5 Quick Facts on CRISPR-Cas9 technology- A simple RNA Guided Gene Editing Tool (Summary)

Fact 1: What is CRISPR-Cas9 technology?
  • Currently, CRISPR-Cas9 technology, an RNA guided genome editing system is the simplest, cheapest and the most versatile tool for efficient and precise genome editing. This remarkable technology is derived from microbial defense mechanism.
  • Using this technology we can precisely target desired genes at specific locations in a genome by cutting out the unwanted sequence and replace it with our desired gene or DNA segment.
Fact 2: Why this name, CRISPR-Cas9 technology?
CRISPR Cas9 natural mechanism in bacteria

  • CRISPR  (pronounced crisper) refers to Clustered Regularly Interspaced Short Palindromic Repeats or prokaryotic DNA segments with short repetition of base sequences and between these short repeats there is a spacer DNA derived from previous exposure to bacteriophage or plasmid
  • CRISPR-Cas9 is involved in prokaryotic defense mechanism preventing insertion of foreign DNA segments of bacteriophage and plasmids. Spacer DNA is derived from prior exposure, therefore provides a form of acquired immunity in bacteria. CRISPR-Cas9 plays a crucial role in microbial antiphage defense mechanism
Fact 3: The story of CRISPR-Cas9 technology
CRISPR-Cas9 technology timeline

  • The CRISPR story began in 1987. While studying the iap enzyme involved in isozyme conversion of alkaline phosphatase in E. coli, Nakata and colleagues reported a curious set of 29 nt repeats downstream of the iap gene which is quite different from other repetitive elements in prokaryotes.
Fact 4: How CRISPR-Cas9 works?
CRISPR-Cas9 technology mechanism

  • Two key molecules are involved in gene manipulation by CRISPR-Cas9.
  • Cas9, an endonuclease enzyme and a short segment of RNA called guide RNA or gRNA (sg RNA: single guide RNA or mgRNA: multiple guide RNA)
  • Cas9 is an RNA guided DNA endonuclease that serves as “molecular scissors” cutting double stranded DNA at specific locations.
  • The CRISPR nuclease Cas9 is targeted by a short guide RNA that recognizes the target DNA via Watson-Crick base pairing. This guide RNA sequence, CRISPR RNAs (crRNAs) is complementary to the phage sequence or plasmid sequence constituting the natural mechanism for CRISPR antiviral defense. Guide RNA will bind to the complementary phage sequence and cas 9 endonuclease degrade phage DNA or RNA thus preventing phage gene insertion. A small portion of  phage DNA is retained as spacer DNA to recognize the phage easily when it attacks next time. This guide RNA can be easily replaced by a sequence of interest to retarget the Cas9 nuclease.
  • In  type I CRISPR locus of Escherichia coli, CRISPR arrays are transcribed and converted into
  • small crRNAs containing individual spacers to guide Cas nuclease activity (crRNA-directed RNA cleavage activity)
  • The point is we can design guide RNAs to precisely target our desired genes to preferred locations within a genome using cas9.
  • Even multiple guide RNAs can also be used to target several genes at once.
Fact 5: Applications and future prospects?
CRISPR-Cas9 technology applications

  • Genome editing using CRISPR-Cas9 has been successfully carried out in a variety of species including human cell lines.
  • For example, Streptococcus pyogenes Cas9 (SpCas9) has been widely used to achieve efficient genome editing in a variety of species and cell types, including human cell lines, bacteria, zebra fish, yeast, mouse, fruit fly, roundworm, rat, common crops, pig, and monkey.
  • SpCas9 is also dramatically expanding the catalog of genetically tractable model organisms, for example, by enabling the introduction of multiplex mutations in cynomolgus monkeys.
Current research and future prospects
  • Improving CRISPR-Cas9 target recognition fidelity
  • CRISPR-based interference, or CRISPRi, works well in prokaryotic genomes but is less effective in eukaryotic cells. CRISPR based transcription repression or gene silencing needs to be further improved.
  • Development of versatile delivery and expression systems for applications of cas9
  • Cas9 as a therapeutic molecule for treating genetic disorders. For a monogenic recessive disorder due to loss-of-function mutations (such as cystic fibrosis, sickle-cell anemia, or Duchenne muscular dystrophy), Cas9 may be used to correct the causative mutation.
  • The multiplexing capabilities (introduction of many mutations simultaneously) of Cas9 offer a promising approach for studying common human diseases such as diabetes, heart disease, schizophrenia, and autism—that are typically polygenic.
  • Use of CRISPR-Cas9 technology for editing germ line cells is highly controversial. It is illegal and prohibited by law in most countries due to ethical reasons as germ line editing will be passed on from generation to generation. Anyway, gene editing in somatic cells is uncontroversial.
  1. Hsu, P. D., Lander, E. S., & Zhang, F. (2014). Development and applications of CRISPR-Cas9 for genome engineering. Cell157(6), 1262-1278. (Images from this review)
  2. Sander, J. D., & Joung, J. K. (2014). CRISPR-Cas systems for editing, regulating and targeting genomes. Nature biotechnology32(4), 347-355.

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