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Aslan MN, Sukan-Karaçağıl B, Acar-Tek N. Roles of citrus fruits on energy expenditure, body weight management, and metabolic biomarkers: a comprehensive review. Nutr Rev 2024; 82:1292-1307. [PMID: 37702528 PMCID: PMC11317776 DOI: 10.1093/nutrit/nuad116] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/14/2023] Open
Abstract
Citrus fruits are widely consumed for their nutritional and health benefits. They belong to the Rutaceae and have many varieties, such as sweet orange (Citrus sinensis), which is the most popular. Citrus fruits are rich in water (>80%), dietary fiber, and vitamins. They also contain bioactive components, which may modulate energy metabolism and lipid oxidation through various mechanisms. These mechanisms include stimulating β3-adrenergic receptors, increasing mitochondrial biogenesis and thermogenesis, activating AMP kinase and peroxisome proliferator-activated receptor-gamma coactivator-1α pathways, inhibiting lipogenesis and lipid accumulation, and inducing browning of white adipose tissue. This review summarizes the mechanisms and outcomes of citrus fruits and their metabolites on energy metabolism and body weight in different experimental models. The literature was searched for in vitro and in vivo animal and human studies that investigated the effects of citrus consumption on energy expenditure, thermogenesis, adipogenesis, and lipid accumulation. Citrus fruits and their metabolites have shown promising effects on energy metabolism and lipid oxidation in in vitro and in vivo animal studies. However, the evidence from human studies is limited and inconsistent. Possible reasons for the discrepancy are briefly discussed, and knowledge gaps and research needs are identified for future studies. Citrus fruits may have beneficial effects on energy metabolism and body weight, but more rigorous and well-designed human trials are needed to confirm their efficacy and safety.
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Affiliation(s)
- Merve Nur Aslan
- Faculty of Health Sciences, Department of Nutrition and Dietetics, Bolu Abant Izzet Baysal University, Bolu, Turkey
- Department of Nutrition and Dietetics, Institute of Health Sciences, Gazi University, Ankara, Turkey
| | - Betül Sukan-Karaçağıl
- Department of Nutrition and Dietetics, Institute of Health Sciences, Gazi University, Ankara, Turkey
| | - Nilüfer Acar-Tek
- Faculty of Health Sciences, Department of Nutrition and Dietetics, Gazi University, Ankara, Turkey
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Gattuso A, Mafrica R, Cannavò S, Mafrica D, De Bruno A, Poiana M. Quality Evaluation of Bergamot Juice Produced in Different Areas of Calabria Region. Foods 2024; 13:2080. [PMID: 38998585 PMCID: PMC11241439 DOI: 10.3390/foods13132080] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2024] [Revised: 06/18/2024] [Accepted: 06/27/2024] [Indexed: 07/14/2024] Open
Abstract
Citrus fruits are extensively cultivated worldwide, with Italy and Spain being major producers. In Southern Italy, particularly in Reggio Calabria, a typical citrus fruit is produced, namely, bergamot (Citrus bergamia Risso et Poiteau), known for its mysterious origins and exceptional quality essential oil protected by the EU's PDO (Protected Designation of Origin) designation. Despite historical challenges, bergamot has regained prominence for its nutraceutical potential, especially its flavonoid-rich juice, offering significant health benefits. However, little attention has been paid to understanding the qualitative and quantitative differences of bergamot juice in Calabrian production areas. For this reason, this work aims to investigate the quality characteristics of bergamot juice produced in different areas of Calabria sites. The results showed the best quality attributes of bergamot fruits harvested in the PDO area. In particular, higher levels of total soluble solids, stable acidity, and higher juice were found. In addition, higher contents of ascorbic and citric acids, which are nutritionally valuable and tasteful, were found. The phenolic profile, characterized by the key compounds of bergamot, highlighted the better nutraceutical potential of the fruit grown in the PDO area.
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Affiliation(s)
- Antonio Gattuso
- Department of AGRARIA, University Mediterranea of Reggio Calabria, 89124 Reggio Calabria, Italy; (A.G.); (R.M.); (S.C.); (D.M.); (M.P.)
- Experimental Station for the Industry of the Essential Oils and Citrus Products SSEA, 89127 Reggio Calabria, Italy
| | - Rocco Mafrica
- Department of AGRARIA, University Mediterranea of Reggio Calabria, 89124 Reggio Calabria, Italy; (A.G.); (R.M.); (S.C.); (D.M.); (M.P.)
| | - Serafino Cannavò
- Department of AGRARIA, University Mediterranea of Reggio Calabria, 89124 Reggio Calabria, Italy; (A.G.); (R.M.); (S.C.); (D.M.); (M.P.)
| | - Davide Mafrica
- Department of AGRARIA, University Mediterranea of Reggio Calabria, 89124 Reggio Calabria, Italy; (A.G.); (R.M.); (S.C.); (D.M.); (M.P.)
| | - Alessandra De Bruno
- Department of Human Sciences and Promotion of the Quality of Life, San Raffaele University, 00166 Rome, Italy
| | - Marco Poiana
- Department of AGRARIA, University Mediterranea of Reggio Calabria, 89124 Reggio Calabria, Italy; (A.G.); (R.M.); (S.C.); (D.M.); (M.P.)
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Sun Y, Jiang R, Peng D, Zhang Y, Peng H, Long H. Morphological and Molecular Characterization of a New Root-Knot Nematode, Meloidogyne limonae n. sp. (Nematoda: Meloidogynidae), Parasitizing Lemon in China. PLANT DISEASE 2024; 108:833-846. [PMID: 37877995 DOI: 10.1094/pdis-05-23-0919-sr] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2023]
Abstract
Root-knot nematodes of the genus Meloidogyne parasitize the roots of thousands of plants and can cause severe damage and yield losses. Here, we report a new root-knot nematode, Meloidogyne limonae n. sp., parasitizing "lemon" (Citrus limon) in Hainan Province, South China. Lemon trees infected by the root-knot nematode showed poor-quality lemons, chlorosis of foliage, weak growth, and numerous root galls with white females and egg masses protruding outside. Phylogenetic trees of sequences within the ribosomal and mitochondrial DNA demonstrated that this species differs clearly from other previously described root-knot nematodes. Morphologically, the new species is characterized by an oval-shaped perineal pattern and the lateral field marked by a ridge of cuticle on one or both sides; the dorsal arch is low, with fine to coarse, smooth cuticle striae; the vulva slit is centrally located at the unstriated area; the spicules of males are arcuate and curved ventrally; the gubernaculum is distinct and curved; the labial disc of second-stage juveniles is prominent and dumbbell shaped; stylet knobs are oval and sloping backwardly; pharyngeal glands are not filling the body cavity and overlapping the intestine ventrally; and the conical tail is gradually tapering. Phylogenetic trees based on the ITS1-5.8S-ITS2, D2-D3 of the 28S rDNA, and COI and COII-16S rRNA genes of the mtDNA showed that M. limonae n. sp. belongs to an undescribed root-knot nematode lineage that is separated from other species with the resemblance in morphology, such as M. floridensis, M. hispanica, M. acronea, and M. paranaensis.
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Affiliation(s)
- Yangfang Sun
- Key Laboratory of Integrated Pests Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, P.R. China
| | - Ru Jiang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. China
| | - Deliang Peng
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. China
| | - Yan Zhang
- Modern Agricultural Inspection Testing and Control Center of Hainan Province, Haikou 571100, P.R. China
| | - Huan Peng
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R. China
| | - Haibo Long
- Key Laboratory of Integrated Pests Management on Tropical Crops, Ministry of Agriculture and Rural Affairs, Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou 571101, P.R. China
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Hiraoka Y, Ferrante SP, Wu GA, Federici CT, Roose ML. Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives. PLANTS (BASEL, SWITZERLAND) 2024; 13:691. [PMID: 38475537 DOI: 10.3390/plants13050691] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Revised: 02/13/2024] [Accepted: 02/22/2024] [Indexed: 03/14/2024]
Abstract
Rapid advancements in technologies provide various tools to analyze fruit crop genomes to better understand genetic diversity and relationships and aid in breeding. Genome-wide single nucleotide polymorphism (SNP) genotyping arrays offer highly multiplexed assays at a relatively low cost per data point. We report the development and validation of 1.4M SNP Axiom® Citrus HD Genotyping Array (Citrus 15AX 1 and Citrus 15AX 2) and 58K SNP Axiom® Citrus Genotyping Arrays for Citrus and close relatives. SNPs represented were chosen from a citrus variant discovery panel consisting of 41 diverse whole-genome re-sequenced accessions of Citrus and close relatives, including eight progenitor citrus species. SNPs chosen mainly target putative genic regions of the genome and are accurately called in both Citrus and its closely related genera while providing good coverage of the nuclear and chloroplast genomes. Reproducibility of the arrays was nearly 100%, with a large majority of the SNPs classified as the most stringent class of markers, "PolyHighResolution" (PHR) polymorphisms. Concordance between SNP calls in sequence data and array data average 98%. Phylogenies generated with array data were similar to those with comparable sequence data and little affected by 3 to 5% genotyping error. Both arrays are publicly available.
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Affiliation(s)
- Yoko Hiraoka
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Sergio Pietro Ferrante
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Guohong Albert Wu
- US Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA
| | - Claire T Federici
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Mikeal L Roose
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
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Aleza P, Garavello MF, Rouiss H, Benedict AC, Garcia-Lor A, Hernández M, Navarro L, Ollitrault P. Inheritance pattern of tetraploids pummelo, mandarin, and their interspecific hybrid sour orange is highly influenced by their phylogenomic structure. FRONTIERS IN PLANT SCIENCE 2023; 14:1327872. [PMID: 38143579 PMCID: PMC10739408 DOI: 10.3389/fpls.2023.1327872] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Accepted: 11/20/2023] [Indexed: 12/26/2023]
Abstract
Citrus polyploidy is associated with a wide range of morphological, genetic, and physiological changes that are often advantageous for breeding. Citrus triploid hybrids are very interesting as new seedless varieties. However, tetraploid rootstocks promote adaptation to different abiotic stresses and promote resilience. Triploid and tetraploid hybrids can be obtained through sexual hybridizations using tetraploid parents (2x × 4x, 4x × 2x, or 4x × 4x), but more knowledge is needed about the inheritance pattern of tetraploid parents to optimize the efficiency of triploid varieties and tetraploid rootstock breeding strategies. In this work, we have analyzed the inheritance pattern of three tetraploid genotypes: 'Chandler' pummelo (Citrus maxima) and 'Cleopatra' mandarin (Citrus reticulata), which represent two clear examples of autotetraploid plants constituted by the genome of a single species, and the 'Sevillano' sour orange, which is an allotetraploid interspecific hybrid between C. maxima and C. reticulata. Polymorphic simple sequence repeat (SSR) and single-nucleotide polymorphism (SNP) markers were used to estimate parental heterozygosity restitution, and allele frequencies for centromeric loci were used to calculate the preferential pairing rate related to the proportion of disomic and tetrasomic segregation. The tetraploid pummelo and mandarin displayed tetrasomic segregation. Sour orange evidenced a clear intermediate inheritance for five of the nine chromosomes (1, 2, 5, 7, and 8), a slight tendency toward tetrasomic inheritance on chromosome 3, and intermediate inheritance with a tendency toward disomy for chromosomes 4, 6, and 9. These results indicate that the interspecific versus intraspecific phylogenomic origin affects preferential pairing and, therefore, the inheritance patterns. Despite its high level of heterozygosity, the important preferential chromosome pairing observed in sour orange results in a limited diversity of the genotypic variability of its diploid gametes, and consequently, a large part of the genetic value of the original diploid sour orange is transferred to the tetraploid progenies.
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Affiliation(s)
- Pablo Aleza
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Miguel Fernando Garavello
- Concordia Agricultural Experimental Station, National Agricultural Technology Institute, Concordia, Entre Ríos, Argentina
| | - Houssem Rouiss
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Ana Cristina Benedict
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Andres Garcia-Lor
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Maria Hernández
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Luis Navarro
- Departamento de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Moncada, Valencia, Spain
| | - Patrick Ollitrault
- Centre de coopération internationale en recherche agronomique pour le développement Centre de coopération internationale en recherche agronomique pour le développement (CIRAD), Amélioration Génétique et Adaptation des Plantes Méditerranéennes et Tropicales (UMR AGAP) Institut, Montpellier, France
- AGAP Institut, Univ Montpellier, Centre de coopération internationale en recherche agronomique pour le développement (CIRAD), INRAE, Institut Agro, Montpellier, France
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Singh J, Sharma A, Sharma V, Gaikwad PN, Sidhu GS, Kaur G, Kaur N, Jindal T, Chhuneja P, Rattanpal HS. Comprehensive genome-wide identification and transferability of chromosome-specific highly variable microsatellite markers from citrus species. Sci Rep 2023; 13:10919. [PMID: 37407627 DOI: 10.1038/s41598-023-37024-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Accepted: 06/14/2023] [Indexed: 07/07/2023] Open
Abstract
Citrus species among the most important and widely consumed fruit in the world due to Vitamin C, essential oil glands, and flavonoids. Highly variable simple sequence repeats (SSR) markers are one of the most informative and versatile molecular markers used in perennial tree genetic research. SSR survey of Citrus sinensis and Citrus maxima were identified perfect SSRs spanning nine chromosomes. Furthermore, we categorized all SSR motifs into three major classes based on their tract lengths. We designed and validated a class I SSRs in the C. sinensis and C. maxima genome through electronic polymerase chain reaction (ePCR) and found 83.89% in C. sinensis and 78.52% in C. maxima SSRs producing a single amplicon. Then, we selected extremely variable SSRs (> 40 nt) from the ePCR-verified class I SSRs and in silico validated across seven draft genomes of citrus, which provided us a subset of 84.74% in C. sinensis and 77.53% in C. maxima highly polymorphic SSRs. Out of these, 129 primers were validated on 24 citrus genotypes through wet-lab experiment. We found 127 (98.45%) polymorphic HvSSRs on 24 genotypes. The utility of the developed HvSSRs was demonstrated by analysing genetic diversity of 181 citrus genotypes using 17 HvSSRs spanning nine citrus chromosomes and were divided into 11 main groups through 17 HvSSRs. These chromosome-specific SSRs will serve as a powerful genomic tool used for future QTL mapping, molecular breeding, investigation of population genetic diversity, comparative mapping, and evolutionary studies among citrus and other relative genera/species.
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Affiliation(s)
- Jagveer Singh
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
- Department of Fruit Science, College of Horticulture & Forestry, Acharya Narendra Deva University of Agricultural & Technology, Kumarganj, 224229, India
| | - Ankush Sharma
- Plant Genome Mapping Laboratory, University of Georgia, Athens, GA, 30602, USA
| | - Vishal Sharma
- National Agri-Food Biotechnology Institute, Sector-81, SAS Nagar, Mohali, Punjab, 140308, India
- Faculty of Applied Sciences and Biotechnology, Shoolini University, Solan, 173229, India
| | - Popat Nanaso Gaikwad
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
| | - Gurupkar Singh Sidhu
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India.
| | - Gurwinder Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
| | - Nimarpreet Kaur
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
| | - Taveena Jindal
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
| | - Parveen Chhuneja
- School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, 141004, India
| | - H S Rattanpal
- Department of Fruit Science, Punjab Agricultural University, Ludhiana, 141004, India
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Kulyan R, Samarina L, Shkhalakhova R, Kuleshov A, Ukhatova Y, Antonova O, Koninskaya N, Matskiv A, Malyarovskaya V, Ryndin A. InDel and SCoT Markers for Genetic Diversity Analysis in a Citrus Collection from the Western Caucasus. Int J Mol Sci 2023; 24:8276. [PMID: 37175981 PMCID: PMC10179493 DOI: 10.3390/ijms24098276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 04/30/2023] [Accepted: 05/02/2023] [Indexed: 05/15/2023] Open
Abstract
Citrus collections from extreme growing regions can be an important source of tolerant germplasms for the breeding of cold-tolerant varieties. However, the efficient utilization of these germplasms requires their genetic background information. Thus, efficient marker systems are necessary for the characterization and identification of valuable accessions. In this study, the efficiency of 36 SCoT markers and 60 InDel markers were evaluated as part of the broad citrus collection of the Western Caucasus. The interspecific and intraspecific genetic diversity and genetic structures were analyzed for 172 accessions, including 31 species and sets of the locally derived cultivars. Single markers, such as SCoT18 (0.84), SCoT20 (0.93), SCoT23 (0.87), SCoT31 (0.88), SCoT36 (0.87) и LG 1-4 (0.94), LG 4-3 (0.86), LG 7-11 (0.98), and LG 8-10 (0.83), showed a high discriminating power, indicating the good applicability of these markers to assess intraspecific diversity of the genus Citrus. Overall, SCoT markers showed a higher level of polymorphism than InDel markers. According to analysis of population structure, SCoT and InDel markers showed K = 9 and K = 5 genetic clusters, respectively. The lowest levels of genetic admixtures and diversity were observed among the locally derived satsumas and lemons. The highest level of genetic admixtures was observed in the lime group. Phylogenetic relationships indicated a high level of interspecific genetic diversity but a low level of intraspecific diversity in locally derived satsumas and lemons. The results provide new insight into the origin of citrus germplasms and their distribution in colder regions. Furthermore, they are important for implementing conservation measures, controlling genetic erosion, developing breeding strategies, and improving breeding efficiency.
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Affiliation(s)
- Raisa Kulyan
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Lidiia Samarina
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
- “Sirius University of Science and Technology”, Olimpiyskiy Ave. b.1, 354340 Sirius, Kransnodar Region, Russia; (Y.U.); (O.A.)
| | - Ruset Shkhalakhova
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Alexandr Kuleshov
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Yulia Ukhatova
- “Sirius University of Science and Technology”, Olimpiyskiy Ave. b.1, 354340 Sirius, Kransnodar Region, Russia; (Y.U.); (O.A.)
- Federal Research Center N. I. Vavilov All-Russian Institute of Plant Genetic Resources (VIR), 190000 Saint Petersburg, Russia
| | - Olga Antonova
- “Sirius University of Science and Technology”, Olimpiyskiy Ave. b.1, 354340 Sirius, Kransnodar Region, Russia; (Y.U.); (O.A.)
| | - Natalia Koninskaya
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Alexandra Matskiv
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Valentina Malyarovskaya
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
| | - Alexey Ryndin
- Federal Research Centre the Subtropical Scientific Centre of the Russian Academy of Sciences, 354002 Sochi, Russia; (R.K.); (R.S.); (A.K.); (N.K.); (A.M.); (V.M.); (A.R.)
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Calvez L, Dereeper A, Perdereau A, Mournet P, Miranda M, Bruyère S, Hufnagel B, Froelicher Y, Lemainque A, Morillon R, Ollitrault P. Meiotic Behaviors of Allotetraploid Citrus Drive the Interspecific Recombination Landscape, the Genetic Structures, and Traits Inheritance in Tetrazyg Progenies Aiming to Select New Rootstocks. PLANTS (BASEL, SWITZERLAND) 2023; 12:1630. [PMID: 37111854 PMCID: PMC10146282 DOI: 10.3390/plants12081630] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/25/2023] [Revised: 03/29/2023] [Accepted: 04/06/2023] [Indexed: 06/19/2023]
Abstract
Sexual breeding at the tetraploid level is a promising strategy for rootstock breeding in citrus. Due to the interspecific origin of most of the conventional diploid citrus rootstocks that produced the tetraploid germplasm, the optimization of this strategy requires better knowledge of the meiotic behavior of the tetraploid parents. This work used Genotyping By Sequencing (GBS) data from 103 tetraploid hybrids to study the meiotic behavior and generate a high-density recombination landscape for their tetraploid intergenic Swingle citrumelo and interspecific Volkamer lemon progenitors. A genetic association study was performed with root architecture traits. For citrumelo, high preferential chromosome pairing was revealed and led to an intermediate inheritance with a disomic tendency. Meiosis in Volkamer lemon was more complex than that of citrumelo, with mixed segregation patterns from disomy to tetrasomy. The preferential pairing resulted in low interspecific recombination levels and high interspecific heterozygosity transmission by the diploid gametes. This meiotic behavior affected the efficiency of Quantitative Trait Loci (QTL) detection. Nevertheless, it enabled a high transmission of disease and pest resistance candidate genes from P. trifoliata that are heterozygous in the citrumelo progenitor. The tetrazyg strategy, using doubled diploids of interspecific origin as parents, appears to be efficient in transferring the dominant traits selected at the parental level to the tetraploid progenies.
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Affiliation(s)
- Lény Calvez
- UMR AGAP, CIRAD, F-97170 Petit-Bourg, France; (L.C.); (A.D.); (S.B.); (B.H.)
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
| | - Alexis Dereeper
- UMR AGAP, CIRAD, F-97170 Petit-Bourg, France; (L.C.); (A.D.); (S.B.); (B.H.)
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
| | - Aude Perdereau
- Genoscope, Institut de Biologie François-Jacob, Commissariat à l’Energie Atomique (CEA), Université Paris-Saclay, F-91000 Evry, France; (A.P.)
| | - Pierre Mournet
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
- UMR AGAP, CIRAD, F-34398 Montpellier, France
| | - Maëva Miranda
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
- UMR AGAP, CIRAD, F-34398 Montpellier, France
| | - Saturnin Bruyère
- UMR AGAP, CIRAD, F-97170 Petit-Bourg, France; (L.C.); (A.D.); (S.B.); (B.H.)
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
| | - Barbara Hufnagel
- UMR AGAP, CIRAD, F-97170 Petit-Bourg, France; (L.C.); (A.D.); (S.B.); (B.H.)
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
| | - Yann Froelicher
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
- UMR AGAP, CIRAD, F-20230 San Giuliano, France
| | - Arnaud Lemainque
- Genoscope, Institut de Biologie François-Jacob, Commissariat à l’Energie Atomique (CEA), Université Paris-Saclay, F-91000 Evry, France; (A.P.)
| | - Raphaël Morillon
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
- UMR AGAP, CIRAD, F-34398 Montpellier, France
| | - Patrick Ollitrault
- UMR AGAP, Institut Agro, CIRAD, INRAE, University of Montpellier, F-34060 Montpellier, France; (P.M.); (M.M.); (Y.F.); (R.M.)
- UMR AGAP, CIRAD, F-34398 Montpellier, France
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The Essential Oil of Citrus lumia Risso and Poit. ‘Pyriformis’ Shows Promising Antioxidant, Anti-Inflammatory, and Neuromodulatory Effects. Int J Mol Sci 2023; 24:ijms24065534. [PMID: 36982606 PMCID: PMC10058370 DOI: 10.3390/ijms24065534] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Revised: 02/26/2023] [Accepted: 03/12/2023] [Indexed: 03/18/2023] Open
Abstract
Citrus lumia Risso and Poit. ‘Pyriformis’ are horticultural varieties of Citrus lumia Risso. The fruit is very fragrant and pear-shaped, with a bitter juice, a floral flavor, and a very thick rind. The flavedo shows enlarged (0.74 × 1.16 mm), spherical and ellipsoidal secretory cavities containing the essential oil (EO), visible using light microscopy, and more evident using scanning electron microscopy. The GC-FID and GC-MS analyses of the EO showed a phytochemical profile characterized by the predominance of D-limonene (93.67%). The EO showed interesting antioxidant and anti-inflammatory activities (IC50 0.07–2.06 mg/mL), as evaluated by the in vitro cell-free enzymatic and non-enzymatic assays. To evaluate the effect on the neuronal functional activity, the embryonic cortical neuronal networks grown on multi-electrode array chips were exposed to non-cytotoxic concentrations of the EO (5–200 µg/mL). The spontaneous neuronal activity was recorded and the mean firing rate, mean burst rate, percentage of spikes in a burst, mean burst durations and inter-spike intervals within a burst parameter were calculated. The EO induced strong and concentration-dependent neuroinhibitory effects, with IC50 ranging between 11.4–31.1 µg/mL. Furthermore, it showed an acetylcholinesterase inhibitory activity (IC50 0.19 mg/mL), which is promising for controlling some of the key symptoms of neurodegenerative diseases such as memory and cognitive concerns.
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10
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Budiarto R, Poerwanto R, Santosa E, Efendi D, Agusta A. Agro-Physiological Traits of Kaffir Lime in Response to Pruning and Nitrogen Fertilizer under Mild Shading. PLANTS (BASEL, SWITZERLAND) 2023; 12:1155. [PMID: 36904015 PMCID: PMC10005155 DOI: 10.3390/plants12051155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/05/2023] [Revised: 02/24/2023] [Accepted: 02/27/2023] [Indexed: 06/18/2023]
Abstract
Mild shading has been reported to increase leaf production in kaffir lime (Citrus hystrix) through the improvement of agro-physiological variables, such as growth, photosynthesis, and water-use efficiency; however, there is still a knowledge gap concerning its growth and yield after experiencing severe pruning in harvest season. Additionally, a specific nitrogen (N) recommendation for leaf-oriented kaffir lime is still unavailable due to its lesser popularity compared to fruit-oriented citrus. The present study determined the best pruning level and N dose based on agronomy and the physiology of kaffir lime under mild shading. Nine-month-old kaffir lime seedlings grafted to rangpur lime (C. limonia) were arranged in a split-plot design, i.e., N dose as a main plot and pruning as a subplot. Comparative analysis resulted in 20% higher growth and a 22% higher yield in the high-pruned plants by leaving 30 cm of main stem above the ground rather than short ones with a 10 cm main stem. Both correlation and regression analysis strongly highlighted the importance of N for leaf numbers. Plants treated with 0 and 10 g N plant-1 experienced severe leaf chlorosis due to N deficiency, while those treated with 20 and 40 g N plant-1 showed N sufficiency; thus, the efficient recommendation for kaffir lime leaf production is 20 g N plant-1.
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Affiliation(s)
- Rahmat Budiarto
- Department of Agronomy, Faculty of Agriculture, Universitas Padjadjaran, Jatinangor, Sumedang 45363, Indonesia
| | - Roedhy Poerwanto
- Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Dramaga, Bogor 16680, Indonesia
| | - Edi Santosa
- Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Dramaga, Bogor 16680, Indonesia
| | - Darda Efendi
- Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Dramaga, Bogor 16680, Indonesia
| | - Andria Agusta
- Research Center for Pharmaceutical Ingredient and Traditional Medicine, National Research and Innovation Agency, Cibinong 16911, Indonesia
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Siano F, Picariello G, Castaldo D, Cautela D, Caruso T, Vasca E. Monitoring antioxidants by coulometry: Quantitative assessment of the strikingly high antioxidant capacity of bergamot (Citrus bergamia R.) by-products. Talanta 2023; 251:123765. [DOI: 10.1016/j.talanta.2022.123765] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 07/19/2022] [Accepted: 07/20/2022] [Indexed: 10/16/2022]
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12
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Madayag RE, Gentallan RJP, Quiñones KJO, Bartolome MCB, Vera Cruz JRA, Borromeo TH, Endonela LE, Timog EBS. The complete chloroplast genome of ‘biasong’ ( Citrus micrantha Wester), a native species from the Southern Philippines. MITOCHONDRIAL DNA PART B 2022; 7:1992-1996. [DOI: 10.1080/23802359.2022.2144515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- R. E. Madayag
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - R. Jr. P. Gentallan
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - K. J. O. Quiñones
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - M. C. B. Bartolome
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - J. R. A. Vera Cruz
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - T. H. Borromeo
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - L. E. Endonela
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
| | - E. B. S. Timog
- Institute of Crop Science, College of Agriculture and Food Science, University of the Philippines Los Baños, College, Laguna, Philippines
- Department of Forest Biological Sciences, College of Forestry and Natural Resources, University of the Philippines Los Baños, College, Laguna, Philippines
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Uddin N, Muhammad N, Ali N, Nisar M, Liu M. Genomic constitution and relationships of Ziziphus species collected from Malakand Division, Pakistan. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2022; 28:1939-1953. [PMID: 36484032 PMCID: PMC9723090 DOI: 10.1007/s12298-022-01249-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Revised: 03/11/2022] [Accepted: 04/07/2022] [Indexed: 06/01/2023]
Abstract
Polyploidization has played a major role in plant evolution and can alter plant morphology, phenology, and ecology within only one or a few generations. Ziziphus species are economically as well as nutritionally important fruit-yielding trees. Identification of genotypes with unique traits or those with higher ploidy levels or a broader genetic base could lead to further improvements within the species. The current study has assessed the ploidy levels in the Ziziphus species (Ziziphus jujuba Mill. and Ziziphus nummularia (Burm. f. Wight & Arn) with phenotypic traits, flow cytometry, and chromosomal count as well as with SSRs markers. Morphological traits were inferred to be the most important drivers of trait variations among the investigated genotypes. The total sugar, total cAMPs, titratable acid, and chlorophyll (a, b, and total) were also significantly different in contrast with diploid plants, which showed that tetraploid Ziziphus had the potential to increase nutritional contents. Out of twenty (20), five (5) Z. jujuba genotypes (ZJL-9, ZJL-12, ZJL-17, ZJL-18, and ZJL-19) were found tetraploid 2n = 4x = 48, with genome size ranging from 965.9 to1238.8 Mb that was significantly higher than the tetraploid Z. jujuba Mill. variety Dongzao. Similarly, Z. nummularia ZNL-07 to ZNL-15 have found tetraploid 2n = 4x = 72 with genomic sizes ranging from 1152.2 to 1746.8 Mb respectively. Simple sequence repeats (SSRs) marker was applied to assess the genetic relationship within Ziziphus genotypes. To the best of our understanding, this is the first report on the identification of naturalized random tetraploids within the Pakistani Ziziphus species. This study provides important insights into the genomic architecture of Ziziphus species with implications for classification, conservation, and improvements of Ziziphus germplasm resources.
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Affiliation(s)
- Nisar Uddin
- Department of Botany, Hazara University Mansehra, Khyber Pakhtunkhwa, Pakistan
- Department of Pomology, College of Horticulture, Hebei Agricultural University, Baoding, 071001 Hebei China
- Department of Botany, University of Malakand, Chakdara, Khyber Pakhtunkhwa Pakistan
| | - Noor Muhammad
- Department of Pomology, College of Horticulture, Hebei Agricultural University, Baoding, 071001 Hebei China
| | - Niaz Ali
- Department of Botany, Hazara University Mansehra, Khyber Pakhtunkhwa, Pakistan
| | - Mohammad Nisar
- Department of Botany, University of Malakand, Chakdara, Khyber Pakhtunkhwa Pakistan
| | - Mengjun Liu
- Department of Pomology, College of Horticulture, Hebei Agricultural University, Baoding, 071001 Hebei China
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Licciardello G, Caruso P, Bella P, Boyer C, Smith MW, Pruvost O, Robene I, Cubero J, Catara V. Pathotyping Citrus Ornamental Relatives with Xanthomonas citri pv. citri and X. citri pv. aurantifolii Refines Our Understanding of Their Susceptibility to These Pathogens. Microorganisms 2022; 10:microorganisms10050986. [PMID: 35630430 PMCID: PMC9148020 DOI: 10.3390/microorganisms10050986] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2022] [Revised: 05/01/2022] [Accepted: 05/05/2022] [Indexed: 11/16/2022] Open
Abstract
Xanthomonas citri pv. citri (Xcc) and X. citri pv. aurantifolii (Xca) are causal agents of Citrus Bacterial Canker (CBC), a devastating disease that severely affects citrus plants. They are harmful organisms not reported in Europe or the Mediterranean Basin. Host plants are in the Rutaceae family, including the genera Citrus, Poncirus, and Fortunella, and their hybrids. In addition, other genera of ornamental interest are reported as susceptible, but results are not uniform and sometimes incongruent. We evaluated the susceptibility of 32 ornamental accessions of the Rutaceae family belonging to the genera Citrus, Fortunella, Atalantia, Clausena, Eremocitrus, Glycosmis, Microcitrus, Murraya, Casimiroa, Calodendrum, and Aegle, and three hybrids to seven strains of Xcc and Xca. Pathotyping evaluation was assessed by scoring the symptomatic reactions on detached leaves. High variability in symptoms and bacterial population was shown among the different strains in the different hosts, indicative of complex host–pathogen interactions. The results are mostly consistent with past findings, with the few discrepancies probably due to our more complete experimental approach using multiple strains of the pathogen and multiple hosts. Our work supports the need to regulate non-citrus Rutaceae plant introductions into areas, like the EU and Mediterranean, that are currently free of this economically important pathogen.
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Affiliation(s)
- Grazia Licciardello
- Dipartimento di Agricoltura Alimentazione e Ambiente, Università degli Studi di Catania, 95130 Catania, Italy;
- Centro di Ricerca Olivicoltura, Frutticoltura e Agrumicoltura-Consiglio per la Ricerca in Agricoltura e L’analisi Dell’Economia Agraria (CREA), 95024 Acireale, Italy;
| | - Paola Caruso
- Centro di Ricerca Olivicoltura, Frutticoltura e Agrumicoltura-Consiglio per la Ricerca in Agricoltura e L’analisi Dell’Economia Agraria (CREA), 95024 Acireale, Italy;
| | - Patrizia Bella
- Dipartimento di Scienze Agrarie, Alimentari e Forestali, Università degli Studi di Palermo, 90128 Palermo, Italy;
| | - Claudine Boyer
- CIRAD, UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), 97410 Saint Pierre, La Réunion, France; (C.B.); (O.P.); (I.R.)
| | - Malcolm W. Smith
- Department of Agriculture & Fisheries, Bundaberg Research Station, Bundaberg, QLD 4670, Australia;
| | - Olivier Pruvost
- CIRAD, UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), 97410 Saint Pierre, La Réunion, France; (C.B.); (O.P.); (I.R.)
| | - Isabelle Robene
- CIRAD, UMR Peuplements Végétaux et Bioagresseurs en Milieu Tropical (PVBMT), 97410 Saint Pierre, La Réunion, France; (C.B.); (O.P.); (I.R.)
| | - Jaime Cubero
- Departamento de Protección Vegetal, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria/Consejo Superior de Investigaciones Científicas, 28040 Madrid, Spain;
| | - Vittoria Catara
- Dipartimento di Agricoltura Alimentazione e Ambiente, Università degli Studi di Catania, 95130 Catania, Italy;
- Correspondence: ; Tel.: +39-095-714-7370
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Goh RMV, Pua A, Luro F, Ee KH, Huang Y, Marchi E, Liu SQ, Lassabliere B, Yu B. Distinguishing citrus varieties based on genetic and compositional analyses. PLoS One 2022; 17:e0267007. [PMID: 35436309 PMCID: PMC9015143 DOI: 10.1371/journal.pone.0267007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Accepted: 03/31/2022] [Indexed: 11/18/2022] Open
Abstract
Simple sequence repeats (SSR) markers and secondary metabolite composition were used in combination to study seven varieties of citrus for the first time. With reference to established accessions of citrus, two of the varieties (Chanh Giay and Ma Nao Pan) were predicted to be Mexican key limes, while three were mandarin hybrids (Nagpur, Pontianak and Dalandan) and the remaining two (Qicheng and Mosambi) were related to the sweet orange. Notably, Dalandan was genetically more like a mandarin despite often referred to as an orange locally, whereas Mosambi was more likely to be a sweet orange hybrid although it has also been called a sweet lime due to its green peel and small size. Several key secondary metabolites such as polymethoxyflavones (sinensetin, tangeretin etc.), furanocoumarins (bergapten, citropten etc.) and volatiles (citronellol, α-sinensal etc.) were identified to be potential biomarkers for separation of citrus species. However, despite having similar genetic profiles, variations in the volatile profile of the two limes were observed; similarly, there were differences in the secondary metabolite profiles of the three mandarin hybrids despite having a common ancestral parent, highlighting the usefulness of genetic and compositional analyses in combination for revealing both origins and flavour profiles especially in citrus hybrids. This knowledge would be crucial for variety screening and selection for use in flavour or fragrance creation and application.
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Affiliation(s)
- Rui Min Vivian Goh
- Department of Food Science and Technology, National University of Singapore, Singapore, Singapore
| | - Aileen Pua
- Department of Food Science and Technology, National University of Singapore, Singapore, Singapore
- Mane SEA PTE LTD, Singapore, Singapore
| | - Francois Luro
- UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Univ Montpellier, San Giuliano, France
| | | | - Yunle Huang
- Department of Food Science and Technology, National University of Singapore, Singapore, Singapore
- Mane SEA PTE LTD, Singapore, Singapore
| | - Elodie Marchi
- UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Univ Montpellier, San Giuliano, France
| | - Shao Quan Liu
- Department of Food Science and Technology, National University of Singapore, Singapore, Singapore
| | | | - Bin Yu
- Mane SEA PTE LTD, Singapore, Singapore
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Shin SC, Song JH, Yoo YH, Lee JS, Kang SI, Kim HJ, Lee H, Kim HB. The complete chloroplast genome sequence of a medicinal citrus landrace, Citrus erythrosa Hort. ex Tanaka in Jeju Island, Korea. Mitochondrial DNA B Resour 2022; 7:580-582. [PMID: 35386626 PMCID: PMC8979535 DOI: 10.1080/23802359.2022.2057243] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022] Open
Abstract
Citrus erythrosa (Dongjeongkyool in Korean) is a medicinal citrus landrace that grows in Korea. In this study, we characterized the complete chloroplast (Cp) genome (160,120 bp) of C. erythrosa. The Cp genome was consisted of 4 distinct regions: a large single copy (87,731 bp), a small single copy (18,393 bp), and a pair of inverted repeat regions (26,998 bp). The Cp genome encodes a total of 133 genes including 88 protein-coding genes, 37 tRNA genes and 8 rRNA genes. The phylogenetic analysis reveals that C. erythrosa is a sister group to the clade of species including C. reticulata within the genus Citrus.
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Affiliation(s)
| | - Ji Hoon Song
- Jeju Institute of Korean Medicine, Jeju, Republic of Korea
| | - Yo-Han Yoo
- Korea Polar Research Institute, Incheon, Republic of Korea
| | - Joo-Sang Lee
- Jeju Institute of Korean Medicine, Jeju, Republic of Korea
| | - Seong-Il Kang
- Jeju Institute of Korean Medicine, Jeju, Republic of Korea
| | - Hee Jeong Kim
- Jeju Institute of Korean Medicine, Jeju, Republic of Korea
| | - Hyoungseok Lee
- Korea Polar Research Institute, Incheon, Republic of Korea
- Polar Science Department, University of Science & Technology, Incheon, Republic of Korea
| | - Ho Bang Kim
- Life Sciences Research Institute, Biomedic Co., Ltd., Bucheon, Republic of Korea
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Borredá C, Perez-Roman E, Talon M, Terol J. Comparative transcriptomics of wild and commercial Citrus during early ripening reveals how domestication shaped fruit gene expression. BMC PLANT BIOLOGY 2022; 22:123. [PMID: 35300613 PMCID: PMC8928680 DOI: 10.1186/s12870-022-03509-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2021] [Accepted: 03/03/2022] [Indexed: 05/03/2023]
Abstract
BACKGROUND Interspecific hybridizations and admixtures were key in Citrus domestication, but very little is known about their impact at the transcriptomic level. To determine the effects of genome introgressions on gene expression, the transcriptomes of the pulp and flavedo of three pure species (citron, pure mandarin and pummelo) and four derived domesticated genetic admixtures (sour orange, sweet orange, lemon and domesticated mandarin) have been analyzed at color break. RESULTS Many genes involved in relevant physiological processes for domestication, such sugar/acid metabolism and carotenoid/flavonoid synthesis, were differentially expressed among samples. In the low-sugar, highly acidic species lemon and citron, many genes involved in sugar metabolism, the TCA cycle and GABA shunt displayed a reduced expression, while the P-type ATPase CitPH5 and most subunits of the vacuolar ATPase were overexpressed. The red-colored species and admixtures were generally characterized by the overexpression in the flavedo of specific pivotal genes involved in the carotenoid biosynthesis, including phytoene synthase, ζ-carotene desaturase, β-lycopene cyclase and CCD4b, a carotenoid cleavage dioxygenase. The expression patterns of many genes involved in flavonoid modifications, especially the flavonoid and phenylpropanoid O-methyltransferases showed extreme diversity. However, the most noticeable differential expression was shown by a chalcone synthase gene, which catalyzes a key step in the biosynthesis of flavonoids. This chalcone synthase was exclusively expressed in mandarins and their admixed species, which only expressed the mandarin allele. In addition, comparisons between wild and domesticated mandarins revealed that the major differences between their transcriptomes concentrate in the admixed regions. CONCLUSION In this work we present a first study providing broad evidence that the genome introgressions that took place during citrus domestication largely shaped gene expression in their fruits.
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Affiliation(s)
- Carles Borredá
- Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), 46113, Moncada, Valencia, Spain
| | - Estela Perez-Roman
- Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), 46113, Moncada, Valencia, Spain
| | - Manuel Talon
- Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), 46113, Moncada, Valencia, Spain
| | - Javier Terol
- Centro de Genómica, Instituto Valenciano de Investigaciones Agrarias (IVIA), 46113, Moncada, Valencia, Spain.
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Clery RA, Armendi A, Franco V, Furrer S, Genereux JC, Kahn TL, Koshiro K. Chemical Diversity of Citrus Leaf Essential Oils. Chem Biodivers 2022; 19:e202100963. [DOI: 10.1002/cbdv.202100963] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2021] [Accepted: 01/20/2022] [Indexed: 11/06/2022]
Affiliation(s)
- Robin A Clery
- Givaudan Schweiz AG: Givaudan Suisse SA Science & Technology Kemptpark 50 8310 Kemptthal SWITZERLAND
| | - Anjo Armendi
- University of California Riverside Chemistry 501 Big Springs Road 92521 Riverside UNITED STATES
| | - Veronica Franco
- University of California Riverside Chemistry 501 Big Springs Road 92521 Riverside UNITED STATES
| | - Stefan Furrer
- Givaudan Flavors Corp Cincinnati Science & Technology 1199 Edison Drive 45216 Cincinnati UNITED STATES
| | - Joseph C. Genereux
- University of California Riverside Chemistry 501 Big Springs Road 92521 Riverside UNITED STATES
| | - Tracy L. Kahn
- University of California Riverside Department of Botany and Plant Sciences Department of Botany and Plant SciencesUniversity of California at Riverside 92521 Riverside UNITED STATES
| | - Kevin Koshiro
- University of California Riverside Chemistry 501 Big Springs Road 92521 Riverside UNITED STATES
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Xin YH, Wu YX, Qiao B, Su L, Xie SQ, Ling P. Evaluation on the phenotypic diversity of Calamansi (Citrus microcarpa) germplasm in Hainan island. Sci Rep 2022; 12:371. [PMID: 35013363 PMCID: PMC8748621 DOI: 10.1038/s41598-021-03775-x] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Accepted: 10/26/2021] [Indexed: 11/09/2022] Open
Abstract
Calamansi or Philippine lime (Citrofortunella macrocarpa) is an important crop for local economic in Hainan Island. There is no study about Calamansi germplasm evaluation and cultivar development. In this study, Calamansi data were collected from 151 of Calamansi seedling trees, and 37 phenotypic traits were analyzed to investigate their genetic diversities. The cluster analysis and principal component analysis were conducted aiming to provide a theoretical basis for the Calamansi genetic improvement. The results of the diversity analysis revealed: (1) the diversity indexes for qualitative traits were ranged from 0.46–1.39, and the traits with the highest genetic diversity level were fruit shaped and pulp colored (H′ > 1.20); and the diversity indexes for quantitative traits ranged from 0.67–2.10, with the exception of a lower in fruit juice rate (1.08) and lower in number of petals (0.67). (2) The clustering analysis of phenotypic traits have arranged the samples into 4 categories: the first group characterized by fewer flesh Segment number per fruit (SNF) and more Oil cell number (OCN); the second group had 7 samples, all characterized with larger Crown breadth (CB), higher Yield per tree (YPT), the lager leaf, the higher Ascorbic acid (AA), and less Seed number per fruit (SNPF); the third group had 25 samples characterized by smaller Tree foot diameter (TFD),smaller Fruit shape index (FSI) and higher Total soluble solids (TSS) contain; the fourth group had 87 samples, they were characterized by shorter Petiole length (PEL), larger fruit, higher Juice ratio (JR), multiple Stamen number (SN) and longer Pistil length (PIL). (3) The principal component analysis showed the values of the first 9 major components characteristic vectors were all greater than 3, the cumulative contribution rate reach 72.20%, including the traits of single fruit weight, fruit diameter, tree height, tree canopy width etc. Finally, based on the comprehensive main component value of all samples, the Calamansi individuals with higher testing scores were selected for further observation. This study concludes that Calamansi seedling populations in the Hainan Island holds great genetic diversity in varies traits, and can be useful for the Calamansi variety improvements.
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Affiliation(s)
- Yong-Hui Xin
- Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Haikou, 570228, China.,College of Forestry, Hainan University, Haikou, 570228, China
| | - Yuan-Xin Wu
- Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Haikou, 570228, China.,College of Forestry, Hainan University, Haikou, 570228, China
| | - Bin Qiao
- Ming Bo Scientific Technology Co., Ltd., Haikou, 571142, China
| | - Long Su
- Ming Bo Scientific Technology Co., Ltd., Haikou, 571142, China
| | - Shang-Qian Xie
- Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Haikou, 570228, China. .,College of Forestry, Hainan University, Haikou, 570228, China.
| | - Peng Ling
- Key Laboratory of Genetics and Germplasm Innovation of Tropical Special Forest Trees and Ornamental Plants, Ministry of Education, Haikou, 570228, China. .,College of Forestry, Hainan University, Haikou, 570228, China.
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20
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Antioxidant Metabolites in Primitive, Wild, and Cultivated Citrus and Their Role in Stress Tolerance. Molecules 2021; 26:molecules26195801. [PMID: 34641344 PMCID: PMC8510114 DOI: 10.3390/molecules26195801] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 09/17/2021] [Accepted: 09/21/2021] [Indexed: 01/07/2023] Open
Abstract
The genus Citrus contains a vast range of antioxidant metabolites, dietary metabolites, and antioxidant polyphenols that protect plants from unfavorable environmental conditions, enhance their tolerance to abiotic and biotic stresses, and possess multiple health-promoting effects in humans. This review summarizes various antioxidant metabolites such as organic acids, amino acids, alkaloids, fatty acids, carotenoids, ascorbic acid, tocopherols, terpenoids, hydroxycinnamic acids, flavonoids, and anthocyanins that are distributed in different citrus species. Among these antioxidant metabolites, flavonoids are abundantly present in primitive, wild, and cultivated citrus species and possess the highest antioxidant activity. We demonstrate that the primitive and wild citrus species (e.g., Atalantia buxifolia and C. latipes) have a high level of antioxidant metabolites and are tolerant to various abiotic and biotic stresses compared with cultivated citrus species (e.g., C. sinensis and C. reticulata). Additionally, we highlight the potential usage of citrus wastes (rag, seeds, fruit peels, etc.) and the health-promoting properties of citrus metabolites. Furthermore, we summarize the genes that are involved in the biosynthesis of antioxidant metabolites in different citrus species. We speculate that the genome-engineering technologies should be used to confirm the functions of candidate genes that are responsible for the accumulation of antioxidant metabolites, which will serve as an alternative tool to breed citrus cultivars with increased antioxidant metabolites.
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21
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Diversification of mandarin citrus by hybrid speciation and apomixis. Nat Commun 2021; 12:4377. [PMID: 34312382 PMCID: PMC8313541 DOI: 10.1038/s41467-021-24653-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2021] [Accepted: 06/25/2021] [Indexed: 02/06/2023] Open
Abstract
The origin and dispersal of cultivated and wild mandarin and related citrus are poorly understood. Here, comparative genome analysis of 69 new east Asian genomes and other mainland Asian citrus reveals a previously unrecognized wild sexual species native to the Ryukyu Islands: C. ryukyuensis sp. nov. The taxonomic complexity of east Asian mandarins then collapses to a satisfying simplicity, accounting for tachibana, shiikuwasha, and other traditional Ryukyuan mandarin types as homoploid hybrid species formed by combining C. ryukyuensis with various mainland mandarins. These hybrid species reproduce clonally by apomictic seed, a trait shared with oranges, grapefruits, lemons and many cultivated mandarins. We trace the origin of apomixis alleles in citrus to mangshanyeju wild mandarins, which played a central role in citrus domestication via adaptive wild introgression. Our results provide a coherent biogeographic framework for understanding the diversity and domestication of mandarin-type citrus through speciation, admixture, and rapid diffusion of apomictic reproduction.
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Chemical Variability of Peel and Leaf Essential Oils in the Citrus Subgenus Papeda (Swingle) and Few Relatives. PLANTS 2021; 10:plants10061117. [PMID: 34073135 PMCID: PMC8227882 DOI: 10.3390/plants10061117] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Revised: 05/28/2021] [Accepted: 05/28/2021] [Indexed: 12/03/2022]
Abstract
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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LC-ESI-QTOF-MS/MS Characterisation of Phenolics in Herbal Tea Infusion and Their Antioxidant Potential. FERMENTATION-BASEL 2021. [DOI: 10.3390/fermentation7020073] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Ginger (Zingiber officinale R.), lemon (Citrus limon L.) and mint (Mentha sp.) are commonly consumed medicinal plants that have been of interest due to their health benefits and purported antioxidant capacities. This study was conducted on the premise that no previous study has been performed to elucidate the antioxidant and phenolic profile of the ginger, lemon and mint herbal tea infusion (GLMT). The aim of the study was to investigate and characterise the phenolic contents of ginger, lemon, mint and GLMT, as well as determine their antioxidant potential. Mint recorded the highest total phenolic content, TPC (14.35 ± 0.19 mg gallic acid equivalent/g) and 2,2′-azino-bis(3-e-thylbenzothiazoline-6-sulfonic acid), ABTS (24.25 ± 2.18 mg ascorbic acid equivalent/g) antioxidant activity. GLMT recorded the highest antioxidant activity in the reducing power assay, RPA (1.01 ± 0.04 mg ascorbic acid equivalent/g) and hydroxyl radical scavenging assay, •OH-RSA (0.77 ± 0.08 mg ascorbic acid equivalent/g). Correlation analysis showed that phenolic content positively correlated with the antioxidant activity. Venn diagram analysis revealed that mint contained a high proportion of exclusive phenolic compounds. Liquid chromatography coupled with electrospray ionisation and quadrupole time of flight tandem mass spectrometry (LC-ESI-QTOF-MS/MS) characterised a total of 73 phenolic compounds, out of which 11, 31 and 49 were found in ginger, lemon and mint respectively. These characterised phenolic compounds include phenolic acids (24), flavonoids (35), other phenolic compounds (9), lignans (4) and stilbene (1). High-performance liquid chromatography photometric diode array (HPLC-PDA) quantification showed that GLMT does contain a relatively high concentration of phenolic compounds. This study presented the phenolic profile and antioxidant potential of GLMT and its ingredients, which may increase the confidence in developing GLMT into functional food products or nutraceuticals.
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Parallel evolution of UbiA superfamily proteins into aromatic O-prenyltransferases in plants. Proc Natl Acad Sci U S A 2021; 118:2022294118. [PMID: 33883279 DOI: 10.1073/pnas.2022294118] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Plants produce ∼300 aromatic compounds enzymatically linked to prenyl side chains via C-O bonds. These O-prenylated aromatic compounds have been found in taxonomically distant plant taxa, with some of them being beneficial or detrimental to human health. Although their O-prenyl moieties often play crucial roles in the biological activities of these compounds, no plant gene encoding an aromatic O-prenyltransferase (O-PT) has been isolated to date. This study describes the isolation of an aromatic O-PT gene, CpPT1, belonging to the UbiA superfamily, from grapefruit (Citrus × paradisi, Rutaceae). This gene was shown responsible for the biosynthesis of O-prenylated coumarin derivatives that alter drug pharmacokinetics in the human body. Another coumarin O-PT gene encoding a protein of the same family was identified in Angelica keiskei, an apiaceous medicinal plant containing pharmaceutically active O-prenylated coumarins. Phylogenetic analysis of these O-PTs suggested that aromatic O-prenylation activity evolved independently from the same ancestral gene in these distant plant taxa. These findings shed light on understanding the evolution of plant secondary (specialized) metabolites via the UbiA superfamily.
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25
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Demarcq B, Cavailles M, Lambert L, Schippa C, Ollitrault P, Luro F. Characterization of Odor-Active Compounds of Ichang Lemon ( Citrus wilsonii Tan.) and Identification of Its Genetic Interspecific Origin by DNA Genotyping. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2021; 69:3175-3188. [PMID: 33667086 DOI: 10.1021/acs.jafc.0c07894] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Ichang lemon is a citrus fruit whose rind gives off a delicious and much appreciated fragrance and flavor. The volatile components of the fruit peel of Ichang lemon were investigated by GC-MS and GC-O (AEDA method). Simultaneously, its genetic origin was identified by using diagnostic SNP markers specific to ancestral species and multiallelic SSR and InDel markers. Ichang lemon combines three ancestral genomes (Citrus maxima, Citrus ichangensis, and Citrus reticulata) and may be a pummelo × Yuzu hybrid. Although the major compounds of the Ichang lemon aromatic profile were present in Citrus junos, a few pummelo-specific compounds were also detected, such as indole and nootkatone, in agreement with its maternal lineage. 3-Methyl-3-sulfanylbutyl acetate, reported to occur in passion fruit and brewed coffee, was identified by GC-MS, GC-QTOF-MS, and GC-FTIR for the first time in citrus. This odor-active compound has a sulfurous, tropical fruity, green note.
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Affiliation(s)
- Benoit Demarcq
- V Mane Fils SA, 620 Route de Grasse, 06620 Le Bar-sur-Loup, France
| | | | - Laetitia Lambert
- V Mane Fils SA, 620 Route de Grasse, 06620 Le Bar-sur-Loup, France
| | | | - Patrick Ollitrault
- CIRAD, UMR AGAP, F-20230 San Giuliano, France
- UMR AGAP Institut, Université Montpellier, CIRAD, INRAE, Institut Agro, 20230 San Giuliano, France
| | - Francois Luro
- UMR AGAP Institut, Université Montpellier, CIRAD, INRAE, Institut Agro, 20230 San Giuliano, France
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26
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El Zayat MAS, Hassan AH, Nishawy E, Ali M, Amar MH. Patterns of genetic structure and evidence of Egyptian Citrus rootstock based on informative SSR, LTR-IRAP and LTR-REMAP molecular markers. J Genet Eng Biotechnol 2021; 19:29. [PMID: 33566197 PMCID: PMC7876178 DOI: 10.1186/s43141-021-00128-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Accepted: 02/01/2021] [Indexed: 11/10/2022]
Abstract
Background Releasing the draft genome of sweet orange provides useful information on genetic structure and molecular marker association with heritable breeding traits in citrus species and their structures. Last decades, microsatellite and retrotransposons are well known as a significant diverse component of the structural evolution. They represented the most potent elements for assessing sustainable utilization of the complicated classification in citrus breeding. Our study was performed to verify the structure analysis and the parentage genetic diversity among the Egyptian citrus rootstocks and the related species. Results Here, the performance of 26 SSR and 14 LTR-IRAP in addition to 20 LTR-REMAP markers have been used to conduct the discriminating power and the status of the genetic structure analysis among twenty specimens of citrus genotypes. As a result, the three markers approach exhibited a remarkable variation among the tested genotypes. Overall, the three markers have different discrimination power; the co-dominant SSR markers can differentiate within the group level only in addition to the species level of sour orange, while the dominant markers LTR-IRAP had the ability to discriminate among the group level in addition to species level and the origin of acids. Similarly, LTR-REMAP is suitable for classifying the group level and species level for mandarins as well the origin of Egyptian acids; probably due to it is integration of SSR and LTR-IRAP techniques. Structure and PCoA results of LTR-REMAP marker in strong support for the group structure of citrus species have been divided into four sets: acids, grapefruit/pummelo, mandarin/orange, and sour orange. Conclusion Our findings of the genetic structure analysis support the monophyletic nature of the citrus species; are able to provide unambiguous identification and disposition of true species and related hybrids like lemon, lime, citron, sour orange, grapefruit, mandarin, sweet orange, pummelo, and fortunella; and resulted in their placement in individual or overlap groups. The outcomes of these results will offer helpful and potential information for breeding programs and conservation approaches as a key stage toward identifying the interspecific admixture and the inferred structure origins of Egyptian citrus rootstock and acid cultivars.
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Affiliation(s)
| | - Ahmed H Hassan
- Egyptian Deserts Gene Bank, Desert Research Center, Cairo, Egypt
| | - Elsayed Nishawy
- Egyptian Deserts Gene Bank, Desert Research Center, Cairo, Egypt
| | - Mohammed Ali
- Egyptian Deserts Gene Bank, Desert Research Center, Cairo, Egypt
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27
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Cautela D, De Sio F, Balestrieri ML, Casale R, Laratta B, Castaldo D, Pastore A, Servillo L, DʼOnofrio N. Amino acids, betaines and related ammonium compounds in Neapolitan limmo, a Mediterranean sweet lime, also known as lemoncetta Locrese. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2021; 101:981-988. [PMID: 32761816 DOI: 10.1002/jsfa.10706] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2020] [Revised: 07/30/2020] [Accepted: 08/06/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND The so-called 'Neapolitan limmo' or 'lemoncetta Locrese' is an old and now rare Mediterranean sweet lime, similar to lemon but smaller. It is a fruit distinguished from orange, lemon, mandarin, and lime for its sweeter, watery, and non-acidic taste, with a pH between 5.6 and 5.9. No compositional studies are currently available for this citrus fruit. Here we report, for the first time, the distribution in the limmo juice of free amino acids and their main derivatives such as betaines and related ammonium compounds. RESULTS Seven proteinogenic amino acids (proline, asparagine, serine, aspartic acid, glutamine, alanine, and threonine) and a non-protein amino acid (γ-aminobutyric acid) characterize Neapolitan limmo juice. Proline betaine is the predominant betaine. The data were compared with those of other important citrus juices. CONCLUSION The specific 'taste quality' of Neapolitan limmo juice can be attributed to its peculiar composition in amino acids. The species-specific presence of the ammonium compound derivatives of the amino acid proline, with proline betaine as the predominant betaine, characterize the non-acidic varieties of Mediterranean sweet lime. Our study constitutes an important step towards the repopulation of this ancient plant and its exploitation in food industry. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Domenico Cautela
- Stazione Sperimentale per le Industrie delle Essenze e dei Derivati dagli Agrumi (SSEA) - Azienda Speciale CCIAA di Reggio Calabria, Reggio Calabria, Italy
| | - Francesco De Sio
- Stazione Sperimentale per le Industrie delle Conserve Alimentari (SSICA) - Fondazione di Ricerca CCIAA di Parma, Salerno, Italy
| | - Maria Luisa Balestrieri
- Dipartimento di Medicina di Precisione, Università degli Studi della Campania "Luigi Vanvitelli", Naples, Italy
| | - Rosario Casale
- Dipartimento di Medicina di Precisione, Università degli Studi della Campania "Luigi Vanvitelli", Naples, Italy
| | - Bruna Laratta
- Institute of Research on Terrestrial Ecosystems (IRET), National Research Council (CNR), Naples, Italy
| | - Domenico Castaldo
- Stazione Sperimentale per le Industrie delle Essenze e dei Derivati dagli Agrumi (SSEA) - Azienda Speciale CCIAA di Reggio Calabria, Reggio Calabria, Italy
- Dipartimento di Ingegneria Industriale e ProdALscarl, Università degli Studi di Salerno, Salerno, Italy
- Ministero dello Sviluppo Economico (MiSE), Rome, Italy
| | - Annalisa Pastore
- Department of Basic and Clinical Neuroscience, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK
| | - Luigi Servillo
- Dipartimento di Medicina di Precisione, Università degli Studi della Campania "Luigi Vanvitelli", Naples, Italy
| | - Nunzia DʼOnofrio
- Dipartimento di Medicina di Precisione, Università degli Studi della Campania "Luigi Vanvitelli", Naples, Italy
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28
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Transcriptional Analysis of C-Repeat Binding Factors in Fruit of Citrus Species with Differential Sensitivity to Chilling Injury during Postharvest Storage. Int J Mol Sci 2021; 22:ijms22020804. [PMID: 33467390 PMCID: PMC7830921 DOI: 10.3390/ijms22020804] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Revised: 01/05/2021] [Accepted: 01/12/2021] [Indexed: 12/16/2022] Open
Abstract
Citrus fruit are sensitive to chilling injury (CI) during cold storage, a peel disorder that causes economic losses. C-repeat binding factors (CBFs) are related to cold acclimation and tolerance in different plants. To explore the role of Citrus CBFs in fruit response to cold, an in silico study was performed, revealing three genes (CBF1, CBF2, and CBF3) whose expression in CI sensitive and tolerant cultivars was followed. Major changes occurred at the early stages of cold exposure (1-5 d). Interestingly, CBF1 was the most stimulated gene in the peel of CI-tolerant cultivars (Lisbon lemon, Star Ruby grapefruit, and Navelina orange), remaining unaltered in sensitive cultivars (Meyer lemon, Marsh grapefruit, and Salustiana orange). Results suggest a positive association of CBF1 expression with cold tolerance in Citrus cultivars (except for mandarins), whereas the expression of CBF2 or CBF3 genes did not reveal a clear relationship with the susceptibility to CI. Light avoidance during fruit growth reduced postharvest CI in most sensitive cultivars, associated with a rapid and transient enhance in the expression of the three CBFs. Results suggest that CBFs-dependent pathways mediate at least part of the cold tolerance responses in sensitive Citrus, indicating that CBF1 participates in the natural tolerance to CI.
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29
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Rao MJ, Zuo H, Xu Q. Genomic insights into citrus domestication and its important agronomic traits. PLANT COMMUNICATIONS 2021; 2:100138. [PMID: 33511347 PMCID: PMC7816076 DOI: 10.1016/j.xplc.2020.100138] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2020] [Revised: 12/04/2020] [Accepted: 12/25/2020] [Indexed: 05/12/2023]
Abstract
Citrus originated in Southeast Asia, and it has become one of the most important fruit crops worldwide. Citrus has a long and obscure domestication history due to its clonal propagation, long life cycle, wide sexual compatibility, and complex genetic background. As the genomic information of both wild and cultivated citrus becomes available, their domestication history and underlying traits or genes are becoming clear. This review outlines the genomic features of wild and cultivated species. We propose that the reduction of citric acid is a critical trait for citrus domestication. The genetic model representing the change during domestication may be associated with a regulatory complex known as WD-repeat-MYB-bHLH-WRKY (WMBW), which is involved in acidification and anthocyanin accumulation. The reduction in or loss of anthocyanins may be due to a hitchhiking effect of fruit acidity selection, in which mutation occurs in the common regulator of these two pathways in some domesticated types. Moreover, we have summarized the domestication traits and candidate genes for breeding purposes. This review represents a comprehensive summary of the genes controlling key traits of interest, such as acidity, metabolism, and disease resistance. It also sheds light on recent advances in early flowering from transgenic studies and provides a new perspective for fast breeding of citrus. Our review lays a foundation for future research on fruit acidity, flavor, and disease resistance in citrus.
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Affiliation(s)
- Muhammad Junaid Rao
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture, Key Laboratory of Horticultural Plant Biology (Ministry of Education) Huazhong Agricultural University, Wuhan, Hubei 430070, P.R. China
| | - Hao Zuo
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture, Key Laboratory of Horticultural Plant Biology (Ministry of Education) Huazhong Agricultural University, Wuhan, Hubei 430070, P.R. China
| | - Qiang Xu
- Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture, Key Laboratory of Horticultural Plant Biology (Ministry of Education) Huazhong Agricultural University, Wuhan, Hubei 430070, P.R. China
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30
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Sivager G, Calvez L, Bruyere S, Boisne-Noc R, Brat P, Gros O, Ollitrault P, Morillon R. Specific Physiological and Anatomical Traits Associated With Polyploidy and Better Detoxification Processes Contribute to Improved Huanglongbing Tolerance of the Persian Lime Compared With the Mexican Lime. FRONTIERS IN PLANT SCIENCE 2021; 12:685679. [PMID: 34512684 PMCID: PMC8427660 DOI: 10.3389/fpls.2021.685679] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Accepted: 06/09/2021] [Indexed: 05/13/2023]
Abstract
Huanglongbing (HLB) is presently a major threat to the citrus industry. Because of this disease, millions of trees are currently dying worldwide. The putative causal agent is a motile bacteria belonging to Candidatus Liberibacter spp., which is transmitted by psyllids. The bacteria is responsible for the synthesis of callose at the phloem sieve plate, leading to the obstruction of the pores that provide connections between adjacent sieve elements, thus limiting the symplastic transport of the sugars and starches synthesized in leaves to the other plant organs. The Persian triploid lime (Citrus latifolia) is one of the most HLB-tolerant citrus varieties, but the determinants associated with the tolerance are still unknown. HLB-infected diploid Mexican lime (Citrus aurantiifolia) and Persian lime were investigated. The leaf petiole was analyzed using scanning electron microscopy (SEM) to observe callose deposition at the phloem sieve plate. Leaf starch contents and detoxification enzyme activities were investigated. In the field, Persian lime leaves present more limited symptoms due to HLB than the Mexican lime leaves do. Photosynthesis, stomatal conductance, and transpiration decreased compared with control plants, but values remained greater in the Persian than in the Mexican lime. Analysis of the petiole sieve plate in control petiole samples showed that pores were approximately 1.8-fold larger in the Persian than in the Mexican lime. SEM analyses of petiole samples of symptomatic leaves showed the important deposition of callose into pores of Mexican and Persian limes, whereas biochemical analyses revealed better detoxification in Persian limes than in Mexican limes. Moreover, SEM analyses of infected petiole samples of asymptomatic leaves showed much larger callose depositions into the Mexican lime pores than in the Persian lime pores, whereas biochemical traits revealed much better behavior in Persian limes than in Mexican limes. Our results reveal that polyploids present specific behaviors associated with important physiological and biochemical determinants that may explain the better tolerance of the Persian lime against HLB compared with the Mexican lime.
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Affiliation(s)
- Gary Sivager
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Leny Calvez
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Saturnin Bruyere
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Rosiane Boisne-Noc
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Pierre Brat
- CIRAD UMR Qualisud Dpt PERSYST-Qualisud, Univ. Montpellier, Avignon Université, CIRAD, Institut Agro, IRD, Université de La Réunion, Montpellier, France
| | - Olivier Gros
- C3MAG, UFR des Sciences Exactes et Naturelles, Université des Antilles, Pointe-à-Pitre, Guadeloupe
| | - Patrick Ollitrault
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
| | - Raphaël Morillon
- CIRAD, UMR AGAP Institut, Equipe SEAPAG, Petit-Bourg, Guadeloupe, French West Indies—UMR AGAP Institut, Univ. Montpellier, CIRAD, INRAE, Institut Agro, Montpellier, France
- *Correspondence: Raphaël Morillon,
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31
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Yoo YH, Oh CJ, Shin SC, Seo S, Kim M, Yun SH, Song KJ, Lee H, Kim HB. Complete chloroplast genome sequence of a medicinal landrace citrus Jinkyool ( Citrus sunki Hort. ex Tanaka) in Jeju Island, Korea. MITOCHONDRIAL DNA PART B-RESOURCES 2020; 5:3719-3720. [PMID: 33367074 PMCID: PMC7655064 DOI: 10.1080/23802359.2020.1833771] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
Abstract
Citrus sunki (Jinkyool) is a medicinal landrace citrus belonging to the Rutaceae family. We determined the complete chloroplast genome (160,699 bp) of C. sunki CRS0085 in Jeju Island, Korea. The genome is composed of four distinct parts; a large single copy of 87,918 bp, a small single copy of 21,355 bp, and a pair of inverted repeat regions of 25,713 bp. A total of 134 genes including 89 protein-coding genes, 37 tRNA genes, and eight rRNA genes were identified. The phylogenetic tree showed that C. sunki CRS0085 has the closest relationship with C. reticulata within genus Citrus.
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Affiliation(s)
- Yo-Han Yoo
- Korea Polar Research Institute, Incheon, Republic of Korea
| | - Chang Jae Oh
- Life Sciences Research Institute, Biomedic Co., Ltd, Bucheon, Republic of Korea
| | | | - Suyeon Seo
- Korea Polar Research Institute, Incheon, Republic of Korea.,Polar Science, University of Science & Technology, Incheon, Republic of Korea
| | - Minju Kim
- Citrus Research Institute, National Institute of Horticultural & Herbal Science, Seogwipo, Republic of Korea
| | - Su-Hyun Yun
- Citrus Research Institute, National Institute of Horticultural & Herbal Science, Seogwipo, Republic of Korea
| | - Kwan Jeong Song
- Major of Horticultural Science, Faculty of Bioscience and Industry, Jeju National University, Jeju, Republic of Korea.,Research Institute for Subtropical Agriculture & Biotechnology, Jeju National University, Jeju, Republic of Korea
| | - Hyoungseok Lee
- Korea Polar Research Institute, Incheon, Republic of Korea.,Polar Science, University of Science & Technology, Incheon, Republic of Korea
| | - Ho Bang Kim
- Life Sciences Research Institute, Biomedic Co., Ltd, Bucheon, Republic of Korea
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32
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Giovanelli S, Ciccarelli D, Giusti G, Mancianti F, Nardoni S, Pistelli L. Comparative assessment of volatiles in juices and essential oils from minor
Citrus
fruits (Rutaceae). FLAVOUR FRAG J 2020. [DOI: 10.1002/ffj.3603] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
| | | | - Giulia Giusti
- Dipartimento di Farmacia Università di Pisa Pisa Italy
| | - Francesca Mancianti
- Dipartimento di Scienze Veterinarie Università di Pisa Pisa Italy
- Centro Interdipartimentale di Ricerca Nutraceutica e Alimentazione per la Salute ‘NUTRAFOOD’ Università di Pisa Pisa Italy
| | - Simona Nardoni
- Dipartimento di Scienze Veterinarie Università di Pisa Pisa Italy
| | - Luisa Pistelli
- Dipartimento di Farmacia Università di Pisa Pisa Italy
- Centro Interdipartimentale di Ricerca Nutraceutica e Alimentazione per la Salute ‘NUTRAFOOD’ Università di Pisa Pisa Italy
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Target-Genes Reveal Species and Genotypic Specificity of Anthocyanin Pigmentation in Citrus and Related Genera. Genes (Basel) 2020; 11:genes11070807. [PMID: 32708660 PMCID: PMC7397085 DOI: 10.3390/genes11070807] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Revised: 07/08/2020] [Accepted: 07/10/2020] [Indexed: 11/23/2022] Open
Abstract
Background: Anthocyanin pigmentation characterizes a number of tissues of Citrus and its relatives. The gain and loss of pigmentation is intriguing and is inherited variously among species. Methods: Citrus germplasm was used to investigate the anthocyanin pigmentation of tissues never before considered, including stamen, style and stigma, and of young leaves, petals, rind and flesh of 28 genotypes belonging to 14 species. Citrus genotypes encompassed citron, lemon, sweet orange, lime, and Citrus relatives included Microcitrus, Murraya, and Severinia. A relative qRT-PCR analysis was carried out on the structural and regulatory genes: phenylalanine ammonia-lyase (PAL), chalcone synthase (CHS), chalcone isomerase (CHI), flavanone 3′-hydroxylase (F3H), dihydroflavonol 4-reductase (DFR), anthocyanidin synthase (ANS), uridine diphosphate glucose flavonoid glucosyl-transferase (UFGT), glutathione S-transferase (GST), Ruby and Noemi. Image analysis and a genomic approach were employed to evaluate how the red pigmentation is inherited among tissues and species. Results: Pigmentation of young leaves and petals is specific to citron and its hybrids. Ruby controls the pigmentation of petals, but not of leaves. The red color of the rind and flesh is a trait that particularly characterizes a diversity of sweet oranges, citron hybrids and Citrus relatives. Color expression depends on external factors and also on developmental stage. The coloration of stamen and style is citron-specific, while a red stigma is exclusive to Moro orange and its hybrids. Conclusion: It is hypothesized that there is a relationship among Citrus species and genes controlling anthocyanin pigmentation.
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Mahmoodi-Eshkaftaki M, Rahmanian-Koushkaki H. An optimum strategy for substrate mixture and pretreatment in biogas plants: Potential application for high-pH waste management. WASTE MANAGEMENT (NEW YORK, N.Y.) 2020; 113:329-341. [PMID: 32574990 DOI: 10.1016/j.wasman.2020.06.014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Revised: 05/10/2020] [Accepted: 06/12/2020] [Indexed: 06/11/2023]
Abstract
Optimization of anaerobic digestion poses many practical constraints. Therefore, a new approach was developed by integrating mathematical modeling and desirability analysis to determine optimum amounts of input factors. For this purpose, different proportions of co-digestion (grapefruit waste:cow manure) and pretreatments (NaOH and H2O2) were tested on the basis of a combined D-optimal experimental design. Different models were developed for certain slurry properties and CH4 production (responses) depending on the input factors. To improve the models, Box-Cox transformation was used to transform the models into more accurate formats. The improved models were then used in desirability analysis, and optimum ranges were determined instead of optimum absolute values in three cases of given constraints, (i) constraints of the slurry properties, (ii) increase in CH4 production, and (iii) constraints on all the responses (more important for plant efficiency). The optimum ranges were extracted for the desirability levels with values greater than 0.9 × (maximum desirability value). For the constraints given in all the responses, the optimum range of grapefruit waste:cow manure proportion was 2.5%:97.5% to 25%:75%, the optimum range of NaOH pretreatment was 0.3-2.64%, and the optimum range of H2O2 was range experimented except for 1.32-1.68%. Similar trends were determined for the other cases of constraints. To clarify the method of desirability analysis, the overlaying method was used to determine regions of interest according to some predefined constraints. Simultaneous consideration of range optimization and region of interest showed that (i) an amount greater than 25% grapefruit waste in the digestion decreased the CH4 production significantly, and (ii) plant efficiency was improved with all amounts of H2O2 except 1.32-1.68%, and with amounts of 0.3-1.2% and 1.8-2.64% of NaOH. As shown the optimum ranges are more common for practical use in plants.
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Hilf ME, Luo W. Inoculation Period and Citrus Host Effect Establishment of New Infections of ' Candidatus Liberibacter asiaticus' Transmitted via Vegetative Grafting. PLANT DISEASE 2020; 104:1894-1899. [PMID: 32396053 DOI: 10.1094/pdis-09-19-2022-re] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Vegetative grafting is a common method of transmitting and propagating 'Candidatus Liberibacter asiaticus', the bacterial species accepted as the causal agent of the citrus disease huanglongbing (HLB). Generally, infected tissue that is grafted to a receptor tree remains in place indefinitely to ensure transmission. In this study, individual HLB-symptomatic leaves were grafted as 'Ca. L. asiaticus' inoculum sources to receptor trees of six citrus types and removed after an inoculation period (IP) of 21, 51, or 81 days. The goal was to assess the effect of varying IPs on transmission of bacteria to the receptor tree and on the successful establishment of a new infection. Survival analysis of data from three trials showed a significantly reduced proportion of infected trees with an IP of 21 days compared with IPs of 51 and 81 days but that there was no significant difference in the proportion of infected trees between IPs of 51 and 81 days. In addition, the time to first detection of pathogen DNA in an infected tree was delayed significantly for the 21-day IP when compared with the 51- and 81-day IPs. Survival analysis showed that the probability of infection of sweet orange trees was significantly higher than for trees of five other citrus types throughout the experiment. There was no significant difference between the infection probabilities of these latter five citrus types. The data from this study show that successful infection by grafting is dependent upon the time of exposure to the inoculum, that shorter IPs increase the time needed to establish a systemic infection, and that citrus types vary in their overall susceptibility to infection by 'Ca. L. asiaticus'.
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Affiliation(s)
- Mark E Hilf
- United States Department of Agriculture-Agricultural Research Service, 2001 South Rock Road, Fort Pierce, FL 34945, U.S.A
| | - Weiqi Luo
- United States Department of Agriculture-Agricultural Research Service, 2001 South Rock Road, Fort Pierce, FL 34945, U.S.A
- North Carolina State University, Center for Integrated Pest Management, Raleigh, NC 27606, U.S.A
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Ahmed D, Curk F, Evrard JC, Froelicher Y, Ollitrault P. Preferential Disomic Segregation and C. micrantha/C. medica Interspecific Recombination in Tetraploid 'Giant Key' Lime; Outlook for Triploid Lime Breeding. FRONTIERS IN PLANT SCIENCE 2020; 11:939. [PMID: 32670332 PMCID: PMC7330052 DOI: 10.3389/fpls.2020.00939] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Accepted: 06/09/2020] [Indexed: 05/14/2023]
Abstract
The triploid 'Tahiti' lime (C. x latifolia (Yu. Tanaka) Tanaka) naturally originated from a merger between a haploid ovule of lemon (C. x limon (L.) Burm) and a diploid pollen from a 'Mexican' lime (C. x aurantiifolia (Christm.) Swing). The very limited natural inter-varietal diversity and gametic sterility of C. latifolia requires a phylogenomic based reconstruction breeding strategy to insure its diversification. We developed a strategy based on interploid hybridization between diploid lemon and the doubled diploid 'Giant Key' lime. This lime is a doubled diploid of 'Mexican' lime, itself a natural interspecific F1 hybrid between C. medica L. and C. micrantha Wester. For an optimized breeding program, we analyzed the meiotic behavior of the allotetraploid lime, the genetic structure of its diploid gametes, the interspecific recombination between C. medica and C. micrantha, and constructed its genetic map. A population of 272 triploid hybrids was generated using 'Giant Key' lime as pollinator. One hundred fifty-eight SNPs diagnostic of C. micrantha, regularly distributed throughout the citrus genome were successfully developed and applied. The genetic structure of the diploid gametes was examined based on C. micrantha doses along the genome. The diploid gametes transmitted in average 91.17% of the parental interspecific C. medica/C. micrantha heterozygosity. Three chromosomes (2, 8, and 9) showed disomic segregation with high preferential pairing values, while the remaining chromosomes showed an intermediate inheritance with a preferential disomic trend. A total of 131 SNPs were assigned to nine linkage groups to construct the genetic map. It spanned 272.8 cM with a low average recombination rate (0.99 cM Mb-1) and high synteny and colinearity with the reference clementine genome. Our results confirmed that an efficient reconstruction breeding strategy for 'Tahiti' lime is possible, based on interploid hybridization using a doubled diploid of C. aurantiifolia. The tetraploid parent should be selected for favorable agronomic traits and its genetic value should be efficiently inherited by the progeny thanks to transmission of the high level of parental heterozygosity. However, it would require developing numerous progeny to overcome the linkage drag caused by the limited interspecific recombination associated with the predominant disomic inheritance.
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Affiliation(s)
- Dalel Ahmed
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Univ Montpellier, San Giuliano, France
| | - Franck Curk
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Univ Montpellier, Montpellier, France
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Ehsani A, Parsimehr H. Electrochemical Energy Storage Electrodes via Citrus Fruits Derived Carbon: A Minireview. CHEM REC 2020; 20:820-830. [DOI: 10.1002/tcr.202000003] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Revised: 03/04/2020] [Accepted: 03/05/2020] [Indexed: 01/12/2023]
Affiliation(s)
- Ali Ehsani
- Department of ChemistryFaculty of ScienceUniversity of Qom Qom Iran
| | - Hamidreza Parsimehr
- Department of ChemistryFaculty of ScienceUniversity of Qom Qom Iran
- Color and Surface Coatings GroupPolymer Processing DepartmentIran Polymer and Petrochemical Institute (IPPI) Tehran Iran
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Garavello M, Cuenca J, Garcia-Lor A, Ortega N, Navarro L, Ollitrault P, Aleza P. Male and female inheritance patterns in tetraploid 'Moncada' mandarin. PLANT CELL REPORTS 2020; 39:335-349. [PMID: 31781856 PMCID: PMC7018676 DOI: 10.1007/s00299-019-02494-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2019] [Accepted: 11/20/2019] [Indexed: 05/11/2023]
Abstract
KEY MESSAGE Tetraploid `Moncada´ mandarin, used as male and female in interploidy hybridizations, displays mainly tetrasomic inheritance for most LGs, with slight variations according to the direction of the crossing. Triploid-breeding programs in citrus are key tool to develop seedless cultivars. Obtaining triploid citrus hybrids may be achieved through different strategies, such as the exploitation of female unreduced gamete in crosses between diploid parents and diploid by tetraploid sexual hybridizations, in which tetraploid genotypes can be used as male or female parents. Genetic configuration of triploid populations from interploid crosses greatly depends on the chromosomic segregation mode of the tetraploid parent used. Here, we have analyzed the inheritance of the tetraploid 'Moncada' mandarin and compared the genetic structures of the resulting gametes when used as male and as female parent. The preferential chromosome pairing rate is calculated from the parental heterozygosity restitution (PHR) of codominant molecular markers, indicating the proportion between disomic and tetrasomic segregation. Tetraploid 'Moncada' both as female and male parent largely exhibited tetrasomic segregation. However, as female parent, one linkage group (LG8) showed intermediate segregation with tendency towards tetrasomic inheritance, while another linkage group (LG4) evidenced a clear intermediate segregation. On the other hand, when used as male parent two linkage groups (LG5 and LG6) showed values that fit an intermediate inheritance model with tetrasomic tendency. Significant doubled reduction (DR) rates were observed in five linkage groups as female parent, and in six linkage groups as male parent. The new knowledge generated here will serve to define crossing strategies in citrus improvement programs to efficiently obtain new varieties of interest in the global fresh consumption market.
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Affiliation(s)
- Miguel Garavello
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain
- INTA, Concordia Agricultural Experiment Station, 3200, Concordia, CC 34, Entre Ríos, Argentina
| | - José Cuenca
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain
| | - Andrés Garcia-Lor
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain
| | - Neus Ortega
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain
| | - Luis Navarro
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain
| | - Patrick Ollitrault
- Unité Mixte de Recherche, Amélioration Génétique et Adaptation des Plantes (UMR Agap), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Corse, 20230, San Giuliano, France.
| | - Pablo Aleza
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias (IVIA), Carretera CV-315, km 10.7, Moncada, 46113, Valencia, Spain.
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Cottin A, Penaud B, Glaszmann JC, Yahiaoui N, Gautier M. Simulation-Based Evaluation of Three Methods for Local Ancestry Deconvolution of Non-model Crop Species Genomes. G3 (BETHESDA, MD.) 2020; 10:569-579. [PMID: 31862786 PMCID: PMC7003078 DOI: 10.1534/g3.119.400873] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Accepted: 12/12/2019] [Indexed: 11/30/2022]
Abstract
Hybridizations between species and subspecies represented major steps in the history of many crop species. Such events generally lead to genomes with mosaic patterns of chromosomal segments of various origins that may be assessed by local ancestry inference methods. However, these methods have mainly been developed in the context of human population genetics with implicit assumptions that may not always fit plant models. The purpose of this study was to evaluate the suitability of three state-of-the-art inference methods (SABER, ELAI and WINPOP) for local ancestry inference under scenarios that can be encountered in plant species. For this, we developed an R package to simulate genotyping data under such scenarios. The tested inference methods performed similarly well as far as representatives of source populations were available. As expected, the higher the level of differentiation between ancestral source populations and the lower the number of generations since admixture, the more accurate were the results. Interestingly, the accuracy of the methods was only marginally affected by i) the number of ancestries (up to six tested); ii) the sample design (i.e., unbalanced representation of source populations); and iii) the reproduction mode (e.g., selfing, vegetative propagation). If a source population was not represented in the data set, no bias was observed in inference accuracy for regions originating from represented sources and regions from the missing source were assigned differently depending on the methods. Overall, the selected ancestry inference methods may be used for crop plant analysis if all ancestral sources are known.
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Affiliation(s)
- Aurélien Cottin
- CIRAD, UMR AGAP, F-34398 Montpellier, France
- AGAP, Univ. Montpellier, CIRAD, INRAE, Montpellier SupAgro, Montpellier, France, and
| | - Benjamin Penaud
- CIRAD, UMR AGAP, F-34398 Montpellier, France
- AGAP, Univ. Montpellier, CIRAD, INRAE, Montpellier SupAgro, Montpellier, France, and
| | - Jean-Christophe Glaszmann
- CIRAD, UMR AGAP, F-34398 Montpellier, France
- AGAP, Univ. Montpellier, CIRAD, INRAE, Montpellier SupAgro, Montpellier, France, and
| | - Nabila Yahiaoui
- CIRAD, UMR AGAP, F-34398 Montpellier, France,
- AGAP, Univ. Montpellier, CIRAD, INRAE, Montpellier SupAgro, Montpellier, France, and
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Salonia F, Ciacciulli A, Poles L, Pappalardo HD, La Malfa S, Licciardello C. New Plant Breeding Techniques in Citrus for the Improvement of Important Agronomic Traits. A Review. FRONTIERS IN PLANT SCIENCE 2020; 11:1234. [PMID: 32922420 PMCID: PMC7456868 DOI: 10.3389/fpls.2020.01234] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2020] [Accepted: 07/28/2020] [Indexed: 05/18/2023]
Abstract
New plant breeding techniques (NPBTs) aim to overcome traditional breeding limits for fruit tree species, in order to obtain new varieties with improved organoleptic traits and resistance to biotic and abiotic stress, and to maintain fruit quality achieved over centuries by (clonal) selection. Knowledge on the gene(s) controlling a specific trait is essential for the use of NPBTs, such as genome editing and cisgenesis. In the framework of the international scientific community working on fruit tree species, including citrus, NPBTs have mainly been applied to address pathogen threats. Citrus could take advantage of NPBTs because of its complex species biology (seedlessness, apomixis, high heterozygosity, and long juvenility phase) and aptitude for in vitro manipulation. To our knowledge, genome editing in citrus via transgenesis has successful for induced resistance to Citrus bacterial canker in sweet orange and grapefruit using the resistance gene CsLOB1. In the future, NPBTs will also be used to improve fruit traits, making them healthier. The regeneration of plants following the application of NPBTs is a bottleneck, making it necessary to optimize the efficiency of current protocols. The strengths and weaknesses of using explants from young in vitro plantlets, and from mature plants, will be discussed. Other major issues addressed in this review are related to the requirement for marker-free systems and shortening the long juvenility phase. This review aims to summarize methods and approaches available in the literature that are suitable to citrus, focusing on the principles observed before the use of NPBTs.
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Affiliation(s)
- Fabrizio Salonia
- CREA - Research Centre for Olive, Fruit and Citrus Crops, Acireale, Italy
- Department of Agriculture, Food and Environment (Di3A), University of Catania, Catania, Italy
| | - Angelo Ciacciulli
- CREA - Research Centre for Olive, Fruit and Citrus Crops, Acireale, Italy
| | - Lara Poles
- CREA - Research Centre for Olive, Fruit and Citrus Crops, Acireale, Italy
- Department of Agriculture, Food and Environment (Di3A), University of Catania, Catania, Italy
| | | | - Stefano La Malfa
- Department of Agriculture, Food and Environment (Di3A), University of Catania, Catania, Italy
- *Correspondence: Stefano La Malfa, ; Concetta Licciardello,
| | - Concetta Licciardello
- CREA - Research Centre for Olive, Fruit and Citrus Crops, Acireale, Italy
- *Correspondence: Stefano La Malfa, ; Concetta Licciardello,
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Garavello M, Cuenca J, Dreissig S, Fuchs J, Navarro L, Houben A, Aleza P. Analysis of Crossover Events and Allele Segregation Distortion in Interspecific Citrus Hybrids by Single Pollen Genotyping. FRONTIERS IN PLANT SCIENCE 2020; 11:615. [PMID: 32523591 PMCID: PMC7261893 DOI: 10.3389/fpls.2020.00615] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Accepted: 04/21/2020] [Indexed: 05/17/2023]
Abstract
In citrus, a classical method of studying crossovers and segregation distortion (SD) is the genetic analysis of progenies. A new strategy combining fluorescence-activated cell sorting and whole genome amplification of haploid pollen nuclei with a large set of molecular markers, offers the opportunity to efficiently determine the frequency of crossovers and the identification of SD without the need to generate segregating populations. Here we have analyzed meiotic crossover events in a pollen nuclei population from "Eureka" lemon and the allelic SD was evaluated in a pollen nuclei population from a clementine × sweet orange hybrid ("CSO"). Data obtained from the "CSO" pollen nuclei population were compared to those obtained from genotyping of a segregating population ("RTSO") arising from a hand-made sexual hybridization between diploid non apomictic selected tangor (mandarin × sweet orange; "RTO" tangor) as female parent pollinated with "CSO" tangor as male parent. The analysis of crossovers rates on chromosome 1 revealed the presence of up to five crossovers events on one arm and four on the corresponding other arm, with an average of 1.97 crossovers per chromosome while no crossover events were observed in five "Eureka" lemon pollen nuclei. The rate of SD observed in "CSO" pollen nuclei (13.8%) was slightly lower than that recovered in the "RTSO" population (20.7%). In the pollen nuclei population, SD was found on linkage group (LG) 2, while the "RTSO" population showed SD on LGs 2 and 7. Potential male gametic selection mechanisms were distinguished in pollen grains, while in the population, mechanisms of gametophytic selection and/or zygotic selection were observed. This methodology is a very useful tool to facilitate research focused on the reproductive biology of citrus and study the mechanisms that affect crossovers and SD.
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Affiliation(s)
- Miguel Garavello
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias, Valencia, Spain
- Concordia Agricultural Experiment Station, National Agricultural Technology Institute, Entre Ríos, Argentina
| | - José Cuenca
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias, Valencia, Spain
| | - Steven Dreissig
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
- Institute of Agricultural and Nutritional Sciences, Faculty of Natural Sciences III, Martin Luther University Halle-Wittenberg, Halle (Saale), Germany
| | - Jörg Fuchs
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
| | - Luis Navarro
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias, Valencia, Spain
| | - Andreas Houben
- Department of Breeding Research, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland, Germany
| | - Pablo Aleza
- Centro de Citricultura y Producción Vegetal, Instituto Valenciano de Investigaciones Agrarias, Valencia, Spain
- *Correspondence: Pablo Aleza,
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The Ancient Neapolitan Sweet Lime and the Calabrian Lemoncetta Locrese Belong to the Same Citrus Species. Molecules 2019; 25:molecules25010113. [PMID: 31892208 PMCID: PMC6983237 DOI: 10.3390/molecules25010113] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Revised: 12/17/2019] [Accepted: 12/23/2019] [Indexed: 11/16/2022] Open
Abstract
"Neapolitan limmo" is an ancient and rare sweet Mediterranean lime, now almost extinct but used until a few decades ago for the production of a fragrant liqueur called the "four citrus fruits". The objective of this work was to compare, through the use of chemical (flavonoids, volatile organic compounds, and chiral compounds) and molecular (DNA fingerprint based on RAPD-PCR) markers, the residual population of Neapolitan limmo with other populations of sweet limes, identified in Calabria and known as "lemoncetta Locrese". We report for the first time specific botanical characteristics of the two fruits and unequivocally show that the ancient sweet Mediterranean limes Neapolitan limmo and lemoncetta Locrese are synonyms of the same Citrus species. Owing to the biodiversity conserved in their places of origin, it will now be possible to recover, enhance and implement the use of this ancient sweet lime for agro-industrial purposes.
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Luro F, Viglietti G, Marchi E, Costantino G, Scarpa GM, Tomi F, Paoli M, Curk F, Ollitrault P. Genetic, morphological and chemical investigations reveal the genetic origin of Pompia (C. medica tuberosa Risso & Poiteau) - An old endemic Sardinian citrus fruit. PHYTOCHEMISTRY 2019; 168:112083. [PMID: 31521382 DOI: 10.1016/j.phytochem.2019.112083] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Revised: 07/30/2019] [Accepted: 08/03/2019] [Indexed: 06/10/2023]
Abstract
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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Affiliation(s)
| | - Grazia Viglietti
- Dipartimento di Agraria Research Unit SACEG, University of Sassari, 07100, Sassari, Italy
| | | | | | - Grazia Maria Scarpa
- Dipartimento di Agraria Research Unit SACEG, University of Sassari, 07100, Sassari, Italy
| | - Felix Tomi
- Université de Corse - CNRS, Equipe Chimie et Biomasse, UMR SPE 6134, 20000 Ajaccio, France
| | - Mathieu Paoli
- Université de Corse - CNRS, Equipe Chimie et Biomasse, UMR SPE 6134, 20000 Ajaccio, France
| | - Franck Curk
- UMR AGAP INRA, Avenue Agropolis 34 398 Montpellier cedex 5, France
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Alexa VT, Galuscan A, Popescu I, Tirziu E, Obistioiu D, Floare AD, Perdiou A, Jumanca D. Synergistic/Antagonistic Potential of Natural Preparations Based on Essential Oils Against Streptococcus mutans from the Oral Cavity. Molecules 2019; 24:molecules24224043. [PMID: 31703466 PMCID: PMC6891698 DOI: 10.3390/molecules24224043] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Revised: 11/03/2019] [Accepted: 11/05/2019] [Indexed: 12/13/2022] Open
Abstract
The present paper addresses a thematic of interest in preventive dental medicine, namely the possibility of using essential oils (EOs) for the inhibition of the development of Streptococcus mutans (S. mutans) in the oral cavity, as a viable alternative to chemical products with protective role in oral health. For this purpose, four EOs (cinnamon, clove, bergamote, and orange) were chemically characterized by gas chromatography coupled with mass spectrometry (GC-MS) and in vitro tested against S. mutans (ATCC 25175). The results obtained revealed the antibacterial effect on S. mutans exercised by the essential oils of clove (CLEO), bergamote (BEO), and orange (OEO), which were included in the production of natural emulsion-type preparations with application in dental medicine. In order to highlight the synersistic/antagonistic effects generated by the chemical constituent of essential oils, binary and tertiary emulsions were prepared and used in saliva-enhanced medium against S.mutans. The saliva tests proved the synergistic effect exercised by the active components of EOs tested from tertiary emulsions, which cause an inhibition of the development of S. mutans in oral cavities.
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Affiliation(s)
- Vlad Tiberiu Alexa
- Faculty of Dental Medicine, “Victor Babeş” University of Medicine and Pharmacy, Eftimie Murgu Sq. No. 2, 300041 Timişoara, Romania; (V.T.A.); (A.D.F.); (A.P.); (D.J.)
| | - Atena Galuscan
- Faculty of Dental Medicine, “Victor Babeş” University of Medicine and Pharmacy, Eftimie Murgu Sq. No. 2, 300041 Timişoara, Romania; (V.T.A.); (A.D.F.); (A.P.); (D.J.)
- Correspondence: ; Tel.: +40-748677191
| | - Iuliana Popescu
- Faculty of Agriculture, Banat’s University of Agricultural Sciences and Veterinary Medicine “King Michael I of Romania” from Timişoara, Calea Aradului No. 119, 300641 Timişoara, Romania;
| | - Emil Tirziu
- Faculty of Veterinary Medicine, Banat’s University of Agricultural Sciences and Veterinary Medicine “King Michael I of Romania” from Timişoara, Calea Aradului No. 119, 300641 Timişoara, Romania; (E.T.); (D.O.)
| | - Diana Obistioiu
- Faculty of Veterinary Medicine, Banat’s University of Agricultural Sciences and Veterinary Medicine “King Michael I of Romania” from Timişoara, Calea Aradului No. 119, 300641 Timişoara, Romania; (E.T.); (D.O.)
| | - Alin Daniel Floare
- Faculty of Dental Medicine, “Victor Babeş” University of Medicine and Pharmacy, Eftimie Murgu Sq. No. 2, 300041 Timişoara, Romania; (V.T.A.); (A.D.F.); (A.P.); (D.J.)
| | - Antonis Perdiou
- Faculty of Dental Medicine, “Victor Babeş” University of Medicine and Pharmacy, Eftimie Murgu Sq. No. 2, 300041 Timişoara, Romania; (V.T.A.); (A.D.F.); (A.P.); (D.J.)
| | - Daniela Jumanca
- Faculty of Dental Medicine, “Victor Babeş” University of Medicine and Pharmacy, Eftimie Murgu Sq. No. 2, 300041 Timişoara, Romania; (V.T.A.); (A.D.F.); (A.P.); (D.J.)
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do Amaral M, Barbosa de Paula MF, Ollitrault F, Rivallan R, de Andrade Silva EM, da Silva Gesteira A, Luro F, Garcia D, Ollitrault P, Micheli F. Phylogenetic Origin of Primary and Secondary Metabolic Pathway Genes Revealed by C. maxima and C. reticulata Diagnostic SNPs. FRONTIERS IN PLANT SCIENCE 2019; 10:1128. [PMID: 31608086 PMCID: PMC6771394 DOI: 10.3389/fpls.2019.01128] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/29/2019] [Accepted: 08/15/2019] [Indexed: 06/10/2023]
Abstract
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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Affiliation(s)
- Milena do Amaral
- Centro de Biotecnologia e Genética (CBG), Departamento de Ciências Biológicas (DCB), Universidade Estadual de Santa Cruz (UESC), Ilhéus, Brazil
| | - Marcia Fabiana Barbosa de Paula
- Centro de Biotecnologia e Genética (CBG), Departamento de Ciências Biológicas (DCB), Universidade Estadual de Santa Cruz (UESC), Ilhéus, Brazil
| | | | | | - Edson Mario de Andrade Silva
- Centro de Biotecnologia e Genética (CBG), Departamento de Ciências Biológicas (DCB), Universidade Estadual de Santa Cruz (UESC), Ilhéus, Brazil
| | | | | | | | | | - Fabienne Micheli
- Centro de Biotecnologia e Genética (CBG), Departamento de Ciências Biológicas (DCB), Universidade Estadual de Santa Cruz (UESC), Ilhéus, Brazil
- CIRAD, UMR AGAP, Montpellier, France
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Gomes Ferreira MD, Araújo Castro J, Santana Silva RJ, Micheli F. HVA22 from citrus: A small gene family whose some members are involved in plant response to abiotic stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 142:395-404. [PMID: 31408843 DOI: 10.1016/j.plaphy.2019.08.003] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 08/04/2019] [Accepted: 08/06/2019] [Indexed: 05/27/2023]
Abstract
The HVA22 gene has been isolated for the first time from the aleurone layer of barley (Hordeum vulgare). Here, we characterized the HVA22 family from citrus (C. clementina and C. sinensis). Twelve genes, 6 in each species, were identified as well as duplication events for some of them. The ORF size ranged from 235 to 804 bp and the protein molecular weight from 94 to 267 kDa. All the citrus HVA22 protein presented transmembrane location and conserved TB2/DP1/HVA22 region. Phylogenetic and gene expression analyses suggested that some citrus HVA22 play a role in flower and fruit development, and that gene expression may be regulated by hormone or environmental conditions. Other regulation levels were also predicted, such as alternative splicing and post-translational modifications. The overall data indicated that citrus HVA22 may be involved in vesicular traffic in stressed cells, and that CcHVA22d could be involved in dehydration tolerance.
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Affiliation(s)
| | - Jacqueline Araújo Castro
- Universidade Estadual de Santa Cruz (UESC), Centro de Biotecnologia e Genética (CBG), Ilhéus, Bahia, Brazil; Instituto Federal de Educação, Ciência e Tecnologia Baiano (IFBaiano), Governador Mangabeira, Bahia, Brazil
| | - Raner José Santana Silva
- Universidade Estadual de Santa Cruz (UESC), Centro de Biotecnologia e Genética (CBG), Ilhéus, Bahia, Brazil
| | - Fabienne Micheli
- Universidade Estadual de Santa Cruz (UESC), Centro de Biotecnologia e Genética (CBG), Ilhéus, Bahia, Brazil; CIRAD, UMR AGAP, F-34398, Montpellier, France.
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Yuan J, Wang J, Yu J, Meng F, Zhao Y, Li J, Sun P, Sun S, Zhang Z, Liu C, Wei C, Guo H, Li X, Duan X, Shen S, Xie Y, Hou Y, Zhang J, Shehzad T, Wang X. Alignment of Rutaceae Genomes Reveals Lower Genome Fractionation Level Than Eudicot Genomes Affected by Extra Polyploidization. FRONTIERS IN PLANT SCIENCE 2019; 10:986. [PMID: 31447866 PMCID: PMC6691040 DOI: 10.3389/fpls.2019.00986] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/04/2019] [Accepted: 07/12/2019] [Indexed: 06/10/2023]
Abstract
Owing to their nutritional and commercial values, the genomes of several citrus plants have been sequenced, and the genome of one close relative in the Rutaceae family, atalantia (Atalantia buxifolia), has also been sequenced. Here, we show a family-level comparative analysis of Rutaceae genomes. By using grape as the outgroup and checking cross-genome gene collinearity, we systematically performed a hierarchical and event-related alignment of Rutaceae genomes, and produced a gene list defining homologous regions based on ancestral polyploidization or speciation. We characterized genome fractionation resulting from gene loss or relocation, and found that erosion of gene collinearity could largely be described by a geometric distribution. Moreover, we found that well-assembled Rutaceae genomes retained significantly more genes (65-82%) than other eudicots affected by recursive polyploidization. Additionally, we showed divergent evolutionary rates among Rutaceae plants, with sweet orange evolving faster than others, and by performing evolutionary rate correction, re-dated major evolutionary events during their evolution. We deduced that the divergence between the Rutaceae family and grape occurred about 81.15-91.74 million years ago (mya), while the split between citrus and atalantia plants occurred <10 mya. In addition, we showed that polyploidization led to a copy number expansion of key gene families contributing to the biosynthesis of vitamin C. Overall, the present effort provides an important comparative genomics resource and lays a foundation to understand the evolution and functional innovation of Rutaceae genomes.
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Affiliation(s)
- Jiaqing Yuan
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Jinpeng Wang
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Jigao Yu
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Fanbo Meng
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Yuhao Zhao
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Jing Li
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Pengchuan Sun
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Sangrong Sun
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Zhikang Zhang
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Chao Liu
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Chendan Wei
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - He Guo
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Xinyu Li
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
| | - Xueqian Duan
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
| | - Shaoqi Shen
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
| | - Yangqin Xie
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
| | - Yue Hou
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
| | - Jin Zhang
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
| | - Tariq Shehzad
- Plant Genome Mapping Laboratory, University of Georgia, Athens, GA, United States
| | - Xiyin Wang
- School of Life Sciences, North China University of Science and Technology, Tangshan, China
- Center for Genomics and Computational Biology, North China University of Science and Technology, Tangshan, China
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Ahmed D, Comte A, Curk F, Costantino G, Luro F, Dereeper A, Mournet P, Froelicher Y, Ollitrault P. Genotyping by sequencing can reveal the complex mosaic genomes in gene pools resulting from reticulate evolution: a case study in diploid and polyploid citrus. ANNALS OF BOTANY 2019; 123:1231-1251. [PMID: 30924905 PMCID: PMC6612944 DOI: 10.1093/aob/mcz029] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2018] [Revised: 01/17/2019] [Accepted: 02/18/2019] [Indexed: 05/21/2023]
Abstract
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. medica, C. micrantha and C. reticulata. METHODS A genotyping by sequencing library was established with the restriction enzyme ApeKI 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 genomic fragments. It can also be used for the first generations of interspecific breeding schemes.
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Affiliation(s)
- Dalel Ahmed
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, San Giuliano, France
| | - Aurore Comte
- IRD, CIRAD, Université de Montpellier, IPME, Montpellier, France
- South Green Bioinformatics Platform, Bioversity, CIRAD, INRA, IRD, Montpellier, France
| | - Franck Curk
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, Montpellier, France
| | - Gilles Costantino
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, San Giuliano, France
| | - François Luro
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, San Giuliano, France
| | - Alexis Dereeper
- IRD, CIRAD, Université de Montpellier, IPME, Montpellier, France
- South Green Bioinformatics Platform, Bioversity, CIRAD, INRA, IRD, Montpellier, France
| | - Pierre Mournet
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, Montpellier, France
- CIRAD, UMR AGAP, Montpellier, France
| | - Yann Froelicher
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, Montpellier, France
- CIRAD, UMR AGAP, San Giuliano, France
| | - Patrick Ollitrault
- UMR AGAP, INRA, CIRAD, Montpellier SupAgro, Université de Montpellier, Montpellier, France
- CIRAD, UMR AGAP, San Giuliano, France
- For correspondence. E-mail
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De Ollas C, Morillón R, Fotopoulos V, Puértolas J, Ollitrault P, Gómez-Cadenas A, Arbona V. Facing Climate Change: Biotechnology of Iconic Mediterranean Woody Crops. FRONTIERS IN PLANT SCIENCE 2019; 10:427. [PMID: 31057569 PMCID: PMC6477659 DOI: 10.3389/fpls.2019.00427] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2018] [Accepted: 03/21/2019] [Indexed: 05/03/2023]
Abstract
The Mediterranean basin is especially sensitive to the adverse outcomes of climate change and especially to variations in rainfall patterns and the incidence of extremely high temperatures. These two concurring adverse environmental conditions will surely have a detrimental effect on crop performance and productivity that will be particularly severe on woody crops such as citrus, olive and grapevine that define the backbone of traditional Mediterranean agriculture. These woody species have been traditionally selected for traits such as improved fruit yield and quality or alteration in harvesting periods, leaving out traits related to plant field performance. This is currently a crucial aspect due to the progressive and imminent effects of global climate change. Although complete genome sequence exists for sweet orange (Citrus sinensis) and clementine (Citrus clementina), olive tree (Olea europaea) and grapevine (Vitis vinifera), the development of biotechnological tools to improve stress tolerance still relies on the study of the available genetic resources including interspecific hybrids, naturally occurring (or induced) polyploids and wild relatives under field conditions. To this respect, post-genomic era studies including transcriptomics, metabolomics and proteomics provide a wide and unbiased view of plant physiology and biochemistry under adverse environmental conditions that, along with high-throughput phenotyping, could contribute to the characterization of plant genotypes exhibiting physiological and/or genetic traits that are correlated to abiotic stress tolerance. The ultimate goal of precision agriculture is to improve crop productivity, in terms of yield and quality, making a sustainable use of land and water resources under adverse environmental conditions using all available biotechnological tools and high-throughput phenotyping. This review focuses on the current state-of-the-art of biotechnological tools such as high throughput -omics and phenotyping on grapevine, citrus and olive and their contribution to plant breeding programs.
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Affiliation(s)
- Carlos De Ollas
- Departament de Ciències Agràries i del Medi Natural, Universitat Jaume I, Castellón de la Plana, Spain
| | - Raphaël Morillón
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), Petit-Bourg, France
| | - Vasileios Fotopoulos
- Department of Agricultural Sciences, Biotechnology and Food Science, Cyprus University of Technology, Limassol, Cyprus
| | - Jaime Puértolas
- Lancaster Environment Centre, Lancaster University, Lancaster, United Kingdom
| | - Patrick Ollitrault
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD), San-Giuliano, France
| | - Aurelio Gómez-Cadenas
- Departament de Ciències Agràries i del Medi Natural, Universitat Jaume I, Castellón de la Plana, Spain
| | - Vicent Arbona
- Departament de Ciències Agràries i del Medi Natural, Universitat Jaume I, Castellón de la Plana, Spain
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50
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Viglietti G, Galla G, Porceddu A, Barcaccia G, Curk F, Luro F, Scarpa GM. Karyological Analysis and DNA Barcoding of Pompia Citron: A First Step toward the Identification of Its Relatives. PLANTS 2019; 8:plants8040083. [PMID: 30935148 PMCID: PMC6524030 DOI: 10.3390/plants8040083] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Revised: 03/24/2019] [Accepted: 03/28/2019] [Indexed: 12/04/2022]
Abstract
Pompia is a citrus fruit endemic of Sardinia, Italy, with an essential oil profile showing outstanding anti-inflammatory and anti-microbic properties. Despite its remarkable pharmaceutical potential, little taxonomic and genetic information is available for this species. We applied flow cytometry and classical cytogenetic techniques to assess the DNA content and to reconstruct the karyotype of several Pompia accessions. Molecular data from plastid DNA barcoding and nuclear DNA sequencing were used to study the genetic distance between Pompia and other citrus species. Flow cytometric estimates of DNA content and somatic chromosome counts suggest that Pompia is a regular diploid Citrus species. DNA polymorphisms of nuclear and chloroplast markers allowed us to investigate the genetic relationships between Pompia accessions and other Citrus species. Based on DNA polymorphism data we propose that Pompia is a very recent interspecific hybrid generated by a cross between C. aurantium (as seed bearer) and C. medica (as pollen donor). Our findings pave the way for further and more specific investigations of local Pompia germplasm resources that may help the preservation and valorisation of this valuable citrus fruit tree.
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Affiliation(s)
- Grazia Viglietti
- Dipartimento di AGRARIA Research Unit SACEG, University of Sassari, 07100 Sassari, Italy.
| | - Giulio Galla
- Laboratory of Genomics, Department of Agronomy Food Natural Resources Animals and Environment, University of Padova, 35020 Legnaro, Padova, Italy.
| | - Andrea Porceddu
- Dipartimento di AGRARIA Research Unit SACEG, University of Sassari, 07100 Sassari, Italy.
| | - Gianni Barcaccia
- Laboratory of Genomics, Department of Agronomy Food Natural Resources Animals and Environment, University of Padova, 35020 Legnaro, Padova, Italy.
| | - Frank Curk
- Unite Mixte de Recherche Amelioration Genetique et Adaptation des Plantes (UMR Agap), Institut National de la Recherche Agronomique (INRA), F-20230 San Giuliano, France.
| | - Francois Luro
- Unite Mixte de Recherche Amelioration Genetique et Adaptation des Plantes (UMR Agap), Institut National de la Recherche Agronomique (INRA), F-20230 San Giuliano, France.
| | - Grazia Maria Scarpa
- Dipartimento di AGRARIA Research Unit SACEG, University of Sassari, 07100 Sassari, Italy.
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