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Supporting Information Legends
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Figure S1. Phylogenetic tree derived from amino acid sequences of genes encoding MYB (A) and basic helix
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loop helix (B) transcription factors. Phylogenetic tree was conducted using MEGA version 5.2 using neighbor-
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joining method and 1,000 bootstrap replicates. The GenBank or TAIR accession numbers are as follows: AtTT8
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(CAC14865), MdbHLH3 (AHM88207), MdbHLH33 (ABB84474), NtAN1b (AEE99258), NtJAF13 (AGX01001),
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AtGL3 (NP680372), AtEGL3 (Q9CAD0), AtMYC2 (NP_174541), ZmLc (NP_001105339), ZmB1 (CAA40544),
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AtMYB4,AT4G38620; AtMYB6,AT4G09460; FaMYB1,AAK84064; AtPAP1,AT1G56650; AtPAP2,AT1G66390;
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AtMYB111 (AT5G49330), AtMYB11 (AT3G62610), VvMYBF1 (ACV81697), ZmMYB31 (NP_001105949),
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AtMYB123 (AT5G35550), VvMYBPA2 (BAD18978), VvMYBPA1 (NP_001268160), VvMYBA1 (BAD18977),
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VvMYBA2 (BAD18978), MdMYB10 (ABB84753), MdMYB110a (AFC88038), AtMYB32 (AT4G34990), CsRuby
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(JN402330), AtMYB8 (AT2G02820).
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Figure S2. Expression profiles of genes involved in anthocyanin biosynthesis and vacuolar transport in
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developing fruit flesh of peach. Error bars show SE of the mean. The fruit samples were collected in 2013. D1,
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28 days after full bloom (DAFB); D2, 57 DAFB; D3, 82 DAFB; D4, 94 DAFB.
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Figure S3. Anthocyanin-activating MYB gene PpMYB10.1 in peach. A, Structural feature of the peach
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PpMYB10.1 gene. An InDel and a SNP (A/C) in the promoter and the second intron are indicated. B, Analysis of
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the InDel in the F1 population derived from a cross between cvs. DHP and Jinhuadabaitao (JH). The population
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consists of 11 nonblood- and 9 blood-fleshed individuals, with a 1:1 ratio of nonblood to blood. Cultivars JH,
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XD, and TJ2 are white- , white-, and blood-fleshed varieties, respectively.
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Figure S4. Genetic mapping of the peach blood flesh trait using a F1 progeny derived from a cross between
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DHP × Shuguang. The blood flesh is controlled by a single gene (BL), with blood allele dominant over non-
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blood allele.
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Figure S5. Six SSR loci identified in the genomic sequences of the BL gene retrieved from the peach reference
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genome of cv. Lovell. SSR markers, WPS21, WPS22, and WPS23, were developed based on the SSR loci of
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(AG)19, (AAT)6, and (TA)13, respectively.
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Figure S6. Expression profiles of the BL gene in fruits of 30 progeny derived from a cross between cvs. DHP
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and Shuguang. Error bars show SE of the mean.
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Figure S7. Heat-map of NAC family in the peach transcriptome. Heat-map was constructed using RNA-Seq
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data by software MEV (4.81). Y1, B1, Y2, B2, W2 stand for fruits from cv ‘Jinxiang’(JX) 65 DAFB, DHP 65 DAFB,
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JX 85 DAFB, DHP 85 DAFB, BF 85 DAFB.
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Figure S8. Phylogenetic tree derived from amino acid sequences of genes encoding NAC domain proteins in
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Arabidopsis and peach. Phylogenetic tree was conducted using MEGA version 5.2 using neighbor-joining
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method and 1,000 bootstrap replicates.
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Table S1. SSR markers used for genetic mapping of blood-flesh trait in peach.
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Table S2. RNA-Seq clean reads and their physical mapping result in peach.
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Table S3. Sequences of primers used for qRT-PCR analysis in peach.
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Supporting Data 1. Schematic diagram shows the individual recombinants across both sides of the BL
locus.
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Supporting Data 2. Genotyping data of the progeny derived from a cross between ‘DHP’ and ‘SG’.
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