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De Novo transcriptome assembly (NGS) of Curcuma longa L. rhizome reveals novel transcripts related to anticancer and antimalarial terpenoids.

Annadurai RS, Neethiraj R, Jayakumar V, Damodaran AC, Rao SN, Katta MA, Gopinathan S, Sarma SP, Senthilkumar V, Niranjan V, Gopinath A, Mugasimangalam RC - PLoS ONE (2013)

Bottom Line: Curcumin, a secondary metabolite isolated from the rhizomes of this plant has been shown to have significant anticancer properties, in addition to antimalarial and antioxidant effects.We report for the first time, the presence of transcripts related to biosynthetic pathways of several anti-cancer compounds like taxol, curcumin, and vinblastine in addition to anti-malarial compounds like artemisinin and acridone alkaloids, emphasizing turmeric's importance as a highly potent phytochemical.Our data not only provides molecular signatures for several terpenoids but also a comprehensive molecular resource for facilitating deeper insights into the transcriptome of C. longa.

View Article: PubMed Central - PubMed

Affiliation: Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka, India.

ABSTRACT
Herbal remedies are increasingly being recognised in recent years as alternative medicine for a number of diseases including cancer. Curcuma longa L., commonly known as turmeric is used as a culinary spice in India and in many Asian countries has been attributed to lower incidences of gastrointestinal cancers. Curcumin, a secondary metabolite isolated from the rhizomes of this plant has been shown to have significant anticancer properties, in addition to antimalarial and antioxidant effects. We sequenced the transcriptome of the rhizome of the 3 varieties of Curcuma longa L. using Illumina reversible dye terminator sequencing followed by de novo transcriptome assembly. Multiple databases were used to obtain a comprehensive annotation and the transcripts were functionally classified using GO, KOG and PlantCyc. Special emphasis was given for annotating the secondary metabolite pathways and terpenoid biosynthesis pathways. We report for the first time, the presence of transcripts related to biosynthetic pathways of several anti-cancer compounds like taxol, curcumin, and vinblastine in addition to anti-malarial compounds like artemisinin and acridone alkaloids, emphasizing turmeric's importance as a highly potent phytochemical. Our data not only provides molecular signatures for several terpenoids but also a comprehensive molecular resource for facilitating deeper insights into the transcriptome of C. longa.

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Related in: MedlinePlus

Transcript assembly statistics.A) Length of the assembled transcripts vs. Number of transcripts B) ATGC composition of the RTs.
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pone-0056217-g001: Transcript assembly statistics.A) Length of the assembled transcripts vs. Number of transcripts B) ATGC composition of the RTs.

Mentions: Filtered reads were assembled into contigs using Velvet at a hash length of 45, which generated 137,148, 91,995 and 203,400 contigs for cultivars Nattu, Erode and Mysore respectively. Further transcriptome assembly using Oases resulted in 56,770, 65,924 and 91,958 transcripts. Figure 1A shows the transcript length distribution ranging from 200 bases to more than 3000 bases. We pooled and further assembled the individual assemblies of the three cultivars to create a reference sequence for comparative analysis. Representative transcripts (RTs) obtained after clustering using CD-HIT contained 9,568, 13,679 and 38,300 transcripts from cultivars Nattu, Erode and Mysore respectively. Clustering resulted in 61,538 RTs.


De Novo transcriptome assembly (NGS) of Curcuma longa L. rhizome reveals novel transcripts related to anticancer and antimalarial terpenoids.

Annadurai RS, Neethiraj R, Jayakumar V, Damodaran AC, Rao SN, Katta MA, Gopinathan S, Sarma SP, Senthilkumar V, Niranjan V, Gopinath A, Mugasimangalam RC - PLoS ONE (2013)

Transcript assembly statistics.A) Length of the assembled transcripts vs. Number of transcripts B) ATGC composition of the RTs.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3585318&req=5

pone-0056217-g001: Transcript assembly statistics.A) Length of the assembled transcripts vs. Number of transcripts B) ATGC composition of the RTs.
Mentions: Filtered reads were assembled into contigs using Velvet at a hash length of 45, which generated 137,148, 91,995 and 203,400 contigs for cultivars Nattu, Erode and Mysore respectively. Further transcriptome assembly using Oases resulted in 56,770, 65,924 and 91,958 transcripts. Figure 1A shows the transcript length distribution ranging from 200 bases to more than 3000 bases. We pooled and further assembled the individual assemblies of the three cultivars to create a reference sequence for comparative analysis. Representative transcripts (RTs) obtained after clustering using CD-HIT contained 9,568, 13,679 and 38,300 transcripts from cultivars Nattu, Erode and Mysore respectively. Clustering resulted in 61,538 RTs.

Bottom Line: Curcumin, a secondary metabolite isolated from the rhizomes of this plant has been shown to have significant anticancer properties, in addition to antimalarial and antioxidant effects.We report for the first time, the presence of transcripts related to biosynthetic pathways of several anti-cancer compounds like taxol, curcumin, and vinblastine in addition to anti-malarial compounds like artemisinin and acridone alkaloids, emphasizing turmeric's importance as a highly potent phytochemical.Our data not only provides molecular signatures for several terpenoids but also a comprehensive molecular resource for facilitating deeper insights into the transcriptome of C. longa.

View Article: PubMed Central - PubMed

Affiliation: Research and Development Unit, Genotypic Technology Private Limited, Bangalore, Karnataka, India.

ABSTRACT
Herbal remedies are increasingly being recognised in recent years as alternative medicine for a number of diseases including cancer. Curcuma longa L., commonly known as turmeric is used as a culinary spice in India and in many Asian countries has been attributed to lower incidences of gastrointestinal cancers. Curcumin, a secondary metabolite isolated from the rhizomes of this plant has been shown to have significant anticancer properties, in addition to antimalarial and antioxidant effects. We sequenced the transcriptome of the rhizome of the 3 varieties of Curcuma longa L. using Illumina reversible dye terminator sequencing followed by de novo transcriptome assembly. Multiple databases were used to obtain a comprehensive annotation and the transcripts were functionally classified using GO, KOG and PlantCyc. Special emphasis was given for annotating the secondary metabolite pathways and terpenoid biosynthesis pathways. We report for the first time, the presence of transcripts related to biosynthetic pathways of several anti-cancer compounds like taxol, curcumin, and vinblastine in addition to anti-malarial compounds like artemisinin and acridone alkaloids, emphasizing turmeric's importance as a highly potent phytochemical. Our data not only provides molecular signatures for several terpenoids but also a comprehensive molecular resource for facilitating deeper insights into the transcriptome of C. longa.

Show MeSH
Related in: MedlinePlus