227 results on '"Luro, François"'
Search Results
2. Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication
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Wu, G Albert, Prochnik, Simon, Jenkins, Jerry, Salse, Jerome, Hellsten, Uffe, Murat, Florent, Perrier, Xavier, Ruiz, Manuel, Scalabrin, Simone, Terol, Javier, Takita, Marco Aurélio, Labadie, Karine, Poulain, Julie, Couloux, Arnaud, Jabbari, Kamel, Cattonaro, Federica, Del Fabbro, Cristian, Pinosio, Sara, Zuccolo, Andrea, Chapman, Jarrod, Grimwood, Jane, Tadeo, Francisco R, Estornell, Leandro H, Muñoz-Sanz, Juan V, Ibanez, Victoria, Herrero-Ortega, Amparo, Aleza, Pablo, Pérez-Pérez, Julián, Ramón, Daniel, Brunel, Dominique, Luro, François, Chen, Chunxian, Farmerie, William G, Desany, Brian, Kodira, Chinnappa, Mohiuddin, Mohammed, Harkins, Tim, Fredrikson, Karin, Burns, Paul, Lomsadze, Alexandre, Borodovsky, Mark, Reforgiato, Giuseppe, Freitas-Astúa, Juliana, Quetier, Francis, Navarro, Luis, Roose, Mikeal, Wincker, Patrick, Schmutz, Jeremy, Morgante, Michele, Machado, Marcos Antonio, Talon, Manuel, Jaillon, Olivier, Ollitrault, Patrick, Gmitter, Frederick, and Rokhsar, Daniel
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Base Sequence ,Breeding ,Citrus ,Conserved Sequence ,Crops ,Agricultural ,Evolution ,Molecular ,Genetic Variation ,Genome ,Plant ,Molecular Sequence Data ,Sequence Analysis ,DNA ,Species Specificity - Abstract
Cultivated citrus are selections from, or hybrids of, wild progenitor species whose identities and contributions to citrus domestication remain controversial. Here we sequence and compare citrus genomes--a high-quality reference haploid clementine genome and mandarin, pummelo, sweet-orange and sour-orange genomes--and show that cultivated types derive from two progenitor species. Although cultivated pummelos represent selections from one progenitor species, Citrus maxima, cultivated mandarins are introgressions of C. maxima into the ancestral mandarin species Citrus reticulata. The most widely cultivated citrus, sweet orange, is the offspring of previously admixed individuals, but sour orange is an F1 hybrid of pure C. maxima and C. reticulata parents, thus implying that wild mandarins were part of the early breeding germplasm. A Chinese wild 'mandarin' diverges substantially from C. reticulata, thus suggesting the possibility of other unrecognized wild citrus species. Understanding citrus phylogeny through genome analysis clarifies taxonomic relationships and facilitates sequence-directed genetic improvement.
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- 2014
3. Cytological and molecular characterization of three gametoclones of Citrus clementina
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Germana, Maria, Aleza, Pablo, Carrera, Esther, Chen, Chunxian, Chiancone, Benedetta, Costantino, Gilles, Dambier, Dominique, Deng, Xiuxin, Federici, Claire T, Froelicher, Yann, Guo, Wenwu, Ibáñez, Victoria, Juárez, José, Kwok, Kevin, Luro, François, Machado, Marcos A, Naranjo, Miguel, Navarro, Luis, Ollitrault, Patrick, Ríos, Gabino, Roose, Mikeal L, Talon, Manuel, Xu, Qiang, and Gmitter, Fred G
- Abstract
Abstract Background Three gametoclonal plants of Citrus clementina Hort. ex Tan., cv. Nules, designated ESP, FRA, and ITA (derived from three labs in Spain, France, and Italy, respectively), were selected for cytological and molecular characterization in order to elucidate genomic rearrangements provoked by haploidization. The study included comparisons of their ploidy, homozygosity, genome integrity, and gene dosage, using chromosome counting, flow cytometry, SSR marker genotyping, and array-Comparative Genomic Hybridization (array-CGH). Results Chromosome counting and flow cytometry revealed that ESP and FRA were haploid, but ITA was tri-haploid. Homozygous patterns, represented by a single peak (allele), were observed among the three plants at almost all SSR loci distributed across the entire diploid donor genome. Those few loci with extra peaks visualized as output from automated sequencing runs, generally low or ambiguous, might result from amplicons of paralogous members at the locus, non-specific sites, or unexpected recombinant alleles. No new alleles were found, suggesting the genomes remained stable and intact during gametogenesis and regeneration. The integrity of the haploid genome also was supported by array-CGH studies, in which genomic profiles were comparable to the diploid control. Conclusions The presence of few gene hybridization abnormalities, corroborated by gene dosage measurements, were hypothetically due to the segregation of hemizygous alleles and minor genomic rearrangements occurring during the haploidization procedure. In conclusion, these plants that are valuable genetic and breeding materials contain completely homozygous and essentially intact genomes.
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- 2013
4. A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping
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Ollitrault, Patrick, Terol, Javier, Chen, Chunxian, Federici, Claire T, Lotfy, Samia, Hippolyte, Isabelle, Ollitrault, Frédérique, Bérard, Aurélie, Chauveau, Aurélie, Cuenca, Jose, Costantino, Gilles, Kacar, Yildiz, Mu, Lisa, Garcia-Lor, Andres, Froelicher, Yann, Aleza, Pablo, Boland, Anne, Billot, Claire, Navarro, Luis, Luro, François, Roose, Mikeal L, Gmitter, Frederick G, Talon, Manuel, and Brunel, Dominique
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Abstract Background Most modern citrus cultivars have an interspecific origin. As a foundational step towards deciphering the interspecific genome structures, a reference whole genome sequence was produced by the International Citrus Genome Consortium from a haploid derived from Clementine mandarin. The availability of a saturated genetic map of Clementine was identified as an essential prerequisite to assist the whole genome sequence assembly. Clementine is believed to be a ‘Mediterranean’ mandarin × sweet orange hybrid, and sweet orange likely arose from interspecific hybridizations between mandarin and pummelo gene pools. The primary goals of the present study were to establish a Clementine reference map using codominant markers, and to perform comparative mapping of pummelo, sweet orange, and Clementine. Results Five parental genetic maps were established from three segregating populations, which were genotyped with Single Nucleotide Polymorphism (SNP), Simple Sequence Repeats (SSR) and Insertion-Deletion (Indel) markers. An initial medium density reference map (961 markers for 1084.1 cM) of the Clementine was established by combining male and female Clementine segregation data. This Clementine map was compared with two pummelo maps and a sweet orange map. The linear order of markers was highly conserved in the different species. However, significant differences in map size were observed, which suggests a variation in the recombination rates. Skewed segregations were much higher in the male than female Clementine mapping data. The mapping data confirmed that Clementine arose from hybridization between ‘Mediterranean’ mandarin and sweet orange. The results identified nine recombination break points for the sweet orange gamete that contributed to the Clementine genome. Conclusions A reference genetic map of citrus, used to facilitate the chromosome assembly of the first citrus reference genome sequence, was established. The high conservation of marker order observed at the interspecific level should allow reasonable inferences of most citrus genome sequences by mapping next-generation sequencing (NGS) data in the reference genome sequence. The genome of the haploid Clementine used to establish the citrus reference genome sequence appears to have been inherited primarily from the ‘Mediterranean’ mandarin. The high frequency of skewed allelic segregations in the male Clementine data underline the probable extent of deviation from Mendelian segregation for characters controlled by heterozygous loci in male parents.
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- 2012
5. Inheritance and Quantitative Trait Loci Mapping of Aromatic Compounds from Clementine (Citrus × clementina Hort. ex Tan.) and Sweet Orange (C. × sinensis (L.) Osb.) Fruit Essential Oils
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Ferrer, Vincent, primary, Costantino, Gilles, additional, Paymal, Noémie, additional, Quinton, Carole, additional, Perdomo, Estefania Carrillo, additional, Paoli, Mathieu, additional, Mournet, Pierre, additional, Ollitrault, Patrick, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2023
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6. Investigation of Diversity by Analyzing the Polymorphism of SSR Markers and the Composition of Leaf and Fruit Essential Oils of 72 Mandarins (Citrus reticulata Blanco)
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Luro, François, primary, Paoli, Mathieu, additional, Marchi, Elodie, additional, Costantino, Gilles, additional, and Tomi, Félix, additional
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- 2023
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7. Inheritance and quantitative trait loci mapping of aromatic compounds from clementine (Citrus × clementina Hort. ex Tan.) and sweet orange (C. × sinensis (L.) Osb.) fruit essential oils
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Ferrer, Vincent, Costantino, Gilles, Paymal, Noémie, Quinton, Carole, Perdomo, Estefania Carrillo, Paoli, Mathieu, Mournet, Pierre, Ollitrault, Patrick, Tomi, Félix, Luro, François, Ferrer, Vincent, Costantino, Gilles, Paymal, Noémie, Quinton, Carole, Perdomo, Estefania Carrillo, Paoli, Mathieu, Mournet, Pierre, Ollitrault, Patrick, Tomi, Félix, and Luro, François
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Despite their importance in food processing, perfumery and cosmetics, the inheritance of sweet orange aromatic compounds, as well as their yield in the fruit peel, has been little analyzed. In the present study, the segregation of aromatic compounds was studied in an F1 population of 77 hybrids resulting from crosses between clementine and blood sweet orange. Fruit-peel essential oils (PEOs) extracted by hydrodistillation were analyzed by gas chromatography coupled with flame ionization detection. Genotyping by sequencing was performed on the parents and the hybrids. The resulting “clementine × sweet blood orange” genetic map consists of 710 SNP markers distributed in nine linkage groups (LGs), representing the nine citrus chromosomes, and spanning 1054 centimorgans. Twenty quantitative trait loci (QTLs) were identified, explaining between 20.5 and 55.0% of the variance of the major aromatic compounds and PEO yield. The QTLs for monoterpenes and aliphatic aldehydes predominantly colocalized on LGs 5 and 8, as did the two QTLs for PEO yield. The sesquiterpene QTLs were located on LGs 1, 3, 6 and 8. The detection of major QTLs associated with the synthesis of aliphatic aldehydes, known for their strong aromatic properties, open the way for marker-assisted selection.
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- 2023
8. Phylogenetic origin of limes and lemons revealed by cytoplasmic and nuclear markers
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Curk, Franck, Ollitrault, Frédérique, Garcia-Lor, Andres, Luro, François, Navarro, Luis, and Ollitrault, Patrick
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- 2016
9. Correspondence between the Compositional and Aromatic Diversity of Leaf and Fruit Essential Oils and the Pomological Diversity of 43 Sweet Oranges (Citrus x aurantium var sinensis L.)
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Ferrer, Vincent, primary, Paymal, Noémie, additional, Costantino, Gilles, additional, Paoli, Mathieu, additional, Quinton, Carole, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2023
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10. Investigations of the Chemical Composition and Aromatic Properties of Peel Essential Oils throughout the Complete Phase of Fruit Development for Two Cultivars of Sweet Orange (Citrus sinensis (L.) Osb.)
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Ferrer, Vincent, primary, Paymal, Noémie, additional, Quinton, Carole, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2022
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11. A nuclear phylogenetic analysis: SNPs, indels and SSRs deliver new insights into the relationships in the 'true citrus fruit trees' group (Citrinae, Rutaceae) and the origin of cultivated species
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Garcia-Lor, Andres, Curk, Franck, Snoussi-Trifa, Hager, Morillon, Raphael, Ancillo, Gema, Luro, François, Navarro, Luis, and Ollitrault, Patrick
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- 2013
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12. Influence of the rootstock and the ploidy level of the scion and the rootstock on sweet orange (Citrus sinensis) peel essential oil yield, composition and aromatic properties
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Ferrer, Vincent, Paymal, Noémie, Quinton, Carole, Costantino, Gilles, Paoli, Mathieu, Froelicher, Yann, Ollitrault, Patrick, Tomi, Félix, Luro, François, Ferrer, Vincent, Paymal, Noémie, Quinton, Carole, Costantino, Gilles, Paoli, Mathieu, Froelicher, Yann, Ollitrault, Patrick, Tomi, Félix, and Luro, François
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Rootstock is widely used for the cultivation of citrus fruits because it brings resistance or tolerance to diseases or environmental constrains and modulates the fruit quality. Polyploidization is a widespread improvement strategy in citrus. The objective was to evaluate the effect of rootstock and ploidy level on the composition of essential oils. Two trials were conducted, one displaying a 'Navelina' orange grafted on three rootstocks and a second combining two ploidy levels (di and tetraploid) of scion ('Pineapple' orange) and rootstock ('Carrizo' citrange). The composition of peel essential oil (PEO) was analyzed by gas chromatography coupled with mass spectrometry, and a panel of experts analyzed its flavor variation with a triangle test approach. The rootstock influenced the yield and composition of the orange PEO, with a low impact on flavor. Neither the rootstock nor the scion ploidy level affected the PEO yield. Only the tetraploid level of the scion significantly modified the PEO composition, reducing the oxygenated compound fraction. Sensitive significant differences were detected between the reference sample (diploid scion–diploid rootstock) and the three other combinations. These results suggest that for the profiling of an aromatic flavor, the rootstock is a key element as is the ploidy level of the scion.
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- 2022
13. Origine et évolution de la diversité des agrumes
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Luro, François, Costantino, Gilles, Ollitrault, Patrick, Curk, Franck, Luro, François, Costantino, Gilles, Ollitrault, Patrick, and Curk, Franck
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- 2022
14. Mapping of QTLs for citrus quality traits throughout the fruit maturation process on clementine (Citrus reticulata × C. sinensis) and mandarin (C. reticulata Blanco) genetic maps
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Khefifi, Hajer, Dumont, Doriane, Costantino, Gilles, Doligez, Agnès, Brito, Anna Carla, Bérard, Aurélie, Morillon, Raphaël, Ollitrault, Patrick, Luro, François, Khefifi, Hajer, Dumont, Doriane, Costantino, Gilles, Doligez, Agnès, Brito, Anna Carla, Bérard, Aurélie, Morillon, Raphaël, Ollitrault, Patrick, and Luro, François
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Citrus fruit quality is defined as the combination of physical and chemical traits; some of which may change during the ripening phase, e.g., acidity and sugar content. A clear understanding of their genetic control would be very helpful for marker-assisted breeding programs especially with regard to the juvenile phase and some reproductive features that hamper the selection of improved hybrids. A genetic study was thus performed on the heredity of quality traits and QTL detection based on segregation in a progeny generated from a cross between clementine cv “Commun” (Citrus × reticulata cv clementine) and mandarin cv “Willow leaf” (C. reticulata Blanco). Parental and consensus genetic linkage maps were constructed using 645 SNP and SSR markers. These maps were represented by 10 linkage groups in clementine and 12 linkage groups in mandarin, representing 75% and 58% respectively of the previously published clementine reference map. A total of 16 traits, including fruit mass, equatorial diameter, juice percentage, total soluble solids, acidity, pH, glucose, fructose, sucrose, and citric and malic acid concentrations were evaluated at three maturation dates. High variations indicating transgressive segregation were found for all traits, with normal or close to normal distributions. QTL analysis performed using the multiple QTL model allowed the detection of 34 QTLs on the three maps. QTLs were distributed in different linkage groups and generally detected at only one date of the ripening phase. The percentage of total variation explained ranged from 12 to 37% per QTL. Major QTLs (R2 ≥ 30%) were detected for equatorial diameter, glucose, and fructose (expressed in percentage dry matter) on linkage groups 8 and 9. Co-localization of QTLs controlling correlated and uncorrelated traits were mainly found on linkage groups 2, 4, 8, and 9, particularly between fruit mass and acidity.
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- 2022
15. Tetraploidization events by chromosome doubling of nucellar cells are frequent in apomictic citrus and are dependent on genotype and environment
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Aleza, Pablo, Froelicher, Yann, Schwarz, Sergio, Agustí, Manuel, Hernández, María, Juárez, José, Luro, François, Morillon, Raphael, Navarro, Luis, and Ollitrault, Patrick
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- 2011
16. Influence of the Rootstock and the Ploidy Level of the Scion and the Rootstock on Sweet Orange (Citrus sinensis) Peel Essential Oil Yield, Composition and Aromatic Properties
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Ferrer, Vincent, primary, Paymal, Noémie, additional, Quinton, Carole, additional, Costantino, Gilles, additional, Paoli, Mathieu, additional, Froelicher, Yann, additional, Ollitrault, Patrick, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2022
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17. Chemical variability of peel and leaf essential oils in the Citrus subgenus Papeda (swingle) and few relatives
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Baccati, Clémentine, Gibernau, Marc, Paoli, Mathieu, Ollitrault, Patrick, Tomi, Félix, Luro, François, Baccati, Clémentine, Gibernau, Marc, Paoli, Mathieu, Ollitrault, Patrick, Tomi, Félix, and Luro, François
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The Papeda Citrus subgenus includes several species belonging to two genetically distinct groups, containing mostly little-exploited wild forms of citrus. However, little is known about the potentially large and novel aromatic diversity contained in these wild citruses. In this study, we characterized and compared the essential oils obtained from peels and leaves from representatives of both Papeda groups, and three related hybrids. Using a combination of GC, GC-MS, and 13C-NMR spectrometry, we identified a total of 60 compounds in peel oils (PO), and 76 compounds in leaf oils (LO). Limonene was the major component in almost all citrus PO, except for C. micrantha and C. hystrix, where β-pinene dominated (around 35%). LO composition was more variable, with different major compounds among almost all samples, except for two citrus pairs: C. micrantha/C. hystrix and two accessions of C. ichangensis. In hybrid relatives, the profiles were largely consistent with their Citrus/Papeda parental lineage. This high chemical diversity, not only among the sections of the subgenus Papeda, but also between species and even at the intraspecific level, suggests that Papeda may be an important source of aroma diversity for future experimental crosses with field crop species.
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- 2021
18. Intercultivar diversity of Sour orange (Citrus aurantium L.) based on genetic markers, phenotypic characteristics, aromatic compounds and sensorial analysis
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Ferrer, Vincent, Costantino, Gilles, Paoli, Mathieu, Paymal, Noémie, Quinton, Carole, Ollitrault, Patrick, Tomi, Félix, Luro, François, Ferrer, Vincent, Costantino, Gilles, Paoli, Mathieu, Paymal, Noémie, Quinton, Carole, Ollitrault, Patrick, Tomi, Félix, and Luro, François
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Sour oranges (Citrus aurantium L.) are well known in the processing and cosmetics industries for the aromatic properties of their essential oils. Intercultivar genetic and aromatic diversity is not well documented. The objective of this study was to evaluate the impact of morphological selection and genetic mechanisms of varietal diversification (mutation or hybridization) on the aromatic and odor variability of sour orange essential oils. Forty-five sour orange accessions from INRAE-CIRAD citrus Biological Resources Center (France) were assessed for ten simple sequence repeat (SSR) and 54 single nucleotide polymorphism (SNP) markers, nine morphochemical fruit traits and with the aromatic components of leaf and peel essential oils. Thirty-nine sour oranges displayed no intercultivar molecular polymorphism and six genotypes originated from interspecific hybridizations involving sour orange, citron, pummelo or mandarin. The peel essential oil (PEO) diversity was low, in accordance with the genetic diversity. The predominance of limonene (>90%) prevents any possible correlation to be made between the composition and the variation in sensory profiles detected by panelists. Few compounds in the leaf essential oil (LEO), such as linalool, linalyl acetate, α-terpineol and geraniol were significantly different across sour oranges varieties. The morphological fruit attributes mainly used in varietal selection differed highly across the main genetically identical group of sour orange accessions. These results confirm that mutation can generate variability in aromatic compounds and aromas and that their exploitation requires an improvement in characterization processes.
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- 2021
19. Utilisation de caractères morphologiques, physiologiques et de marqueurs moléculaires pour l'évaluation de la diversité génétique de trois cultivars de clémentinier
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Chahidi, Bouchra, El-Otmani, Mohamed, Jacquemond, Camille, Tijane, M'hamed, El-Mousadik, Abdelhamid, Srairi, Ikbal, and Luro, François
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- 2008
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20. Influence of processing steps and fruit maturity on volatile concentrations in juices from clementine, mandarin, and their hybrids
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Barboni, Toussaint, Muselli, Alain, Luro, François, Desjobert, Jean-Marie, and Costa, Jean
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- 2010
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21. Chemical Variability of Peel and Leaf Essential Oils in the Citrus Subgenus Papeda (Swingle) and Few Relatives
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Baccati, Clémentine, primary, Gibernau, Marc, additional, Paoli, Mathieu, additional, Ollitrault, Patrick, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2021
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22. Intercultivar Diversity of Sour Orange (Citrus aurantium L.) Based on Genetic Markers, Phenotypic Characteristics, Aromatic Compounds and Sensorial Analysis
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Ferrer, Vincent, primary, Costantino, Gilles, additional, Paoli, Mathieu, additional, Paymal, Noémie, additional, Quinton, Carole, additional, Ollitrault, Patrick, additional, Tomi, Félix, additional, and Luro, François, additional
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- 2021
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23. Effect of environmental conditions on the yield of peel and composition of essential oils from citrus cultivated in Bahia (Brazil) and Corsica (France)
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Luro, François, Garcia Neves, Claudia, Costantino, Gilles, da Silva Gesteira, Abelmon, Paoli, Mathieu, Ollitrault, Patrick, Tomi, Félix, Micheli, Fabienne, Gibernau, Marc, Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales Corse - Antenne Corse (AGAP-Corse), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Universidade Estadual De Santa Cruz [Brazil] (UESC), Empresa Brasileira de Pesquisa Agropecuária (Embrapa), Ministério da Agricultura, Pecuária e Abastecimento [Brasil] (MAPA), Governo do Brasil-Governo do Brasil, Sciences pour l'environnement (SPE), Centre National de la Recherche Scientifique (CNRS)-Université Pascal Paoli (UPP), UMR CNRS 6134 Sciences pour l'environnnement - Laboratoire de Chimie des Produits Naturels (UMR 6134), and Université Pascal Paoli (UPP)
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Citrus ,[SDE.MCG]Environmental Sciences/Global Changes ,[SDV]Life Sciences [q-bio] ,F60 - Physiologie et biochimie végétale ,[SDV.SA.AGRO]Life Sciences [q-bio]/Agricultural sciences/Agronomy ,Pelure ,Composition des aliments ,rendement ,lcsh:Agriculture ,[CHIM.ANAL]Chemical Sciences/Analytical chemistry ,Q04 - Composition des produits alimentaires ,climate ,ComputingMilieux_MISCELLANEOUS ,cultural practices ,F07 - Façons culturales ,CPG-SM ,aromatic compounds ,lcsh:S ,genetic diversity ,Facteur du milieu ,Composé aromatique ,Pratique culturale ,[SDE]Environmental Sciences ,Huile essentielle ,[SDV.AEN]Life Sciences [q-bio]/Food and Nutrition - Abstract
International audience; The cosmetic and fragrance industry largely exploits citrus essential oils (EOs) because of their aromatic properties. EO compositions are complex and differ between fruit pericarp (PEO) and leaf (LEO). Citrus fruit grow in many countries under very different climates. Seventeen citrus cultivars were selected and their similarities between the two collections were verified by SSR (Single Sequence Repeat) and InDel (Insertion and Deletion) markers to assess the effects of the environment and cultivation practices on the EO yield and composition. LEOs and PEOs were extracted by water distillation and analyzed by GC-MS. PEO yields were generally higher in Corsica than in Bahia, especially in the citron family. PEOs in this family were richer in limonene in Bahia than in Corsica while, conversely, neral, geranial and derivatives were present in a higher proportion in Corsican varieties. A few minor components were site-specific, such as nookaton, a pummelo-specific compound that was not present in grapefruit cultivated in Bahia. If climate change over the last 20 years has not affected the PEO composition in Corsica, the contrasted environmental conditions and cultural practices between Bahia and Corsica could possibly explain the EO variations.
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- 2020
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24. Abscission of orange fruit (Citrus sinensis (L.) Osb.) in the Mediterranean basin depends more on environmental conditions than on fruit ripeness
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Khefifi, Hajer, Selmane, Rim, Ben Mimoun, Mehdi, Tadeo, Francisco, Morillon, Raphaël, Luro, François, Khefifi, Hajer, Selmane, Rim, Ben Mimoun, Mehdi, Tadeo, Francisco, Morillon, Raphaël, and Luro, François
- Abstract
Orange fruit abscission usually occurs at the final stage of fruit maturation but in some areas of citrus production, in advance of the usual harvest period, and sometimes suddenly and intensely. The reasons for this precocious citrus fruit abscission remains unclear. Therefore, the aim of this study was to try to clarify what the determinants of this phenomenon are. A multi-site experimentation was carried out on six orange cultivars, in Corsica, Spain and Tunisia where the phenomenon of early massive fruit drop varies. Climatic parameters, fruit maturity parameters and fruit detachment force (FDF) were recorded along the fruit maturation period. Respectively to the fruit drop, the FDF decreased in Tunisia and in Spain until the fruit falls, whereas in Corsica, it remained relatively constant throughout fruit maturation. Although data on fruit maturity parameters (rind color, acidity and total soluble solids) differed at the three sites, their evolution was similar during the period of maturation. FDF was not related to changes in any fruit maturity parameters, and more likely depended on changes in temperatures on days when the mean temperature was above 13 °C. Massive fruit abscission could be linked to the earlier more rapid restart of vegetative growth in Tunisia and Spain than in Corsica.
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- 2020
25. Abscission of Orange Fruit (Citrus sinensis (L.) Osb.) in the Mediterranean Basin Depends More on Environmental Conditions Than on Fruit Ripeness
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Khefifi, Hajer, primary, Selmane, Rim, additional, Ben Mimoun, Mehdi, additional, Tadeo, Francisco, additional, Morillon, Raphael, additional, and Luro, François, additional
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- 2020
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26. Genotyping by sequencing can reveal the complex mosaic genomes in gene pools resulting from reticulate evolution: a case study in diploid and polyploid citrus
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Ahmed, Dalel, Comte, Aurore, Curk, Franck, Costantino, Gilles, Luro, François, Dereeper, Alexis, Mournet, Pierre, Froelicher, Yann, Ollitrault, Patrick, Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales Corse - Antenne Corse (AGAP-Corse), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), Institut de Recherche pour le Développement (IRD), Bioversity International [Montpellier], Bioversity International [Rome], Consultative Group on International Agricultural Research [CGIAR] (CGIAR)-Consultative Group on International Agricultural Research [CGIAR] (CGIAR), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), European Union (EU), Instituto de Salud Carlos III, Agropolis Fondation : 1504-006, Labex Agro:ANR-10-LABX-0001-01, ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)
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citrus ,reticulate evolution ,genome ,GBS ,polyploids ,SNPs ,phylogenomic karyotype ,Phylogénie ,Citrus ,Genotype ,reticulate evolution,genome ,Lime ,Évolution ,F30 - Génétique et amélioration des plantes ,Pool de gènes ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,Caryotype ,Phylogeny ,amélioration génétique ,Vegetal Biology ,phylogenomic ,fungi ,food and beverages ,Original Articles ,Gene Pool ,Diploidy ,karyotype ,mosaic genome ,Biologie végétale ,Génotype - Abstract
International audience; Background and Aims Reticulate evolution, coupled with reproductive features limiting further interspecific recombinations, results in admixed mosaics of large genomic fragments from the ancestral taxa. Whole-genome sequencing (WGS) data are powerful tools to decipher such complex genomes but still too costly to be used for large populations. The aim of this work was to develop an approach to infer phylogenomic structures in diploid, triploid and tetraploid individuals from sequencing data in reduced genome complexity libraries. The approach was applied to the cultivated Citrus gene pool resulting from reticulate evolution involving four ancestral taxa, C. maxima, C. medico, C. micrantha and C. reticulara. Methods A genotyping, by sequencing library was established with the restriction enzyme ApeK.1 applying one base (A) selection. Diagnostic single nucleotide polymorphisms (DSNPs) for the four ancestral taxa were mined in 29 representative varieties. A generic pipeline based on a maximum likelihood analysis of the number of read data was established to infer ancestral contributions along the genome of diploid, triploid and tetraploid individuals. The pipeline was applied to 48 diploid, four triploid and one tetraploid citrus accessions. Key Results Among 43 598 mined SNPs, we identified a set of 15 946 DSNPs covering the whole genome with a distribution similar to that of gene sequences. The set efficiently inferred the phylogenomic karyotype of the 53 analysed accessions, providing patterns for common accessions very close to that previously established using WGS data. The complex phylogenomic karyotypes of 21 cultivated citrus, including bergamot, triploid and tetraploid limes, were revealed for the first time. Conclusions The pipeline, available online, efficiently inferred the phylogenomic structures of diploid, triploid and tetraploid citrus. it will be useful for any species whose reproductive behaviour resulted in an interspecific mosaic of large genomie fragments. It can also be used for the first generations of interspecific breeding scheme
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- 2019
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27. Nutrient deficiency tolerance in citrus is dependent on genotype or ploidy level
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Oustric, Julie, Morillon, Raphaël, Luro, François, Herbette, Stéphane, Martin, Paul, Giannettini, Jean, Berti, Liliane, Santini, Jérémie, Oustric, Julie, Morillon, Raphaël, Luro, François, Herbette, Stéphane, Martin, Paul, Giannettini, Jean, Berti, Liliane, and Santini, Jérémie
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Plants require essential minerals for their growth and development that are mainly acquired from soil by their roots. Nutrient deficiency is an environmental stress that can seriously affect fruit production and quality. In citrus crops, rootstock/scion combinations are frequently employed to enhance tolerance to various abiotic stresses. These tolerances can be improved in doubled diploid genotypes. The aim of this work was to compare the impact of nutrient deficiency on the physiological and biochemical response of diploid (2x) and doubled diploid (4x) citrus seedlings: Volkamer lemon, Trifoliate orange × Cleopatra mandarin hybrid, Carrizo citrange, Citrumelo 4475. Flhorag1 (Poncirus trifoliata + and willow leaf mandarin), an allotetraploid somatic hybrid, was also included in this study. Our results showed that depending on the genotype, macronutrient and micronutrient deficiency affected certain physiological traits and oxidative metabolism differently. Tetraploid genotypes, mainly Flhorag1 and Citrumelo 4475, appeared resistant compared to the other genotypes as indicated by the lesser decrease in photosynthetic parameters (Pnet, Fv/Fm, and Gs) and the lower accumulation of oxidative markers (MDA and H2O2) in roots and leaves, especially after long-term nutrient deficiency. Their higher tolerance to nutrient deficiency could be explained by better activation of their antioxidant system. For the other genotypes, tetraploidization did not induce greater tolerance to nutrient deficiency.
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- 2019
28. Phylogenetic origin of primary and secondary metabolic pathway genes revealed by C. maxima and C. reticulata diagnostic SNPs
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Do Amaral Santos, Milena, Barbosa de Paula, Márcia Fabiana, Ollitrault, Frédérique, Rivallan, Ronan, De Andrade Silva, Edson Mario, Da Silva Gesteira, Abelmon, Luro, François, Garcia, Dominique, Ollitrault, Patrick, Micheli, Fabienne, Do Amaral Santos, Milena, Barbosa de Paula, Márcia Fabiana, Ollitrault, Frédérique, Rivallan, Ronan, De Andrade Silva, Edson Mario, Da Silva Gesteira, Abelmon, Luro, François, Garcia, Dominique, Ollitrault, Patrick, and Micheli, Fabienne
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Modern cultivated Citrus species and varieties result from interspecific hybridization between four ancestral taxa. Among them, Citrus maxima and Citrus reticulata, closely associated with the pummelo and mandarin horticultural groups, respectively, were particularly important as the progenitors of sour and sweet oranges (Citrus aurantium and Citrus sinensis), grapefruits (Citrus paradisi), and hybrid types resulting from modern breeding programs (tangors, tangelos, and orangelos). The differentiation between the four ancestral taxa and the phylogenomic structure of modern varieties widely drive the phenotypic diversity's organization. In particular, strong phenotypic differences exist in the coloration and sweetness and represent important criteria for breeders. In this context, focusing on the genes of the sugar, carotenoid, and chlorophyll biosynthesis pathways, the aim of this work was to develop a set of diagnostic single-nucleotide polymorphism (SNP) markers to distinguish the ancestral haplotypes of C. maxima and C. reticulata and to provide information at the intraspecific diversity level (within C. reticulata or C. maxima). In silico analysis allowed the identification of 3,347 SNPs from selected genes. Among them, 1,024 were detected as potential differentiation markers between C. reticulata and C. maxima. A total of 115 SNPs were successfully developed using a competitive PCR technology. Their transferability among all Citrus species and the true citrus genera was very good, with only 0.87% of missing data. The ancestral alleles of the SNPs were identified, and we validated the usefulness of the developed markers for tracing the ancestral haplotype in large germplasm collections and sexually recombined progeny issued from the C. reticulata/C. maxima admixture gene pool. These markers will pave the way for targeted association studies based on ancestral haplotypes.
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- 2019
29. Genetic, morphological and chemical investigations reveal the genetic origin of Pompia (C. medica tuberosa Risso & Poiteau) - An old endemic Sardinian citrus fruit
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Luro, François, Viglietti, Grazia, Marchi, Elodie, Costantino, Gilles, Scarpia, Maria Grazia, Tomi, Félix, Paoli, Mathieu, Curk, Franck, Ollitrault, Patrick, Luro, François, Viglietti, Grazia, Marchi, Elodie, Costantino, Gilles, Scarpia, Maria Grazia, Tomi, Félix, Paoli, Mathieu, Curk, Franck, and Ollitrault, Patrick
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Citrus fruits have been introduced to the Mediterranean area from Asia for centuries and spontaneous crosses have generated several hybrid forms, some of which have had agricultural or industrial success while others have remained niche food or ornamental products, or have disappeared. Pompia (C. medica tuberosa Risso & Poiteau) is an old endemic citrus fruit from Sardinia of unknown genetic origin. Initial phenotypic and molecular characterizations revealed a high degree of similarity with lemon (C. limon (L.) Burm.) and citron (C. medica L.). To identify the ancestors of Pompia, 70 citrus species of the Citrus genus were genotyped with 36 codominant molecular markers (SSR and InDel) of nuclear and cytoplasmic genomes. Diversity analysis and allelic comparisons between each citrus species at each locus indicated that Pompia resembles lemon and limonette of Marrakech, i.e. the result of a cross between sour orange (C. aurantium L.) and citron, where citron was the pollinator. Two Italian citron varieties were identified as potential male parents, i.e. Diamante and Common Poncire. However, we were unable to differentiate varieties of sour oranges because varietal diversification in this horticultural group resulted from DNA sequence variations that SSR or InDel markers could not reveal. Rhob el Arsa and Poncire de Collioure were found to be two synonyms of Pompia. Pompia appeared to be equally distinct from citron, lemon and sour orange based on the overall analysis of the fruit, leaf and seed phenotype, and juice chemical composition. At the leaf level, the Pompia essential oil (EO) composition is close to that of citron whereas the zest is much closer to that of sour orange.
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- 2019
30. AGRUMED: Archaeology and history of citrus fruit in the Mediterranean
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Barone Lumaga, Maria Rosaria, Bloquel, Emmanuel, Bouchaud, Charlène, Castillo, Cristina, Celant, Alessandra, Costantino, Gilles, Coubray, Sylvie, Curk, Franck, De Carolis, Ernesto, Fiorentino, Girolamo, Froelicher, Yann, Fuller, Dorian Q., Grasso, Anna Maria, Gröschel, Claudia, Hallavant, Charlotte, Kingwell-Banham, Eleanor, Langgut, Dafna, Lemoine, Michel, Luro, François, Mane, Perrine, Mavelli, Fabio, Menale, Bruno, Morales, Jacob, Ollitrault, Patrick, Osanna, Massimo, Pagnoux, Clémence, Pailly, Olivier, Paulus, Helmut-Eberhard, Qin, Ling, Riolacci, Simone, Ruas, Marie-Pierre, Russo Ermolli, Elda, Schram, Valérie, Tomu, Bruno, Tur, Isabelle, van der Meer, Wouter, van der Veen, Marijke, Varamo, François, Weisskopf, Alison, and Zech-Matterne, Véronique
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agrumes (culture) ,agrumes (histoire) ,citrus cultivation ,History & Archaeology ,HB ,citrus fruit ,HIS000000 ,Mediterranean ,archéobotanique ,archaeobotany - Abstract
The book brings together 16 contributions on the ancient and recent history of citrus fruits. Although they represent the main fruit production on a worldwide scale, very little is known about their original domestication and routes of introduction into the Mediterranean and temperate Europe: few organic remains identified as citrus have been found on archaeological sites. Nevertheless, evidence has been retrieved for various periods in the form of pollen grains, seeds, rind fragments, and occasionally wood and whole fruits in areas of primo-domestication, Asian, and from sites along the potential routes of diffusion. Iconographic figurations and textual references also exist. The contributions presented here – written by researchers specializing in phylogeny, taxonomy, morphometry, archaeobotany, history, iconography, the study of classical letters, and curators of collections – present the latest knowledge relating to the taxonomy of the Citrus genus and the methods used in attempting to identify ancient specimens. Analysis of botanical remains and a variety of other sources, has allowed the citrus diversity in China, India, Israel, Egypt, Italy, and North-West Europe to be described. Greek, Latin and medieval texts have been explored in order to identify recognized species, cultivation methods, modes of consumption, uses, and virtues attributed to citrus fruits since their first occurrences. The conservatories and germplasm collections of citrus are presented from a historical point of view, as are the important role they play in genetic research to improve cultivars, the conservation of rare and ancient varieties, and the role of informing the general public is also emphasized. The symbolic representation of citrus fruits in the arts, literature, and philosophy completes this overview, and fills a gap concerning these emblematic Mediterranean fruit. L’ouvrage rassemble seize contributions relatives à l’histoire ancienne et récente des agrumes. Alors qu’ils représentent la première production fruitière à l’échelle mondiale, peu de travaux ont été menés sur leurs aires d’origine et leurs voies de diffusion, car très peu de vestiges organiques correspondant à des restes d’agrumes ont été découverts dans les sites archéologiques. Néanmoins, des témoins subsistent pour diverses périodes, sous la forme de pollens, semences, fragments d’écorce, occasionnellement bois et fruits entiers, dans les zones de primo-domestication, asiatiques, et dans les sites jalonnant les routes potentielles de dissémination de ces espèces vers la Méditerranée et l’Europe tempérée. Il en existe également des représentations iconographiques et des mentions textuelles. Les présentes contributions – rédigées par des spécialistes de génétique, taxinomie, morphométrie, archéobotanique, histoire, iconographie, lettres classiques, mais aussi des conservateurs de collections archéologiques et actuelles – présentent les dernières connaissances en matière de classification et de tentatives d’identification des restes anciens, ainsi que des synthèses qui mettent en valeur l’ensemble des témoins, ou certains indices particulièrement remarquables, de la diversité des agrumes en Chine et Inde, Israël, Égypte, Italie, Europe du Nord-Ouest. Les sources grecques, latines et médiévales sont également mises à contribution pour mieux appréhender les espèces reconnues, les modes de culture et de consommation, les usages et vertus attribués aux agrumes depuis leurs premières occurrences. Les conservatoires et grandes collections d’agrumes sont présentés du point de vue historique, et l’importance du rôle joué par ceux-ci dans la recherche génétique visant à améliorer les cultivars, la conservation de certaines variétés et l’information du public, est soulignée. Un éclairage sur la représentation symbolique des agrumes dans les arts, la littérature et la philosophie, complète ce tour d’horizon, qui vient combler un vide concernant des espèces particulièrement emblématiques de la Méditerranée.
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- 2018
31. The INRA-CIRAD citrus germplasm collection of San Giuliano, Corsica
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Luro, François, Bloquel, Emmanuel, Tomu, Bruno, Costantino, Gilles, Tur, Isabelle, Riolacci, Simone, Varamo, François, Ollitrault, Patrick, Froelicher, Yann, Curk, Franck, and Pailly, Olivier
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agrumes (culture) ,agrumes (histoire) ,citrus cultivation ,HB ,citrus fruit ,HIS000000 ,Mediterranean ,archéobotanique ,archaeobotany - Abstract
Citrus production represents a major fruit crop in the Mediterranean as well as in the rest of the world, and citrus genetic resources are the cornerstone of citrus research, cultivation and breeding programs. To develop these activities, ex-situ germplasm collections were constructed in several countries. For more than fifty years, the SRA (Station de recherche agronomique) INRA (Institut national de la recherche agronomique)-CIRAD (Centre international de recherche et d’aide au développemen...
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- 2018
32. Introduction to ‘AGRUMED: Archaeology and history of citrus fruit in the Mediterranean: Acclimatization, diversification, uses’
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Zech-Matterne, Véronique, Fiorentino, Girolamo, Coubray, Sylvie, and Luro, François
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agrumes (culture) ,agrumes (histoire) ,citrus cultivation ,HB ,citrus fruit ,HIS000000 ,Mediterranean ,archéobotanique ,archaeobotany - Abstract
This book consists of the proceedings from the international workshop ‘The History and Archaeology of Citrus fruits in the Mediterranean: Introductions, diversifications, uses’ held in Pompeii, on the 5th December 2014, with the support of the Soprintendenza per i Beni Archeologici di Pompei and its director, M. Osanna. Related research was funded through the following projects: — L’introduction des agrumes en Méditerranée occidentale: une contribution originale à la biodiversité entretenue d...
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- 2018
33. Phylogenetic Origin of Primary and Secondary Metabolic Pathway Genes Revealed by C. maxima and C. reticulata Diagnostic SNPs
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do Amaral, Milena, primary, Barbosa de Paula, Marcia Fabiana, additional, Ollitrault, Frederique, additional, Rivallan, Ronan, additional, de Andrade Silva, Edson Mario, additional, da Silva Gesteira, Abelmon, additional, Luro, François, additional, Garcia, Dominique, additional, Ollitrault, Patrick, additional, and Micheli, Fabienne, additional
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- 2019
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34. Cold-Pressing Olive Oil in the Presence of Cryomacerated Leaves of Olea or Citrus: Nutraceutical and Sensorial Features
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Sanmartin, Chiara, primary, Taglieri, Isabella, additional, Macaluso, Monica, additional, Sgherri, Cristina, additional, Ascrizzi, Roberta, additional, Flamini, Guido, additional, Venturi, Francesca, additional, Quartacci, Mike Frank, additional, Luro, François, additional, Curk, Franck, additional, Pistelli, Luisa, additional, and Zinnai, Angela, additional
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- 2019
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35. Nutrient Deficiency Tolerance in Citrus Is Dependent on Genotype or Ploidy Level
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Oustric, Julie, primary, Morillon, Raphaël, additional, Luro, François, additional, Herbette, Stéphane, additional, Martin, Paul, additional, Giannettini, Jean, additional, Berti, Liliane, additional, and Santini, Jérémie, additional
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- 2019
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36. Transferability of the EST-SSRs developed on Nules clementine (Citrus clementina Hort ex Tan) to other Citrus species and their effectiveness for genetic mapping
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Ollitrault Patrick, Talon Manuel, Wincker Patrick, Allario Thierry, Argout Xavier, Terol Javier, Costantino Gilles, Luro François L, and Morillon Raphael
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Biotechnology ,TP248.13-248.65 ,Genetics ,QH426-470 - Abstract
Abstract Background During the last decade, numerous microsatellite markers were developed for genotyping and to identify closely related plant genotypes. In citrus, previously developed microsatellite markers were arisen from genomic libraries and more often located in non coding DNA sequences. To optimize the use of these EST-SSRs as genetic markers in genome mapping programs and citrus systematic analysis, we have investigated their polymorphism related to the type (di or trinucleotide) or their position in the coding sequences. Results Among 11000 unigenes from a Clementine EST library, we have found at least one microsatellite sequence (repeated units size ranged from 2 to 6 nucleotides) in 1500 unigenes (13.6%). More than 95% of these SSRs were di or trinucleotides. If trinucleotide microsatellites were encountered trough all part of EST sequences, dinucleotide microsatellites were preferentially (50%) concentrated in the 5' 100th nucleotides. We assessed the polymorphism of 41 EST-SSR, by PCR amplification droved with flanking primers among ten Citrus species plus 3 from other genera. More than 90% of EST-SSR markers were polymorphic. Furthermore, dinucleotide microsatellite markers were more polymorphic than trinucleotide ones, probably related to their distribution that was more often located in the 5' UnTranslated Region (UTR). We obtained a good agreement of diversity relationships between the citrus species and relatives assessed with EST-SSR markers with the established taxonomy and phylogeny. To end, the heterozygosity of each genotype and all dual combinations were studied to evaluate the percentage of mappable markers. Higher values (> 45%) were observed for putative Citrus inter-specific hybrids (lime lemon, or sour orange) than for Citrus basic true species (mandarin, pummelo and citron) (70%) with a significant proportion suitable for synteny analysis. Conclusion Fourty one new EST-SSR markers were produced and were available for citrus genetic studies. Whatever the position of the SSR in the ESTs the EST-SSR markers we developed are powerful to investigate genetic diversity and genome mapping in citrus.
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- 2008
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37. Somatic hybridization between diploid #Poncirus# and #Citrus# improves natural chilling and light stress tolerances compared with equivalent doubled-diploid genotypes
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Oustric, Julie, Morillon, Raphaël, Ollitrault, Patrick, Herbette, Stéphane, Luro, François, Froelicher, Yann, Tur, Isabelle, Dambier, Dominique, Giannettini, Jean, Berti, Liliane, Santini, Jérémie, Oustric, Julie, Morillon, Raphaël, Ollitrault, Patrick, Herbette, Stéphane, Luro, François, Froelicher, Yann, Tur, Isabelle, Dambier, Dominique, Giannettini, Jean, Berti, Liliane, and Santini, Jérémie
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Allopolyploids are generally known to display broader adaptation to abiotic stresses than their parental diploid species. In the Mediterranean area, Citrus species are subjected to abiotic constraints such as low temperature and high radiation. Tetraploids are known to resist these environmental constraints better, and so the use of new tetraploid rootstocks offers an alternative to overcome these threats to crop productivity. The objective of this study was to determine whether the use of an allotetraploid hybrid could provide greater tolerance to cold and light stresses than its diploid parents or respective doubled-diploid parents. We compared cold and light stress responses of the allotetraploid hybrid FlhorAG1 (FL-4x) with those of its diploid parents, the willow leaf mandarin (Citrus deliciosa Ten) (WLM-2x) and the Poncirus Pomeroy (Poncirus trifoliata (L.) Raf.) (POP-2x), and their respective doubled-diploids (WLM-4x and POP-4x, respectively) by measuring physiological and biochemical parameters. When subjected to cold and light stress, FL-4x showed lower photoinhibition (Fv/Fm) and less accumulation of oxidative markers (MDA and H2O2) than diploid and doubled-diploid WLM and POP genotypes. This was correlated with a greater increase for FL-4x in some antioxidant activities during cold stress (SOD, APX and GR) and light stress (SOD, APX and MDHAR mainly). Overall, our results suggest that greater antioxidant capability in FL-4x should make this allotetraploid hybrid more tolerant to low temperatures than the two WLM genotypes, and more tolerant to light stress than the two WLM and POP genotypes.
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- 2018
38. Genotyping by sequencing reveals the interspecific C. maxima / C. reticulata admixture along the genomes of modern citrus varieties of mandarins, tangors, tangelos, orangelos and grapefruits
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Oueslati, Amel, Salhi-Hannachi, Amel, Luro, François, Vignes, Hélène, Mournet, Pierre, Ollitrault, Patrick, Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Université de Tunis El Manar (UTM), Institut National de la Recherche Agronomique (INRA), CIRAD, Tunisian Ministry for Higher Education and Scientific Research, and ED STVST of El Manar University in Tunis, Tunisia
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Phylogénie ,Citrus ,Heredity ,Introgression ,Polymorphisme génétique ,[SDV]Life Sciences [q-bio] ,Fruit Crops ,lcsh:Medicine ,markers ,Évolution ,Polymerase Chain Reaction ,Homozygosity ,F30 - Génétique et amélioration des plantes ,Génétique des populations ,origin ,Citrus clementina ,Marqueur génétique ,lcsh:Science ,Phylogeny ,Data Management ,density ,Heterozygosity ,Eukaryota ,Agriculture ,F70 - Taxonomie végétale et phytogéographie ,genetic-linkage map ,Plants ,Phylogenetics ,Hybridation interspécifique ,cultivated citrus ,history ,Karyotypes ,Génotype ,Citrus sinensis ,Citrus paradisi ,Research Article ,chemical variability ,Computer and Information Sciences ,Séquence nucléotidique ,Evolutionary Processes ,Crops ,Genes, Plant ,Oranges ,Fruits ,diversity ,Citrus maxima ,Cytogenetics ,domestication ,Variation génétique ,Species Specificity ,Genetics ,Evolutionary Systematics ,Variété ,Citrus aurantium ,Taxonomy ,Evolutionary Biology ,lcsh:R ,Organisms ,Biology and Life Sciences ,Taxonomie ,nuclear ,Karyotyping ,lcsh:Q ,Citrus reticulata ,U30 - Méthodes de recherche ,Crop Science - Abstract
International audience; The mandarin horticultural group is an important component of world citrus production for the fresh fruit market. This group formerly classified as C. reticulata is highly polymorphic and recent molecular studies have suggested that numerous cultivated mandarins were introgressed by C. maxima (the pummelos). C. maxima and C. reticulata are also the ancestors of sweet and sour oranges, grapefruit, and therefore of all the "small citrus" modern varieties (mandarins, tangors, tangelos) derived from sexual hybridization between these horticultural groups. Recently, NGS technologies have greatly modified how plant evolution and genomic structure are analyzed, moving from phylogenetics to phylogenomics. The objective of this work was to develop a workflow for phylogenomic inference from Genotyping By Sequencing (GBS) data and to analyze the interspecific admixture along the nine citrus chromosomes for horticultural groups and recent varieties resulting from the combination of the C. reticulata and C. maxima gene pools. A GBS library was established from 55 citrus varieties, using the ApekI restriction enzyme and selective PCR to improve the read depth. Diagnostic polymorphisms (DPs) of C. reticulata/C. maxima differentiation were identified and used to decipher the phylogenomic structure of the 55 varieties. The GBS approach was powerful and revealed 30,289 SNPs and 8,794 Indels with 12.6% of missing data. 11,133 DPs were selected covering the nine chromosomes with a higher density in genic regions. GBS combined with the detection of DPs was powerful for deciphering the "phylogenomic karyotypes" of cultivars derived from admixture of the two ancestral species after a limited number of interspecific recombinations. All the mandarins, mandarin hybrids, tangelos and tangors analyzed displayed introgression of C. maxima in different parts of the genome. C. reticulata/C. maxima admixture should be a major component of the high phenotypic variability of this germplasm opening up the way for association studies based on phylogenomics.
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- 2017
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39. A phylogenomic study based on Genotyping By Sequencing unravels the interspecific mosaic structures of the cultivated Citrus genomes
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Ahmed, Dalel, Curk, Franck, Luro, François, Costantino, Gilles, Vignes, Hélène, Pierre Mournet, Froelicher, Yann, and Ollitrault, Patrick
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food and beverages - Abstract
Reticulate evolution, including hybrid speciation, introgression and lateral gene transfer is frequentin plant species. When coupled with vegetative propagation, it results in mosaic genomes of large genomic fragments, from different species or sub species. These complex inter(sub)-‐specific genomic structures can support a major part of the phenotypic diversity organization. Cultivated Citrus are a good example of such genepool issued from reticulate evolution with limited number of further interspecific recombination. It is generally agreed that four ancestral taxa (Citrus maxima: pummelos, Citrus reticulata: mandarins, Citrus medica: citrons and Citrus micrantha: papedas) are the ancestors of all the cultivated citrus species. These four species, have undergone allopatric evolution. This has led to a strong genetic differentiation which is also found for many phenotypic characters. The so-‐called secondary species (sweet and sour oranges, grapefruits, lemons and limes) are the result of a reticulate evolution between these four ancestral taxa. Facultative apomixis (nucellar polyembrionny) then limited the number of interspecific meiosis cycle. The aplication of NGS on reduced genome representation with methods such as GBS (Genotyping By Sequencing) coupled with the availability of a clementine reference sequence open the way for pangenomic studies of large populations. The objective of this work was to validate a GBS approach on citrus in order to identify a pangenomic panel of diagnostic markers (DSNPs) of each ancestral taxa and to decipher the phylogenomic structures of 56 citrus varieties representative of the ancestral taxa and secondary species. The DSNP panel was also used to analyse the phylogenomic structures of diploid and triploid recombining populations of the Cirad-‐Inra breeding programs. GBS library were prepared with ApekI and a selective PCR to improve the depth of the analysis. 56 accessions were pooled and sequenced in one line of Illumina HISEQ-‐2000 (single reads). Diversity structure analysis showed that the varieties are distributed among the four ancestral taxa in perfect consistency with the previous studies carried out with SSRs, Indels and SNPs markers. The GBS approach is thus validated. 14926 DSNPs were identified. These diagnostic markers allowed to infer efficiently the majority of the phylogenomic karyotypes of the 56 Citrus accessions and revealed the interspecific recombination point in the diploid hybrids of breeding populations. For polyploid germplasm and hybrids, needing the evaluation of allelic doses, we were not able to infer these doses from the relative reads number at individual locus level. The potential of analysis at genome fragment level, covering numerous DSNPs, is under study. This work demonstrate the potential of GBS for deciphering the phylogenomic structure of the modern citrus varieties and recent hybrids of breeding populations. It bring new insights on the origins of citrus fruit and open the way for genetic associations studies and QTLs analysis based on phylogenomics and further to genomic selection.
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- 2017
40. Short-and long-term effects of carbohydrate limitation on sugar and organic acid accumulation during mandarin fruit growth
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Antoine, Sandrine, Pailly, Olivier, Gibon, Yves, Luro, François, SANTINI, Jérémie, Giannettini, Jean, Berti, Liliane, Sciences pour l'environnement (SPE), Centre National de la Recherche Scientifique (CNRS)-Université Pascal Paoli (UPP), Génétique et Ecophysiologie de la qualité des agrumes (GEQA), Institut National de la Recherche Agronomique (INRA), Biologie du fruit et pathologie (BFP), Université Sciences et Technologies - Bordeaux 1-Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA), 1074 Institut de Biologie Végétale Moléculaire : actions communes, Institut National de la Recherche Agronomique (INRA)-Santé des plantes et environnement (S.P.E.)-Institut de Biologie Végétale Moléculaire : actions communes (IBVM), Université Pascal Paoli (UPP)-Centre National de la Recherche Scientifique (CNRS), and Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1
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Crops, Agricultural ,Time Factors ,Proline ,Malates ,Down-Regulation ,Fructose ,Phloem ,Citric Acid ,citrus ,Dietary Sucrose ,Humans ,[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology ,citrate ,source–sink ratio ,gamma-Aminobutyric Acid ,Principal Component Analysis ,malate ,food and beverages ,sucrose ,Crop Production ,Up-Regulation ,Plant Leaves ,Glucose ,Fruit ,France ,Nutritive Value - Abstract
International audience; BACKGROUND: The physiological roles of organic acids in fruit cells are not fully understood, especially in citrus, whereas the decline in titratable acidity during ripening shown by many citrus fruits is due to the utilization of citric acid. We induced carbohydrate depletion by removing source leaves at two key periods in mandarin development (early and full citric acid accumulation). Then, we assessed the resulting changes in the short term (within 48 h) and long term (several weeks until ripening). RESULTS: Control mature fruits were characterized by elevated fresh weight, large diameters and high quantities of malic acid, citric acid and sucrose. At the same stage, fruits subjected to early or late defoliation had higher glucose, fructose, citric acid concentrations and lower sucrose concentrations. They differed only in their malic acid concentrations, which were higher in early defoliation fruits and similar in late defoliation fruits when compared to control fruits. Finally, fruits subjected to late defoliation were characterized by high proline and í µí¼¸minobutyric acid concentrations, and low fructose and glucose concentrations. CONCLUSION: We have shown that short-and long-term carbohydrate limitation modifies sugar and organic acid metabolism during mandarin fruit growth.
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- 2015
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41. Classification of Citrus Fruits: how scientific insights on citrus phylogeny can elucidate a very controversial and unclear situation
- Author
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Luro, François, Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales Corse - Antenne Corse (AGAP-Corse), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA), and European Juice Fruit Association. INC.
- Subjects
[SDV]Life Sciences [q-bio] ,evolution ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,citrus phylogeny ,ComputingMilieux_MISCELLANEOUS ,citrus taxonomy - Abstract
International audience
- Published
- 2015
42. Diversification variétale des agrumes: des formes naturelles aux biotechnologies
- Author
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Luro, François, Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales Corse - Antenne Corse (AGAP-Corse), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)
- Subjects
variété ,agrume ,[SDV]Life Sciences [q-bio] ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,biotechnologie végétale ,ComputingMilieux_MISCELLANEOUS - Abstract
National audience
- Published
- 2015
43. L’origine des agrumes: leur évolution et la naissance des espèces cultivées
- Author
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Luro, François, Amélioration Génétique et Adaptation des Plantes méditerranéennes et Tropicales Corse - Antenne Corse (AGAP-Corse), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)
- Subjects
agrume ,[SDV]Life Sciences [q-bio] ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,diversité botanique ,ComputingMilieux_MISCELLANEOUS - Abstract
National audience
- Published
- 2015
44. Genetic diversity analysis and population structure of the mandarin germplasm revealed by nuclear SNP markers
- Author
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Garcia-Lor, Andrés, Luro, François, Ancillo, Gema, Ollitrault, Patrick, and Navarro, Luis
- Subjects
F60 - Physiologie et biochimie végétale ,food and beverages ,F30 - Génétique et amélioration des plantes - Abstract
Citrus reticulata is considered one of the four main ancestral taxa of cultivated citrus and is widely associated with the mandarin horticultural group. However, several studies suggest introgressions of other taxa and the precise structure of the mandarin group is not known. To analyse the structuration of mandarin germplasm and the potential interspecific introgressions, 208 accessions were genotyped by the KASPar method, with sixty-seven single nucleotide polymorphism (SNP) markers mined in 27 nuclear genes and in clementine BAC-ends. These SNP markers were employed for the study of 208 genotypes comprised of 169 'mandarin-like' genotypes and 39 genotypes belonging to ancestral taxa. Structure software was used to identify groups within the mandarin germplasm. Six mandarin groups were identified, some of them in agreement with the species defined by Tanaka. Many mandarins were located between these mandarin groups, indicating a high level of admixture between the identified parental groups. New insights in the organization of mandarin germplasm and its structure are presented in this work, which will be useful for better management of citrus germplasm collections.
- Published
- 2015
45. Influence of climate on mandarin fruit quality: comparative studies between Brazil and France cultural and environmental conditions : S02O02
- Author
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Soares, L.K.D., Costantino, Gilles, Santos, M.G., Do amaral, D.O.J., Passos, O.S., Soares Filho, Walter dos Santos, Ollitrault, Patrick, Gesteira, Abelmon S., Luro, François, and Micheli, Fabienne
- Subjects
P40 - Météorologie et climatologie ,F01 - Culture des plantes ,food and beverages ,Q04 - Composition des produits alimentaires ,F30 - Génétique et amélioration des plantes - Abstract
Brazil is leader of concentrated and frozen orange juice production in the world. However, the extension of fresh orange and mandarin market could provide higher gains for the producers, as occurred in Spain and California (USA). Part of Spanish and Californian success is due to a marketing strategy centered on high quality fruits with aggregated value (bright orange color, easy-peeler fruits, balanced sugar/acidity, etc.). However, one of the difficulties in relation to mandarin quality is that it highly depends on genotype and cultivation area (climate and environment conditions): in tropical regions, the mandarin color and acidity are less intense, which could affect the consumer acceptance. To improve the understanding of fruit quality elaboration on tropical regions, our strategy first consist on phenotypic and molecular comparative studies of the same citrus varieties cultivated in Tropical (Bahia state, Brazil) and Mediterranean (Corsica, France) climates. We selected 45 citrus genotypes (36 mandarins and hybrids, 8 oranges and 1 grapefruit) presented in Embrapa (Bahia State, Brazil) and INRACIRAD (Corsica, France) germplasms, and we verified their genetic conformity by molecular analysis using 12 SSR markers. All oranges, the grapefruit and 14 mandarin varieties presented the same genetic background in both germplasms and have been selected for further biochemical, molecular and OMICs analysis. In parallel, in order to determine with precision the maturation phase for fruit harvesting (3 maturation stages), maturation curves (phenotypic analysis, total soluble solids and acidity) were obtained on the all or part of the 45 genotypes during 2012 and 2013 at Embrapa. Mature fruits were mainly obtained between November and February. The obtained data were also related with the climate records from the Experimental Station of Embrapa (temperature, atmospheric pressure, relative humidity, rain precipitations). These results are promising and important as prerequisite for subsequent deeper biochemical and molecular analysis of fruit quality determinism and genotype/environment interaction studies. Work supported by: CAPES, Agropolis, CNPq, FAPESB, Cirad, Embrapa. (Texte intégral)
- Published
- 2013
46. Du complexe d’espèces à l’Adn : histoire d’un cheminement depuis la phylogénie des agrumes vers une connaissance de la structure des génomes et des gènes contrôlant des caractères d’intérêt
- Author
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Luro, François, Station de recherches agronomiques de San Giuliano, Institut National de la Recherche Agronomique (INRA), and Université de Corse Pasquale Paoli
- Subjects
méiose ,triploidie ,carte génétique ,taxonomie ,[SDV]Life Sciences [q-bio] ,marqueur génétique ,hdr ,microbiologie moléculaire ,ressource génétique ,citrus ,diplogamie ,cytométrie ,porte greffe ,agrume ,diversité génétique ,sauvetage d'embryon ,polyploïdie ,biologie de la conservation ,[SDE]Environmental Sciences ,reproduction végétale ,phylogénie ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,conservation des ressources génétiques ,biochimie végétale ,taille du génome - Published
- 2012
47. Preselection of promising triploid mandarin varieties in Corsica : S17P13
- Author
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Bouffin, Jean, Froelicher, Yann, Luro, François, and Ollitrault, Patrick
- Subjects
F50 - Anatomie et morphologie des plantes ,F30 - Génétique et amélioration des plantes - Abstract
The selection of seedless mandarin varieties adapted to the European market is one of the main objectives of the CIRAD breeding program. Triploid hybrid creation is the method selected to develop seedless varieties. More than one thousand triploid progenies are currently evaluated at the San Giuliano Research Station in Corsica. There were created by 2x X 2x hybridization exploiting spontaneous 2n gametes. The objective of a first set of crosses with clementine as female parent was to select clementine-like varieties, in order to extend the production period of this crop in Corsica. Seven hybrids were preselected at the end of the first level of evaluation according to the visual and organoleptic fruit characteristics, the period of production and the yield. There are currently under the second level of evaluation to analyse their agronomic behaviour. One of this hybrids is under D.U.S. examination for the grant of Community plant variety rights. The objective of a more recent second set of crosses is to develop late mandarin varieties. Several progenies, with different mandarins as female parent, present interesting fruit characteristics. One of them, with short juvenile period and very high yield, is preselected for the second stage of evaluation. (Texte integral)
- Published
- 2012
48. Integration of cryopreservation in French plant genetic resource collections: the CRYOVEG project
- Author
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Engelmann, Florent, Balsemin Lerigoleur, Emilie, Barreneche, Teresa, Chatelet, Philippe, Chauvin, Jean-Eric, Couturon, Emmanuel, Curk, Franck, Dantec, Marie Ange, Decourcelles , Thibault, Dussert, Stéphane, Feugey, Laurence, Froelicher, Yann, Fouihaux, Lydie, Gamiette, Franciane, Grapin, Agnès, Grisoni, Michel, Guérif, Philippe, Guyader, Arnaud, Label-Richardson, Alain, Luro, François, Moulin, Bernard, Muller, Martine, Peyriere, André, Prigent, Yvon, Renard, Michel, Roux-Cuvelier, Michel, Roques, Danièle, Rubens , Suzia, Sapotille, Jocelyne, Souchet, Catherine, Sylvestre, David, and Teyssedre, David
- Published
- 2012
49. Comparison of photosynthesis and antioxidant performance of several Citrus and Fortunella species under natural chilling stress : S08P24
- Author
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Santini, Jérémie, Giannettini, Jean, Pailly, Olivier, Herbette, Stéphane, Ollitrault, Patrick, Berti, Liliane, and Luro, François
- Subjects
F60 - Physiologie et biochimie végétales ,H50 - Troubles divers des plantes ,F30 - Génétique et amélioration des plantes - Abstract
Citrus plants originate from southeastern Asia, in a large area with various climates characterized by a broad range of temperatures. Temperature is assumed to be a key factor in Citrus species adaptation and diversification. In a field experiment, the tolerance of the three fundamental Citrus species (C. medica -citron-, C. reticulata -mandarin- and C. maxima -pummelo-) and Fortunella japonica -kumquat- to photooxidative stress caused by seasonal climatic changes was evaluated on adult trees by measuring net photosynthesis (Pnet), stomatal conductance (Gs), maximum photosynthesis (Pmax) and chlorophyll fluorescence (Fv/Fm). In addition, seasonal changes in oxidative status, antioxidant enzymes and antioxidant metabolites were monitored. Mandarin and pummelo appeared to be the most tolerant, showing the lowest down-regulation of photosynthetic parameters, and the lowest accumulation of oxidized compounds associated with efficiency of their antioxidant system. Kumquat showed intermediate behaviour, with a large diminution of photosynthetic parameters and marked accumulation of hydrogen peroxide, whereas the malondialdehyde content remained low, with a strong induction of glutathione synthesis. Finally, citron appeared to be the most sensitive genotype with a marked decrease in photosynthetic performance, the largest accumulation of oxidative parameters, insufficient induction of antioxidant enzymes and down-regulation of ascorbate and glutathione synthesis. (Texte integral)
- Published
- 2012
50. Physiological analysis of salt stress behaviour of citrus species and genera: low chloride accumulation as an indicator of salt tolerance : S08O07
- Author
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Hussein, S., Luro, François, Costantino, Gilles, Ollitrault, Patrick, and Morillon, Raphaël
- Subjects
F60 - Physiologie et biochimie végétales ,food and beverages ,H50 - Troubles divers des plantes ,F30 - Génétique et amélioration des plantes - Abstract
Tolerant citrus rootstocks are defined as Cl- excluders. However, little is known about the salt tolerance of cultivars used as scions, particularly the tolerance of monoembryonic citrus genotypes. To enhance the genetic resources for generating improved hybrid rootstocks, the evaluation of large samples of citrus species, including both monoembryonic and polyembryonic genotypes, is necessary. In this study, 12 citrus genotypes representing the major Citrus species and all the three genera of the Rutaceae family were subjected to moderate salt stress (75mM) for 12 weeks to characterise their physiological response to salt stress. Various symptoms and physiological parameters were evaluated to characterise their salt sensitivity. These included plant growth (stem diameter), leaf chlorophyll content, leaf flavonoid content, maximum quantum yield of PSII [(Fm-F0)/Fm)], net photosynthesis, stomatal conductance and leaf Na and Cl- contents. The results clearly demonstrated that the most salt sensitive genotypes accumulated high concentrations of Na and Cl- and maintained a fair growth and photosynthetic rate. By contrast, salt-tolerant genotypes accumulated less Na and Cl- and decreased their growth and gas exchange. 'Poncire commun' citron and 'Marumi' kumquat were the most sensitive species, while mandarins, pummelo and 'Australian' sour orange were the most tolerant species. Among the genotypes, 'Engedi' pummelo presented a specific trait for salt tolerance that has not been previously reported. Taken together, the results suggest that low leaf chloride content can be used as an indicator of salt stress tolerance in citrus genotypes. Exploitation of this indicator will enable the improved evaluation of citrus genetic resources and should lead to the identification of new sources of tolerance for rootstock breeding. (Texte intégral)
- Published
- 2012
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