Effects of Drugs of Plant Origin on the Development of the Immune Response

Borsuk, O. S.; Masnaya, N. V.; Sherstoboev, E. Yu.; Isaykina, N. V.; Калинкина, Г. И.; Reihart, D. V.

doi:10.1007/s10517-011-1287-y

Cited by 13 publications

(10 citation statements)

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“…Future accurate analysis of the interspecific mosaic structure of secondary species and intra- and interspecific polymorphism analysis should be based on a non-biased pangenomic set of markers. The availability of a reference citrus genome sequence [29,30] and the new sequencing methodologies will soon allow these objectives to be re-visited by the resequencing of several accessions of the basic taxa and secondary species.…”

Section: Discussionmentioning

confidence: 99%

“…Breeding systems and domestication history are determinant factors of the LD structure in the germplasm of cultivated plants [37,38]. The extent of LD is generally greater for species that possess a selfing mating system [39-41] than for outcrossing ones [42-44]. The heterozygous deficit and generalized linkage disequilibrium observed in the Citrus genus indicates a strong population subdivision and thus a low gene flow between C. medica, C. reticulata, C. maxima and wild Citrus .…”

Section: Discussionmentioning

confidence: 99%

“…The recent genetic maps based on codominant markers (primarily SSRs) [55-57] integrated around 150 markers, while maps based on dominant markers such as AFLPs [58], SRAPs, ISSRs, and RAPDs [59] included a little more than 200 markers. The markers mined in Clementine BES will be very useful for genetic mapping and association genetics in C. reticulata (554 polymorphic loci).…”

Section: Discussionmentioning

confidence: 99%

“…The 547 markers heterozygous in Clementine are currently mapped in the framework of the International Citrus Genome Consortium (ICGC; [60]) and will contribute to the assembly of the reference citrus whole genome sequence. Interestingly, at least 346 of these markers should also be mapped on sweet orange in order to anchor the sweet orange genetic map developed by an US consortium [57] and the Clementine map to establish a saturated consensus citrus genetic map.…”

Section: Discussionmentioning

confidence: 99%

“…Clementine is such a hybrid, vegetatively propagated by grafting from the time it was selected as a chance offspring in a seedling of 'Mediterranean' mandarin ( C. reticulata ) one century ago. A haploid Clementine line has been chosen by the International Citrus Genomic Consortium (ICGC) to establish the reference Citrus whole genome sequence [29,30]. In the framework of the same international project, the diploid Clementine cv 'Nules' has been re-sequenced using new sequencing technologies (454, Roche).…”

Section: Introductionmentioning

confidence: 99%

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SNP mining in C. clementina BAC end sequences; transferability in the Citrus genus (Rutaceae), phylogenetic inferences and perspectives for genetic mapping

et al. 2012

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BackgroundWith the increasing availability of EST databases and whole genome sequences, SNPs have become the most abundant and powerful polymorphic markers. However, SNP chip data generally suffers from ascertainment biases caused by the SNP discovery and selection process in which a small number of individuals are used as discovery panels. The ongoing International Citrus Genome Consortium sequencing project of the highly heterozygous Clementine and sweet orange genomes will soon result in the release of several hundred thousand SNPs. The primary goals of this study were: (i) to estimate the transferability within the genus Citrus of SNPs discovered from Clementine BACend sequencing (BES), (ii) to estimate bias associated with the very narrow discovery panel, and (iii) to evaluate the usefulness of the Clementine-derived SNP markers for diversity analysis and comparative mapping studies between the different cultivated Citrus species.ResultsFifty-four accessions covering the main Citrus species and 52 interspecific hybrids between pummelo and Clementine were genotyped on a GoldenGate array platform using 1,457 SNPs mined from Clementine BES and 37 SNPs identified between and within C. maxima, C. medica, C. reticulata and C. micrantha. Consistent results were obtained from 622 SNP loci. Of these markers, 116 displayed incomplete transferability primarily in C. medica, C. maxima and wild Citrus species. The two primary biases associated with the SNP mining in Clementine were an overestimation of the C. reticulata diversity and an underestimation of the interspecific differentiation. However, the genetic stratification of the gene pool was high, with very frequent significant linkage disequilibrium. Furthermore, the shared intraspecific polymorphism and accession heterozygosity were generally enough to perform interspecific comparative genetic mapping.ConclusionsA set of 622 SNP markers providing consistent results was selected. Of the markers mined from Clementine, 80.5% were successfully transferred to the whole Citrus gene pool. Despite the ascertainment biases in relation to the Clementine origin, the SNP data confirm the important stratification of the gene pools around C. maxima, C. medica and C. reticulata as well as previous hypothesis on the origin of secondary species. The implemented SNP marker set will be very useful for comparative genetic mapping in Citrus and genetic association in C. reticulata.

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Section: Discussionmentioning

confidence: 99%