High quality RNA extraction from small cardamom tissues rich in polysaccharides and polyphenols

Abstract

Due to the presence of a diverse array of metabolites, no standard method of RNA isolation is available for plants. We noted that polysaccharide and polyphenol contents of cardamom tissues critically hinder the RNA extraction procedure. Hence, we attempted several methods for obtaining intact mRNA and small RNA from various cardamom tissues. It was found that protocols involving a combination of commercial kits and conventional CTAB (cetyl trimethylammonium bromide) methods yielded RNA with good purity, higher yield, and good integrity. The total RNA isolated through this approach was found to be amenable for transcriptome and small RNA analysis through next-generation sequencing platforms.

Keywords

• RNA isolation; Next-generation sequencing (NGS); mRNA; miRNA; RIN value
• • http://dx.doi.org/10.1016/j.ab.2015.05.017 
  • Full paper: http://authors.elsevier.com/a/1RJrWlbACuNf
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• Analytical Biochemistry

• Fasiludeen Nadiya^a, 
• Narayanannair Anjali^a, 
• Appukuttannair Gangaprasad^b,
• Kalluvettankuzhy Krishnannair Sabu^a, , 

• ^a Biotechnology and Bioinformatics Division, Jawaharlal Nehru Tropical Botanic Garden & Research Institute (JNTBGRI), Thiruvananthapuram 695562, Kerala, India
• ^b Department of Botany, University of Kerala, Thiruvananthapuram 695037, Kerala, India

Received 22 May 2015, Accepted 28 May 2015, Available online 3 June 2015

Corresponding author

Kalluvettankuzhy Krishnannair Sabu - sabu@jntbgri.res.inBiotechnology and Bioinformatics Division, Jawaharlal Nehru Tropical Botanic Garden & Research Institute (JNTBGRI), Thiruvananthapuram 695562, Kerala, India. 

Development of EST-SSR Markers to Assess Genetic Diversity in Elettaria Cardamomum Maton

Elettaria cardamomum Maton is one of the most ancient and valuable spice crops. Cardamom is cultivated following intensive pesticide usage where alleles present in the wild cardamom genotypes could positively contribute towards genetic improvement of the cultivars. However, the genetic map or whole-genome sequence of E. cardamomum is not available and very limited information on simple sequence repeat (SSR) markers are publicly available. We have tested whether SSRs from Curcuma longa can be used to analyze genetic diversity E. cardamomum.

Int J Appl Sci Biotechnol, Vol 3(2): 188-192

N Anjali, Sowmya S Dharan, F Nadiya, K K Sabu

DOI: http://dx.doi.org/10.3126/ijasbt.v3i2.12380  

Keywords: EST-SSR; microsatellite; genetic diversity; Elettaria cardamomum; cardamom; marker development

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