Comparative Transcriptome Analysis of Two Species of Curcuma Contrasting in a High-Value Compound Curcumin: Insights into Genetic Basis and Regulation of Biosynthesis

Sheeja, T. E.; Deepa, K.; Santhi, R.; Sasikumar, B.

doi:10.1007/s11105-015-0878-6

Cited by 27 publications

(29 citation statements)

References 40 publications

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“…The number of contigs identified in our study that showed Blast hits aligned closely with recent published reports (Sheeja et al . ; Chand et al . ).…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis, using RNA‐Seq of Lomandra longifolia roots infected with Phytophthora cinnamomi reveals the complexity of the resistance response

et al. 2017

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The plant pathogen Phytophthora cinnamon the causal agent of disease in numerous species, is a major threat to natural vegetation and has economic impacts in agriculture. The pathogen principally invades the root system, which, in susceptible species, is rapidly colonised and functionally destroyed. Few species are resistant, however, where resistance is expressed the pathogen is restricted to small, localised lesions. The molecular mechanisms that underpin this response in resistant species are not well understood. Lomandra longifolia, an Australian native species, is highly resistant to P. cinnamomi. In an earlier study, we showed induction of resistance-related components such as callose, lignin and hydrogen peroxide (H O ) in L. longifolia roots that had been inoculated with P. cinnamomi. Here, in order to further identify, during the very early stages of infection, the molecular components and regulatory networks that may trigger resistance, a comprehensive root transcriptome analysis was performed using next generation sequencing. Overall, 18 cDNA libraries were produced generating 52.8 GB 126 base pair reads, which were de novo assembled into contigs. Differentially expressed genes (DEGs) were identified allowing the identification of infection-responsive candidate genes that were putatively related to resistance, and from this set ten were selected for qRT-PCR to validate the RNA-Seq expression value. Further analysis of individual candidates revealed that many were involved in PAMP-triggered immunity (PTI; pattern recognition receptors, glutathione S-transferase, callose synthases, pathogenesis-related protein-1, mitogen activated protein kinases) and effector-triggered immunity (ETI) (NBS-LRR, signalling genes, transcription factors and anti-pathogenic compound synthase genes). As these candidate genes or mediated components activate different defence signalling systems, they may have potential for investigation of novel approaches to disease control and in transgenic approaches for improvement, in susceptible species, of resistance to P. cinnamomi.

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“…The number of contigs identified in our study that showed Blast hits aligned closely with recent published reports (Sheeja et al . ; Chand et al . ).…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis, using RNA‐Seq of Lomandra longifolia roots infected with Phytophthora cinnamomi reveals the complexity of the resistance response

et al. 2017

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“…These approaches involve less time taking and cost effective measures although requires sophisticated technology and technical skill. Thus, knowledge based on gene expression analysis, transcriptome sequencing, marker assisted selection and quantitative traits statistics can be applied in breeding programs for advancing the elite genotypes and improving phyto-constituents in turmeric genotypes [33].…”

Section: Resultsmentioning

confidence: 99%

“…While evaluating the dynamic expression patterns, 14 unigenes were upregulated in C. longa. These upregulated genes possess potential roles in curcuminoid biosynthetic pathway namely pal, c4h, 4cl, hct, c3h, comt, dcs, curs1, curs2 and curs3, one transcription factor (wrky), and two novel polyketide synthases (clpks1 and clpks2) with the exception of a transcription factor, myb4 (Sheeja, Deepa, Santhi, & Sasikumar, 2015). From those studies, it can be said that enhanced expression of polyketide synthase genes in C. longa are major contributing factors towards curcuminoids biosynthesis pathway and hence improvement in such gene expression can be achieved either by selection for such conserved expression genes family or by manipulating the gene expression pattern for such genes.…”

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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“…Several studies have been carried out to study the secondary metabolites and medicinal properties of this plant [22], [23]. Recently, the transcriptome profiling and analysis of Curcuma longa using rhizome samples have been carried out to identify the secondary metabolite pathways and associated transcripts [11], [17], [24], [25]. However, its reference genome sequence is not yet available, which is much needed to understand the genomic and molecular basis of the evolution of the unique characteristics of Curcuma longa .…”

Section: Introductionmentioning

confidence: 99%

“…Therefore, we performed the first draft genome sequencing and assembly of Curcuma longa using 10x Genomics linked reads generated on Illumina platform. The transcriptome of rhizome tissue for this plant has been known from previous studies but the transcriptome of leaf tissue is yet unknown [11], [17], [24], [25]. Thus, we carried out the first transcriptome sequencing of leaf tissue and along with the available RNA-Seq data of rhizome, performed a comprehensive transcriptome analysis that also helped in the gene set construction.…”

Section: Introductionmentioning

confidence: 99%

Genome sequencing of turmeric provides evolutionary insights into its medicinal properties

Chakraborty

Mahajan

Jaiswal

et al. 2020

Preprint

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Curcuma longa, or turmeric, is traditionally known for its immense medicinal properties and has diverse therapeutic applications. However, the absence of a reference genome sequence is a limiting factor in understanding the genomic basis of the origin of its medicinal properties. In this study, we present the draft genome sequence of Curcuma longa, the first species sequenced from Zingiberaceae plant family, constructed using 10x Genomics linked reads. For comprehensive gene set prediction and for insights into its gene expression, the transcriptome sequencing of leaf tissue was also performed. The draft genome assembly had a size of 1.24 Gbp with ~74% repetitive sequences, and contained 56,036 coding gene sequences. The phylogenetic position of Curcuma longa was resolved through a comprehensive genome-wide phylogenetic analysis with 16 other plant species. Using 5,294 orthogroups, the comparative evolutionary analysis performed across 17 species including Curcuma longa revealed evolution in genes associated with secondary metabolism, plant phytohormones signaling, and various biotic and abiotic stress tolerance responses. These mechanisms are crucial for perennial and rhizomatous plants such as Curcuma longa for defense and environmental stress tolerance via production of secondary metabolites, which are associated with the wide range of medicinal properties in Curcuma longa.

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Comparative Transcriptome Analysis of Two Species of Curcuma Contrasting in a High-Value Compound Curcumin: Insights into Genetic Basis and Regulation of Biosynthesis

Cited by 27 publications

References 40 publications

Transcriptome analysis, using RNA‐Seq of Lomandra longifolia roots infected with Phytophthora cinnamomi reveals the complexity of the resistance response

Transcriptome analysis, using RNA‐Seq of Lomandra longifolia roots infected with Phytophthora cinnamomi reveals the complexity of the resistance response

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

Genome sequencing of turmeric provides evolutionary insights into its medicinal properties

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