Generating Genomic Tools for Blueberry Improvement

Figures & data

TABLE 1 Transcriptome Sequencing of Blueberry—Overall Results (The Number of Reads, Number of Reads Assembled, Number of Contigs, and Average Contig Length Are Shown for Each of the Blueberry Samples)

	No. of reads		Avg. contig
Sample	No. of reads	assembled	No. of contigs	length
Flower bud—0′	127,428	68,640	2,675	804.07
Flower bud—400′	181,113	72,872	2,751	760.03
Flower bud—800′	147,941	70,172	2,645	784.34
Flower bud—1,300′	131,370	69,572	2,421	796.37
All bud samples	587,852	281,256	10,350	898.43
Green fruit	165,464	76,566	2,241	719.77
White fruit	170,195	76,067	2,029	699.54
Pink fruit	152,903	73,721	1,964	749.72
Blue fruit	142,429	58,569	1,941	819.29
All berry samples	630,991	284,923	6,726	818.09
Leaves and stems	129,855	61,034	1,781	770.85
Total	1,348,698	627,213	14,764

FIGURE 1 Design of (A) SSR and (B) EST-PCR primers using the P3 website (http://frodo.wi.mit.edu/), and (C) screening of the diploid Vaccinium parent plants for polymorphic EST-PCR markers. In the SSR example shown (A), primers were designed flanking (GA)₁₄(CGA)₅ repeats to give a product in the 250 bp range. For EST-PCR markers (B), primers were designed near the ends of the ESTs. In the gel picture shown (C), an EST-PCR marker (lower band) is present in the original parent Fla4B, absent in the other parent W85-20, present in the F1#10, and absent in the testcross parent W85-23, making it “mappable” in the diploid population. PCRs of each of the parent plants were run in duplicate. In the ‘M’ lane are molecular weight standards.

FIGURE 2 A UPGMA dendrogram of diploid Vaccinium species in the section Cyanococcus constructed from length polymorphisms of EST-PCR markers. In the tree, bor, myrt, cae, eli, atr, dar, ten, pal, and gay stand for V. boreale, V. myrtilloides, V. caesariense, V. elliottii, V. atrococcum, V. darrowii, V. tenellum, V. pallidum, and Gaylussacia brachycera (which served as an outlier), respectively. Most of the V. elliottii representatives formed a distinct group, suggesting V. elliottii should probably not be lumped with V. caesariense and V. atrococcum as diploid V. corymbosum (color figure available online).