Development and applications of a set of chromosome-specific cytogenetic DNA markers in potato

Dong, Feifei; Song, Junqi; Næss, Sigrid; Helgeson, John P.; Gebhardt, Christiane; Jiang, Jiming

doi:10.1007/s001220051573

Cited by 188 publications

(126 citation statements)

References 26 publications

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“…FISH cocktails composed solely of singletarget probes (e.g., BACs and rDNAs) were used to karyotype other plant species, such as sorghum, (Kim et al 2005) or potato (Dong et al 2000). However, this approach did not provide sufficient labeling complexity for soybean because the large number of small chromosome arms severely constrain the space for differential probe hybridization.…”

Section: Discussionmentioning

confidence: 99%

A Fluorescence in Situ Hybridization System for Karyotyping Soybean

et al. 2010

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The development of a universal soybean (Glycine max [L.] Merr.) cytogenetic map that associates classical genetic linkage groups, molecular linkage groups, and a sequence-based physical map with the karyotype has been impeded due to the soybean chromosomes themselves, which are small and morphologically homogeneous. To overcome this obstacle, we screened soybean repetitive DNA to develop a cocktail of fluorescent in situ hybridization (FISH) probes that could differentially label mitotic chromosomes in root tip preparations. We used genetically anchored BAC clones both to identify individual chromosomes in metaphase spreads and to complete a FISH-based karyotyping

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Section: Discussionmentioning

confidence: 99%

A Fluorescence in Situ Hybridization System for Karyotyping Soybean

et al. 2010

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“…Anther preparation and the FISH procedure were carried out according to published protocols 75,76 using five types of probes: (i) BAC probes specific for subtelomeric regions on the short (1S, 2S, 4S, 5S, 6S, 8S, 9S) and long (1L, 2L, 4L, 5L, 6L, 8L, 9L) arms of each chromosome, (ii) carrot chromosome-specific BAC probes 23 , (iii) telomeric probe (Telo), (iv) a probe corresponding to the CL80 repetitive sequence, and (v) plasmid K11 containing the putative carrot centromere repeat (Cent-Dc) 23 (Supplementary Table 56).…”

Section: Methodsmentioning

confidence: 99%

A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution

et al. 2016

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5 7Carrot (Daucus carota subsp. carota L.; 2n = 2x = 18) is a globally important root crop whose production has quadrupled between 1976 and 2013 (FAO Statistics; see URLs), outpacing the overall rate of increase in vegetable production and world population growth (FAO Statistics; see URLs) through development of high-value products for fresh consumption, juices, and natural pigments and cultivars adapted to warmer production regions 1 .The first documented colors for domesticated carrot root were yellow and purple in Central Asia approximately 1,100 years ago 2,3 , with orange carrots not reliably reported until the sixteenth century in Europe 4,5 . The popularity of orange carrots is fortuitous for modern consumers because the orange pigmentation results from high quantities of alpha-and beta-carotene, making carrots the richest source of provitamin A in the US diet 6 . Carrot breeding has substantially increased nutritional value, with a 50% average increase in carotene content in the United States as compared to 40 years ago 6 . Lycopene and lutein in red and yellow carrots, respectively, are also nutritionally important carotenoids, making carrot a model system to study storage root development and carotenoid accumulation.Carrot is the most important crop in the Apiaceae family, which includes numerous other vegetables, herbs, spices, and medicinal plants that enhance the epicurean experience 7 , including celery, parsnip, arracacha, parsley, fennel, coriander, and cumin. The Apiaceae family belongs to the euasterid II clade, which includes important crops such as lettuce and sunflower 8 . Genome sequences of euasterid I species have been reported, but only two genomes 9,10 have been published among the other euasterid II species.Here we report a high-quality genome assembly of a doubledhaploid orange carrot, characterization of the mechanism controlling carotenoid accumulation in storage roots, and the resequencing of 35 accessions spanning the genetic diversity of the Daucus genus. Our comprehensive genomic analyses provide insights into the evolution of the asterids and several gene families. These results will facilitate biological discovery and crop improvement in carrot and other crops.A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution We report a high-quality chromosome-scale assembly and analysis of the carrot (Daucus carota) genome, the first sequenced genome to include a comparative evolutionary analysis among members of the euasterid II clade. We characterized two new polyploidization events, both occurring after the divergence of carrot from members of the Asterales order, clarifying the evolutionary scenario before and after radiation of the two main asterid clades. Large- and small-scale lineage-specific duplications have contributed to the expansion of gene families, including those with roles in flowering time, defense response, flavor, and pigment accumulation. We identified a candidate gene, DCAR_032551, that conditions caro...

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“…3 Potato linkage group XI of the PLRV resistant parent DW 91-1187, including the position of the PLRV.4 locus for resistance to PLRV. The orientation of the linkage group is according to the alignment between cytogenetic and molecular maps (Dong et al 2000), where the short chromosome arm is the "North" arm Conversion of the marker UBC864 600 into the more reliable pseudo-SCAR marker UBC864R 600 facilitated the molecular mapping of the PLRV.4 locus to a central position on potato chromosome XI. This position is clearly different from the PLRV.1 locus, which maps to a distal resistance hot spot on the long arm of chromosome XI tagged by marker GP250 .…”

Section: Discussionmentioning

confidence: 99%

Two allelic or tightly linked genetic factors at the PLRV.4 locus on potato chromosome XI control resistance to potato leafroll virus accumulation

et al. 2004

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A novel locus for potato resistance to potato leafroll virus (PLRV) was characterized by inheritance studies and molecular mapping. The diploid parental clone DW 91-1187 was resistant to PLRV accumulation in both inoculated plants and their tuber progeny. The resistance to PLRV accumulation present in DW 91-1187 was not transmitted to any F 1 offspring when crossed with a PLRV susceptible clone. Instead, one half of the F 1 individuals exhibited undetectable amounts of PLRV as determined by ELISA during the primary infection assay, but accumulated PLRV in their tuber progeny plants. The other half was clearly infected both in the inoculated and tuber-born plants. The inheritance of resistance to PLRV accumulation may be explained by a model of two complementary alleles of a single gene (PLRV.4) or by two complementary genes that are closely linked in repulsion phase. Random amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR) markers linked to the PLRV.4 locus were selected. The two complementary factors were closely linked in coupling phase to the alternative alleles UBC864 600 and UBC864 800 of DNA marker UBC864. These markers may be used for marker-assisted selection of genotypes having both factors for resistance to PLRV accumulation. The PLRV.4 locus was mapped to a central position on linkage group XI of the potato molecular map, where no resistance locus has been mapped previously.

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Development and applications of a set of chromosome-specific cytogenetic DNA markers in potato

Cited by 188 publications

References 26 publications

A Fluorescence in Situ Hybridization System for Karyotyping Soybean

A Fluorescence in Situ Hybridization System for Karyotyping Soybean

A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution

Two allelic or tightly linked genetic factors at the PLRV.4 locus on potato chromosome XI control resistance to potato leafroll virus accumulation

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