De Novo Transcriptome Assembly (NGS) of Curcuma longa L. Rhizome Reveals Novel Transcripts Related to Anticancer and Antimalarial Terpenoids

Annadurai, Ramasamy S; Neethiraj, Ramprasad; Jayakumar, Vasanthan; Damodaran, Anand C.; Rao, Sudha; Katta, Mohan A. V. S. K.; Gopinathan, Sreeja; Sarma, Santosh Prasad; Senthilkumar, Vanitha; Niranjan, Vidya; Gopinath, Arvind; Mugasimangalam, Raja C.

doi:10.1371/journal.pone.0056217

Cited by 77 publications

(75 citation statements)

References 57 publications

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“…Turmeric also contains a wide variety of phytochemicals (Almedia et al 2005;Abas et al 2005). Due to its growing importance, turmeric is a target crop for gene expression and transcriptome analysis aimed at modifying curcuminoid biosynthetic pathway and identification of transcripts against various human diseases (Annadurai et al 2012).…”

Section: Introductionmentioning

confidence: 99%

A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.)

Deepa

Sheeja

Santhi

et al. 2014

Physiol Mol Biol Plants

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Many experiments in plant molecular biology require processing of a large number of RNA samples and in some cases large quantities are required for a single application. In turmeric, a major spice and medicinal plant, a protocol for RNA isolation is not available. The major difficulty encountered while using other popular protocols is the low yield and quality of RNA which hampers the downstream applications like qRT-PCR, cDNA synthesis and micro RNA isolation. Commercial kits though available are costly and were found to be unsuccessful in case of rhizomes and root tissues that are rich in polyphenols, polysaccharides and alkaloids. It was thus felt that a quick, handy and cheap protocol of total RNA isolation from different tissues of turmeric was required for day to day working in our lab. The new protocol utilizes SDS based extraction buffer including β-mercaptoethanol and PVP with sequential acid phenol:chloroform extraction to remove polyphenols and proteins, followed by the purification with sodium acetate to eliminate polysaccharides. The protocol is simple and can be completed in less than 3 h. The RNA yield from rhizome was higher by more than fivefold with both A 260/280 and A 260/230 ratio in the range of 1.8-2.0. The protocol worked well with leaf, rhizome, pseudostem and root tissues with RIN >7.0 and the isolated RNA could be successfully used for cDNA synthesis, RT-PCR, qRT-PCR and small RNA isolation including microRNA.

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Section: Introductionmentioning

confidence: 99%

A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.)

Deepa

Sheeja

Santhi

et al. 2014

Physiol Mol Biol Plants

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“…20) These transcriptome data have accelerated our understanding of the complexity of gene transcription patterns, gene structure variances, and gene regulation networks. Here, we reported for the first time the de novo assembly data of C. obtusifolia transcriptome.…”

Section: Discussionmentioning

confidence: 99%

De novo assembly and analysis of Cassia obtusifolia seed transcriptome to identify genes involved in the biosynthesis of active metabolites

Liu

Song

Zhu

et al. 2014

Bioscience, Biotechnology, and Biochemistry

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A cDNA library generated from seeds of Cassia obtusifolia was sequenced using Illumina/Solexa platform. More than 12,968,231 high quality reads were generated, and have been deposited in NCBI SRA (SRR 1012912). A total of 40,102 unigenes (>200 bp) were obtained with an average sequence length of 681 bp by de novo assembly. About 34,089 (85%) unique sequences were annotated and 8694 of the unique sequences were assigned to specific metabolic pathways by the Kyoto Encyclopedia of Genes and Genomes. Among them, 131 unigenes, which are involved in the biosynthesis and (or) regulation of anthraquinone, carotenoid, flavonoid, and lipid, the 4 best known active metabolites, were identified from cDNA library. In addition, three lipid transfer proteins were obtained, which may contribute to the lipid molecules transporting between biological membranes. Meanwhile, 30 cytochrome P450, 12 SAM-dependent methyltransferases, and 12 UDP-glucosyltransferase unigenes were identified, which could also be responsible for the biosynthesis of active metabolites.

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“…Thus, an understanding of the genes involved in the biosynthesis of curcuminoids is of great significance. The transcriptome of rhizome of C. longa has already been sequenced using Illumina platform to reveal the novel transcripts related to anti-cancer and anti-malarial terpenoids [28]. However, study of molecular mechanism underlying curcuminoid metabolism in turmeric, especially with respect to the full set of genes involved in this pathway and transcription factors regulating these genes, is of major significance.…”

Section: Molecular Sequencing Approaches For Quality Improvement In Tmentioning

confidence: 99%

Breeding for Quality Improvement in Turmeric (Curcuma longa L.): a Review

Ayer¹

2017

APAR

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Turmeric (Curcuma longa L.) is an economically important spice and medicinal plant for production of curcuminoids, oleoresin, essential oil which are used in pharmaceutical and cosmetics industries. Presence of these contents in turmeric determine its quality. Average productivity and quality of turmeric is not satisfactory because of the poor genetic materials and non-availability of quality materials. Conventional clonal selection takes long time and slow progress to achieve the same level of quality improvement than molecular or biotechnological approaches. Use of molecular markers, transcriptome sequencing, real time PCR approaches can be applied as a supplement to conventional methods of breeding through clonal selection and advancing elite genotypes. In this paper, we will discuss in short about the use of different approaches developed for quality improvement in turmeric.Keywords: Clonal selection; Curcuminoids; Molecular approach; Quality; Turmeric IntroductionTurmeric (Curcuma longa L.) (2n=3x=63) belonging to the family Zingiberaceae is an economically important spice and medicinal plant for production of curcumin, oleoresin, essential oil which are used in pharmaceutical and cosmetics industries. Traditionally turmeric is known as Haldi in India, Besar in Nepal and is under extensive cultivation in South Asian countries for medicinal, religious, culinary purposes and also as a cosmetic and dye. Dry recovery (curing percentage), curcumin and oleoresin contents determine the quality of turmeric and high variability has been observed in turmeric germplasm with respect to these characters [1]. Turmeric powder obtained from rhizomes of C. longa is extensively used as a spice, food preservative, natural dye in food industry and in cosmetics and drugs [2]. Curcuminoid, a phenylpropanoid derivative, is a mixture of curcumin (50-60 % of the curcuminoids), demethoxycurcumin and bisdemethoxycurcumin which imparts yellow colour to turmeric [3]. The medicinal properties of curcuminoids as anti-inflammatory, anti-oxidant, antimutagenic, anti-diabetic, anti-bacterial, hepatoprotective and expectorant are reported extensively. It is also well known in treating conditions ranging from arthritis and inflammation to Alzheimer's disease and cancer [2]. Because of widespread multipurpose use of this medicinal herb in pharmacological industry, spice industry and other culinary purpose use, quality improvement for enhanced phyto-constituents production in turmeric is of great importance in the present context. Need for Crop Improvement in TurmericAlthough India is a leading producer of turmeric and few high yielding cultivars are available in this crop, the average productivity and quality are not satisfactory. Major problems are non-availability of requisite high yielding genotype, slow multiplication rate, low curcumin and essential oil content in available cultivars and loss due to disease during cultivation and storage. Crop improvement work in turmeric is so far confined mostly to clonal selection by exploiting...

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De Novo Transcriptome Assembly (NGS) of Curcuma longa L. Rhizome Reveals Novel Transcripts Related to Anticancer and Antimalarial Terpenoids

Cited by 77 publications

References 57 publications

A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.)

A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.)

De novo assembly and analysis of Cassia obtusifolia seed transcriptome to identify genes involved in the biosynthesis of active metabolites

Breeding for Quality Improvement in Turmeric (Curcuma longa L.): a Review

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