bims-plasge Biomed News
on Plastid genes
Issue of 2020‒01‒05
two papers selected by
Vera S. Bogdanova
Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences
  1. Methods and Tools for Plant Organelle Genome Sequencing, Assembly, and Downstream Analysis.
  2. An Efficient Method of Mitochondrial DNA Isolation from Vigna radiata for Genomic Studies.
  1. Methods Mol Biol. 2020 ;2107 49-98
    Methods and Tools for Plant Organelle Genome Sequencing, Assembly, and Downstream Analysis.
    Sanand Sandhya, Harsha Srivastava, Tanvi Kaila, Anshika Tyagi, Kishor Gaikwad.
      Organelles play an important role in a eukaryotic cell. Among them, the two organelles, chloroplast and mitochondria, are responsible for the critical function of photosynthesis and aerobic respiration. Organellar genomes are also very important for plant systematic studies. Here we have described the methods for isolation of the mitochondrial and plastid DNA and its subsequent sequencing with the help of NGS technology. We have also discussed in detail the various tools available for assembly, annotation, and visualization of the organelle genome sequence.
    Keywords:  Annotation; Assembly; Chloroplast; Mitochondria; NGS; Visualization
    DOI:  https://doi.org/10.1007/978-1-0716-0235-5_4
  2. Methods Mol Biol. 2020 ;2107 305-315
    An Efficient Method of Mitochondrial DNA Isolation from Vigna radiata for Genomic Studies.
    Pooja Singh, Ranjan Kumar Sahoo, Mallesham Bulle, Kapuganti Jagadis Gupta.
      Isolation of mitochondrial DNA from root tissues of mung bean (Vigna radiata) is quite tedious, complex, and often results in low yield. Hence here we show a simple, rapid, and improved protocol for isolation of mitochondrial DNA from root tissues of hydroponically grown mung bean plants. This method involves purification of mitochondria and subsequent isolation of DNA from obtained purified mitochondria. For this purpose, mitochondria were isolated using a discontinuous Percoll gradient centrifugation followed by RNase I treatment to the isolated DNA to remove any traces of RNA contamination. The mitochondrial DNA was isolated from mitochondrial samples by commonly used CTAB method. The specificity of isolated mitochondrial DNA was confirmed using mtDNA-specific genes (NAD1 and COX3). β-Actin primer was used to check the nuclear DNA contamination. PCR amplification was observed in mtDNA specific genes NAD1 and COX3 except nuclear encoded β-actin gene suggesting that mitochondrial DNA was not contaminated by nuclear DNA.
    Keywords:  DNA; Mitochondria; Mung bean; Percoll gradient; β-Actin
    DOI:  https://doi.org/10.1007/978-1-0716-0235-5_16
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