, Pedro, Álida, Giovanni, Jorge, Regina, Inma, Diana, Ezequiel, Lucía, Águeda, Marta, Esther) y especialmente a Mari Cruz, Frank, Rosa y José Manuel, con los que he convivido intensamente durante varios años.Por supuesto, q...

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“…Ten SSR (Simple Sequence Repeats) loci isolated by Froelicher et al (2008) from C. reticulata and Novelli et al (2006) from C. sinensis were screened on the DNA from the leaves and 3 were selected for their heterozygosity in parental genotype: Ci08C05, mCrCIR01B10 ) and CCSM147 (Novelli et al 2006). These loci were used for assessing the allelic pattern of the embryo, as described in Chiancone et al (2015).…”

Section: Allelic Pattern Detection By Ssr Analysismentioning

confidence: 99%

Ploidy manipulation for genetic improvement in some Mediterranean fruit crops

Cimò¹

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I ACKNOWLEDGMENTS I am extremely grateful to my supervisor, Prof. Maria Antonietta Germanà, for giving me her trust, for her patience, understanding and affection, for her expert guidance, time and dedication in my training and planning, development and completion of this thesis.I would like to thank all the staff and colleagues of the 'Università degli Studi di Palermo' for their technical assistance, help and cooperation during my research work.I would like to express my sincere gratitude to my co-supervisor, Dra Marisa Badenes, for making me feel part of her team, for all her efforts, support, constant encouragement and useful suggestions.I am thankful to Mar Naval for her guidance, patience and persistence during my invaluable experience at the 'Instituto Valenciano de Investigaciones Agrarias' (IVIA).I would like to thank all the working group of the 'Fruit Tree Breeding Department' of the IVIA for their cooperation, hospitality and friendship, and to the 'Tissue Culture' group, especially to Pablo Aleza, for his help and disinterested advice.I am grateful to Manuel Agustí, Carmina Reig, Carlos Mesejo and all the working group of the 'Instituto Agroforestal Mediterráneo' (IAM) for kindly welcoming and supporting me during my stay at the 'Universitat Politècnica de València' (UPV).I am thankful to Jose M. Seguí-Simarro and all the group of the 'Instituto para la Conservación y la Mejora de la Agrodiversidad Valenciana' (COMAV) for their dedication in my training and improvement on the isolated microspores in vitro culture techniques.Special thanks to all my friends and to all the amazing people I have met during these years, who have supported me and led me thus far.Many thanks to my family for having always encouraged and supported me in all my choices and for their great endurance during my long stay away from them.To Ana Luisa, for all the love you gave me, for being always remained at my side, for your endless and invaluable presence. All this would not be possible without you... Todo llega para el que sabe esperar.( Pherograms of the microsatellite markers UDAP-468 profiles of the mother plant (top) and two 'Filippo Ceo' regenerants. The mother plant is heterozygous and carries two alleles, the regenerants show only one of the mother plant alleles. The presence of alternative alleles from the mother plant has been considered as support for the gametic origin of regenerants 51 Table 4.2 Anthers culture responses to the seven genotypes tested 81 Table 4.3 Anthers culture responses to the four culture media tested three months after culture 83 Regarding the almond anther culture, formation of calli and production of embryos was achieved through the direct embryogenesis route. On then other hand, early embryo regeneration is reported, for the first time, from isolated microspore culture of mandarin, 'Mandarino Tardivo di Ciaculli'.Our results report the evidence of gametic embryogenesis and the production of homozygous regenerants in almond and mandarin, two species extremely recalcitrant to micr...

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Characterization of microsatellite markers in mandarin orange (Citrus reticulata Blanco)

Cited by 94 publications

References 6 publications

Citrus genomics

Citrus genomics

Mechanisms of sexual polyploidization and inheritance in triploid citrus populations

Ploidy manipulation for genetic improvement in some Mediterranean fruit crops

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