A rapid and efficient DNA extraction method suitable for marine macroalgae

Ramakrishnan, Gautham Subramaniam; Fathima, Anwar Aliya; Ramya, Mohandass

doi:10.1007/s13205-017-0992-2

Cited by 14 publications

(15 citation statements)

References 20 publications

(28 reference statements)

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“…DNA extraction from seaweed was reported successful using fresh materials [19]. Furthermore, the treatment with enzymes and grinding with liquid nitrogen have resulted in good quality of DNA [20,21].…”

Section: Resultsmentioning

confidence: 99%

Total Genomic DNA Extraction Studies from Seaweeds

Pharmawati

Basyar

Astarini

2020

atbes

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One of marine resources that has high value is seaweed. Seaweed is a carrageenan producer used in the food industry. Seaweed contains many minerals, vitamins and proteins that are useful for health. Carotenoids are pigments found in seaweed that function as antioxidants. The genes involved in carotenoid biosynthesis have been studied and provide opportunities for genetic improvement of seaweed. DNA is a basic requirement in molecular analysis. Therefore, a suitable method of DNA extraction from seaweed is needed. The aim of this research was to investigate DNA extraction method from several seaweed species and test the DNA quality through PCR-RAPD. Seaweed samples were collected from Pantai Bumi Perkemahan Taman Nasional Bali Barat and DNA was extracted using Doyle and Doyle’s method with modifications. PCR-RAPD was conducted using primer UBC127 and OPD 11 to test the quality of DNA. Results showed that 3 hours incubation in 60ºC had the best result of DNA extraction. However, the quality of DNA was low, as indicated by inconsistent PCR-RAPD products. Further optimization in DNA extraction is needed to obtain high quality DNA for genetic analysis.

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Section: Resultsmentioning

confidence: 99%

Total Genomic DNA Extraction Studies from Seaweeds

Pharmawati

Basyar

Astarini

2020

atbes

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“…When we assessed the DNA extraction by the tissue and stool protocols, the quantity and purity yield were higher than observed by the previously investigated protocols. It seems that the mechanical homogenization and the protease digestion are crucial steps to a higher DNA yield (Ramakrishnan et al, 2017).…”

Section: Discussionmentioning

confidence: 99%

“…However, to successfully utilize this genomic approach, obtaining a pure and high molecular weight (HMW) DNA is required. Such DNA extraction from marine organisms is yet an arduous task due to the various tissue consistency and high polysaccharide, polyphenol, and other secondary metabolites content co‐extracted with the DNA (Ramakrishnan et al, 2017 ). These contaminants can inhibit the activity of the enzymes during library preparation, rendering the DNA useless for downstream applications.…”

Section: Introductionmentioning

confidence: 99%

Whole genome sequencing of marine organisms by Oxford Nanopore Technologies: Assessment and optimization of HMW‐DNA extraction protocols

Boughattas

Albatesh

Al‐Khater³

et al. 2021

Ecology and Evolution

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Previous biogeographic studies revealed exclusive divergence of animal species composition in Gulf region, particularly in Qatar, as its marine ecosystems are driven mainly by high temperature and salinity with a semi-closed basin, depending thus on water input from the Indian Ocean, supplied on the Gulf's southeast coast, and creating a marine barrier for different species as, for example, Decapods (Al-Khayat & Giraldes, 2020). Due to these peculiar conditions, the fauna and flora have adapted to survive under extreme conditions (Al-Khayat, 2010), contributing to the evolution of the marine species in this area and consequently enriching the environment with endemic species (Fotedar et al., 2019;Giraldes et al., 2020;Kardousha et al., 2016). The identification of some of these species has so far been based on conventional taxonomic parameters, although this type of analysis can be notoriously difficult (Bork, 2015).

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“…chilensis was performed according to the literature (Ramakrishnan, Fathima, & Ramya, 2017). PCR were performed using the follow- shown the restriction sites for subcloning.…”

Section: Dna Extraction and Pcr Conditionsmentioning

confidence: 99%

Biosynthesis and characterization of a recombinant eukaryotic allophycocyanin using prokaryotic accessory enzymes

et al. 2020

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Phycobiliproteins (PBPs) are colored fluorescent proteins present in cyanobacteria, red alga, and cryptophyta. These proteins have many potential uses in biotechnology going from food colorants to medical applications. Allophycocyanin, the simplest PBP, is a heterodimer of αβ subunits that oligomerizes as a trimer (αβ)3. Each subunit contains a phycocyanobilin, bound to a cysteine residue, which is responsible for its spectroscopic properties. In this article, we are reporting the expression of recombinant allophycocyanin (rAPC) from the eukaryotic red algae Agarophyton chilensis in Escherichia coli, using prokaryotic accessory enzymes to obtain a fully functional rAPC. Three duet vectors were used to include coding sequences of α and β subunits from A. chilensis and accessorial enzymes (heterodimeric lyase cpc S/U, heme oxygenase 1, phycocyanobilin oxidoreductase) from cyanobacteria Arthrospira maxima. rAPC was purified using several chromatographic steps. The characterization of the pure rAPC indicates very similar spectroscopic properties, λmaxAbs, λmaxEm, fluorescence lifetime, and chromophorylation degree, with native allophycocyanin (nAPC) from A. chilensis. This method, to produce high‐quality recombinant allophycocyanin, can be used to express and characterize other macroalga phycobiliproteins, to be used for biotechnological or biomedical purposes.

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A rapid and efficient DNA extraction method suitable for marine macroalgae

Cited by 14 publications

References 20 publications

Total Genomic DNA Extraction Studies from Seaweeds

Total Genomic DNA Extraction Studies from Seaweeds

Whole genome sequencing of marine organisms by Oxford Nanopore Technologies: Assessment and optimization of HMW‐DNA extraction protocols

Biosynthesis and characterization of a recombinant eukaryotic allophycocyanin using prokaryotic accessory enzymes

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