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Open Access Highly Accessed Research article

Comprehensive transcriptome analysis reveals novel genes involved in cardiac glycoside biosynthesis and mlncRNAs associated with secondary metabolism and stress response in Digitalis purpurea

Bin Wu, Ying Li, Haixia Yan, Yimian Ma, Hongmei Luo, Lichai Yuan, Shilin Chen and Shanfa Lu*

Author Affiliations

Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, No.151, Malianwa North Road, Haidian District, Beijing 100193, China

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BMC Genomics 2012, 13:15  doi:10.1186/1471-2164-13-15

Published: 10 January 2012

Additional files

Additional file 1:

Unigenes probably involved in cardiac glycoside biosynthesis. Complete set of unigenes probably involved in cardiac glycoside biosynthesis.

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Additional file 2:

The 25 most abundant unigenes in D. purpurea. Complete set of the 25 most abundant unigenes in D. purpurea.

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Open Data

Additional file 3:

Housekeeping npcRNAs identified. Complete set of the housekeeping npcRNAs identified.

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Additional file 4:

D. purpurea mlncRNA families. Complete set of the D. purpurea mlncRNA families.

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Additional file 5:

Conserved mlncRNAs. Complete set of the conserved mlncRNAs.

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Open Data

Additional file 6:

Expression of housekeeping genes. (A) Cq value of ubiquitin, actin and 18s rRNA in leaves (L), stems (S), flowers (F) and roots (R) of one-year-old D. purpurea plants and plantlets treated with cold (C0, C1, C5, C10 and C24) and dehydration (D0, D1, D5, D10 and D24) stresses for 0, 1, 5, 10 and 24 hours. Expression levels were quantified by qPCR. The mean Cq value of three PCR replicates is shown. (B) The expression stability value (M) was calculated by geNorm software [87].

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Open Data

Additional file 7:

Protein-coding genes significantly homologous or complementary to mlncRNAs. Complete set of the protein-coding genes significantly homologous or complementary to mlncRNAs.

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Open Data

Additional file 8:

The putative biosynthetic pathway of cardiac glycosides in Digitalis purpurea. The pathway roughly comprises terpenoid backbone biosynthesis, steroid biosynthesis and cardenolide biosynthesis three stages. The enzymes with corresponding unigenes are framed.

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Open Data

Additional file 9:

Primers used in qPCR. Complete set of the primers used in qPCR.

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Additional file 10:

Primers used for indentifying the transcriptional direction of mlncRNAs. Complete set of the primers used for indentifying the transcriptional direction of mlncRNAs.

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Open Data