70 Results
for author "Yue-wen Wang"
1 of 3Figure 1.—FISH with BACs located in euchromatin and heterochromatin. The distance of the FISH signals in a relative scale from centromere to telomere were correlated to the genetic mapping positions on the highly saturated tomato F2.2000 map (Fulton et al. 2002; www.sgn.cornell.edu). BAC19 and 62O11 were mapped with high mapping confidence of LOD >3, and other BACs were mapped with LOD <2 as interval markers. Chromosomes were counterstained with 4′,6-diamidino-2-phenylindole (DAPI) and BAC DNA was labeled with digoxigenin-16-dUTP.- TABLE 1Eleven sequenced tomato BACs that were mapped to the tomato genome with FISH
1 of 2Figure 2.—(A) Structure of a regular Ty3/Gypsy retroelement and Jinliing elements found in tomato BAC 40B13 and 2O7. (B) The structural annotation of 11 tomato BACs, indicating the putative genes and transposable elements. The number in the putative gene indicates the supporting evidence: 1, significant match to Solanaceae EST; 2, significant match to Arabidopsis gene; 3, both Solanaceae EST match and Arabidopsis match; 4, computational prediction only with no significant matches found in Solanaceae ESTs, Arabidopsis, or GenBank. The three random BACs (181K1, 181C9, and 181O9) from tomato heterochromatic regions all fell into category 1—containing no genes other than those related to transposons. The other three BACs derived from heterochromatin were assigned into categories 1 and 2 (containing both transposons and nontransposon genes). BACs from euchromatin, except 240K4, fell into category 3, containing only nontransposon genes.
Figure 3.—FISH with repetitive elements (LTR, RT, and IN from the Jinling element in 40B13; the GAG domain from the Jinling element in BAC 2O7; and TGRII).
Figure 4.—A phylogenetic tree illustrating the evolutionary relationships among Jinling elements based on the LTRs at the opposite ends. The alignment of all Jinling LTRs is in supplemental file 1 at http://www.genetics.org/supplemental/.
Figure 5.—Autoradiograms derived from HindIII-digested genomic DNA of S. pimpinellifolium (LA1589), S. chmielewskii (LA1316), S. peruvianum (LA1708), S. chilense (LA1959), S. pennellii (TA56), S. neorickii (LA2133), S. Habrochaites (LA1777), S . lycopersicum (TA209), S. tuberosum (potato), Capsicum annuum (garden pepper), Petunia × hybrida hort. ex E. Vilm., and Solanum melongena (eggplant), probed with Jinling LTR (A) and 45S rDNA (R45S) (B). Lanes of TA209 and LA2133 were adjusted to display a similar amount of DNA as the other Solanum species for better comparison. (A) Potato showed weak hybridization signals, which is due to the strong background caused by overloading of potato DNA. To further test the availability of LTR sequences in potato, genomic DNAs of potato, TA209, and TA56 were digested with EcoRI, EcoRV, DraI, and HaeIII and hybridized with LTR (C) and R45S (D).
Figure 6.—Autoradiograms derived from S . lycopersicum (TA209) and S. Pennellii (TA56) digested with MspI (C*CGG), HpaII (C*C*GG), EcoRII (CC*(A/T)GG), and BstNI (CC(A/T)GG). Southern hybridizations were performed using unmethylated chloroplast genes (AY216521, AF397080, and AF263101) (A) and Jinling in 40B13 (B) as probes. The enzyme digestion will be blocked if the cytosines with asterisks are methylated.- TABLE 1Crosses used to determine the correction factors for reproductive performance in interspecific and intersubspecific crosses