ArticleAnnals of botany2013
A nuclear phylogenetic analysis: SNPs, indels and SSRs deliver new insights into the relationships in the 'true citrus fruit trees' group (Citrinae, Rutaceae) and the origin of cultivated species.
Article in Annals of botany, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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51 citing papers in PubMed.
- Article
- Preliminary study on comparative non-targeted metabolomics analysis sheds light on the chemical diversity of citrus fruit pulps.PloS one · 2026Article
- Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives.Plants (Basel, Switzerland) · 2024Article
- Pangenome analysis provides insight into the evolution of the orange subfamily and a key gene for citric acid accumulation in citrus fruits.Nature genetics · 2023Article
- Comprehensive genome-wide identification and transferability of chromosome-specific highly variable microsatellite markers from citrus species.Scientific reports · 2023Article
- Reuse of Food Waste: The Chemical Composition and Health Properties of Pomelo (Molecules (Basel, Switzerland) · 2022Article
- Potential application of simple easy-to-use insertion-deletion (InDel) markers in citrus cultivar identification.Breeding science · 2021Article
- Chemical Variability of Peel and Leaf Essential Oils in thePlants (Basel, Switzerland) · 2021Article
- Genomic insights into citrus domestication and its important agronomic traits.Plant communications · 2021Review
- Strategies to Produce Grapefruit-Like Citrus Varieties With a Low Furanocoumarin Content and Distinctive Flavonoid Profiles.Frontiers in plant science · 2021Article
- Male and female inheritance patterns in tetraploid 'Moncada' mandarin.Plant cell reports · 2020Article
- Resistance to 'Frontiers in plant science · 2020Article
- Analysis of Crossover Events and Allele Segregation Distortion in Interspecific Citrus Hybrids by Single Pollen Genotyping.Frontiers in plant science · 2020Article
- Genome sequencing and CRISPR/Cas9 gene editing of an early flowering Mini-Citrus (Fortunella hindsii).Plant biotechnology journal · 2019Article
- 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 · 2019Article
- Facing Climate Change: Biotechnology of Iconic Mediterranean Woody Crops.Frontiers in plant science · 2019Review
- Assessing Ploidy Level Analysis and Single Pollen Genotyping of Diploid and Euploid Citrus Genotypes by Fluorescence-Activated Cell Sorting and Whole-Genome Amplification.Frontiers in plant science · 2019Article
- Phylogenetic Origin of Primary and Secondary Metabolic Pathway Genes Revealed byFrontiers in plant science · 2019Article
- Origin of C. latifolia and C. aurantiifolia triploid limes: the preferential disomic inheritance of doubled-diploid 'Mexican' lime is consistent with an interploid hybridization hypothesis.Annals of botany · 2018Article
- Molecular Characterization and Stress Tolerance Evaluation of New Allotetraploid Somatic Hybrids Between Carrizo Citrange andFrontiers in plant science · 2018Article
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8 authors.
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Abstract
BACKGROUND AND
aimsDespite differences in morphology, the genera representing 'true citrus fruit trees' are sexually compatible, and their phylogenetic relationships remain unclear. Most of the important commercial 'species' of Citrus are believed to be of interspecific origin. By studying polymorphisms of 27 nuclear genes, the average molecular differentiation between species was estimated and some phylogenetic relationships between 'true citrus fruit trees' were clarified.
methodsSanger sequencing of PCR-amplified fragments from 18 genes involved in metabolite biosynthesis pathways and nine putative genes for salt tolerance was performed for 45 genotypes of Citrus and relatives of Citrus to mine single nucleotide polymorphisms (SNPs) and indel polymorphisms. Fifty nuclear simple sequence repeats (SSRs) were also analysed. KEY
resultsA total of 16 238 kb of DNA was sequenced for each genotype, and 1097 single nucleotide polymorphisms (SNPs) and 50 indels were identified. These polymorphisms were more valuable than SSRs for inter-taxon differentiation. Nuclear phylogenetic analysis revealed that Citrus reticulata and Fortunella form a cluster that is differentiated from the clade that includes three other basic taxa of cultivated citrus (C. maxima, C. medica and C. micrantha). These results confirm the taxonomic subdivision between the subgenera Metacitrus and Archicitrus. A few genes displayed positive selection patterns within or between species, but most of them displayed neutral patterns. The phylogenetic inheritance patterns of the analysed genes were inferred for commercial Citrus spp.
conclusionsNumerous molecular polymorphisms (SNPs and indels), which are potentially useful for the analysis of interspecific genetic structures, have been identified. The nuclear phylogenetic network for Citrus and its sexually compatible relatives was consistent with the geographical origins of these genera. The positive selection observed for a few genes will help further works to analyse the molecular basis of the variability of the associated traits. This study presents new insights into the origin of C. sinensis.
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