Recombinase is a family of enzymes that catalyze site-specific recombination events within DNA.
Site-specific DNA recombination is a process in which DNA strands are broken into pieces and then recombined in different combinations of alleles (variant forms of genes), having some sequence similarity.
Site-specific recombinases rearrange DNA segments by first identifying and binding to specific or target sites at which they make the break, exchange the two segments, and then rejoin the strands.
In some site-specific recombination systems, recombinase enzymes are enough to carry out the process of recombination, however, in some others, several other accessory proteins are required to support the system.
The recombinase enzymes were first derived from fungi and bacteriophages (also known as phages) where it’s been involved in many cellular processes including replication, pathogenesis, differentiation, and mobile genetic element movement.
In multicellular organisms, the enzymes are used to modify/manipulate genome structure and control gene expression. They do so by activating four functional mechanisms, which include translocation, inversion, deletion/insertion, and cassette exchange.
Some well known and commonly studied examples of site-specific recombinases are:
It inverts 900 base pairs, containing a promoter for downstream flagellar genes, fljA, and fljB, within the bacterial genome that help in escaping host immune responses.
In this article, we will cover furthermore about the recombinase enzymes, including their types in organisms, functions, and in vitro lab applications.
Recombinases have multiple functional roles in different organisms. They are involved in genome manipulation, DNA amplification, site-specific and homologous recombination, and escaping host-immune response in bacterial species.
Many recombinases are known from eukaryotic and prokaryotic organisms that, along with other proteins, act on unique asymmetric DNA sequences and cause genetic manipulation. The recombination product depends on the orientation of these sequences.
The four basic functional mechanisms of recombinases that are involved in genetic manipulation include:
Site-specific recombination is also known as conservative site-specific recombination. It’s a process in which two DNA strands, having a certain degree of sequence homology, exchange segments.
Typically, the two sites between which the recombinase enzymes act and the recombination occur are identical. However, there are also some exceptions to this case, such as attP and attB of λ integrase.
The events that occur during the site-specific recombination process include:
Many genome engineering strategies rely on site-specific recombination, including recombinase-mediated cassette exchange (RMCE). It’s an efficient method for the targeted integration of DNA transcription units into specific genomic loci.
Site-specific recombinases have several applications in molecular biology and biochemistry labs to perform in vitro assays. It includes genetic manipulation or modification with specificity, cloning, recombinase polymerase amplification using PCR, site-directed fluorescence labeling, developing transgenic organisms, and studying the functional roles of genes in organisms.
There are several benefits offered by recombinase-mediated excision over traditional genomic engineering methods, which include:
Here’re some applications in which recombinases play an essential role:
For example, recombinases have been used in labs for targeted chromosomal integration, by identifying endogenous genome located recognition sites (or cryptic sites).
For example, phiC31 integrase (a type of recombinase enzyme) has been used to develop transgenic Xenopus laevis (African clawed frog) embryos. Moreover, the introduction of Cre recombinase RNA in mouse oocytes has been found to induce site-specific recombination of a transgene.
For example, Cre is used to fuse with estrogen hormone receptors, which are involved in inhibiting recombination events, to activate the auto-excision strategy.
Recombinases are grouped into two families based on their mechanism relatedness and active amino acid within a catalytic domain: serine recombinase family and tyrosine recombinase family.
It has tyrosine amino acid in the catalytic domain that’s involved in DNA attacks and strand exchange processes. The tyrosine recombinase is further divided into two other groups based on the factor if the members utilize identical or non-identical sites.
These recombinases have serine in their catalytic domain site. They are further categorized into two groups based on the size of the enzyme.
Figure: An illustration of recombinase superfamily and its members.
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Recombinases are a family of enzymes having functional roles in homologous and site-specific recombination. It’s an event in organisms that involve DNA breakage, strand exchange between homologous segments, and ligation of DNA segments using DNA ligase.
Recombinases are of two types based on common amino acids in the catalytic domain: serine and tyrosine recombinase. These enzymes have several roles in organisms ranging from replication, pathogenesis, to escape host immune responses.
Recombinases were first derived from phages and fungi, and today they are an integral part of genetic engineering applications in labs including genome modification through targeted integration or deletion of a gene segment.
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