Editing Pathogenicity island

'''Pathogenicity islands''' ('''PAIs'''), as termed in 1990, are a distinct class of [[genomic island]]s acquired by [[microorganisms]] through [[horizontal gene transfer]].<ref>{{cite journal | last1 = Hacker | first1 = J | last2 = Bender | first2 = L | last3 = Ott | first3 = M | last4 = Wingender | first4 = J | last5 = Lund | first5 = B | display-authors = 3 | year = 1990 | title = Deletions of chro- mosomal regions coding for fimbriae and hemolysins occur in vivo and in vitro in various extraintestinal Escherichia coli iso- lates | journal = Microb. Pathog. | volume = 8 | issue = 3| pages = 213–25 | pmid = 1974320 | doi = 10.1016/0882-4010(90)90048-U }}</ref><ref name="Hacker_2000">{{cite journal |last1=Hacker |first1=J |last2=Kaper |first2=JB |year=2000 |title=Pathogenicity Islands and the Evolution of Microbes |journal=Annual Review of Microbiology |volume=54 |pages=641–679 |pmid=11018140 |doi=10.1146/annurev.micro.54.1.641 |s2cid=1945976 |issn=0066-4227}}</ref> Pathogenicity islands are found in both animal and plant pathogens.<ref name="Hacker_2000"/> Additionally, PAIs are found in both [[Gram-positive bacteria|gram-positive]] and [[gram-negative bacteria]].<ref name="Hacker_2000"/> They are transferred through horizontal gene transfer events such as transfer by a [[plasmid]], [[bacteriophage|phage]], or conjugative [[transposon]].<ref name="Hacker_1997">{{cite journal |last1=Hacker |first1=J. |last2=Blum-Oehler |first2=G. |last3=Muhldorfer |first3=I. |last4=Tschape |first4=H. |year=1997 |title=Pathogenecity islands of virulent bacteria: structure, function and impact on microbial evolution |journal=Molecular Microbiology |volume=23 |issue=6| pages=1089–1097 |doi=10.1046/j.1365-2958.1997.3101672.x |pmid=9106201 |s2cid=27524815 |doi-access=free}}</ref> Although the general makeup of pathogenicity islands (PAIs) might vary throughout bacterial pathogen strains, all PAIs are known to have characteristics with all genomic islands, which includes virulence genes, functional mobility elements, and areas of homology to tRNA genes and direct repeats.<ref name="Hacker_2000" /><ref>{{Cite journal |last1=Gal-Mor |first1=Ohad |last2=Finlay |first2=B. Brett |date=2006 |title=Pathogenicity islands: a molecular toolbox for bacterial virulence |journal=Cellular Microbiology |language=en |volume=8 |issue=11 |pages=1707–1719 |doi=10.1111/j.1462-5822.2006.00794.x |doi-access=free |pmid=16939533 |issn=1462-5822}}</ref> Therefore, PAIs enables microorganisms to induce disease and also contribute to microorganisms' ability to evolve. The spread of antibiotic resistance and, more generally, the conversion of non-pathogenic strains in natural environments to strains that infect animal and plant hosts with disease are two examples of the evolutionary and ecological changes brought about by the transmission and acquisition of PAIs among bacterial species.<ref name=":1" /> However, It is impossible to overlook their impact on bacterial evolution, though, since if a PAI is acquired and is stably absorbed, it can irreversibly change the [[bacterial genome]].<ref name="Hacker_2000" /><ref name="Hacker_1997" />

One species of bacteria may have more than one PAI. For example, ''Salmonella'' has at least five.<ref>{{Cite journal |last=Marcus |first=Sandra L. |last2=Brumell |first2=John H. |last3=Pfeifer |first3=Cheryl G. |last4=Finlay |first4=B. Brett |date=2000-02-01 |title=Salmonella pathogenicity islands: big virulence in small packages |url=https://linkinghub.elsevier.com/retrieve/pii/S1286457900002732 |journal=Microbes and Infection |volume=2 |issue=2 |pages=145–156 |doi=10.1016/S1286-4579(00)00273-2 |issn=1286-4579|url-access=subscription }}</ref> An analogous genomic structure in [[rhizobia]] is termed a ''[[symbiosis island]]''.

==Properties==
Pathogenicity islands (PAIs) are gene clusters incorporated in the [[genome]], chromosomally or extrachromosomally, of pathogenic organisms, but are usually absent from those [[nonpathogenic organisms]] of the same or closely related species.<ref name="Hacker_2000"/><ref name="Groisman_1996">{{cite journal | last1 = Groisman | first1 = EA. |name-list-style=vanc | year = 1996 | title = Pathogenicity Islands: Bacterial Evolution in Quantum Leaps | journal = Cell | volume = 87 | issue = 5| pages = 791–794 | doi=10.1016/s0092-8674(00)81985-6| pmid = 8945505 | s2cid = 173554 | doi-access = free }}</ref><ref>Kaper JB, Hacker J, eds. 1999. Pathogenicity Islands and Other Mobile Virulence Elements. Washington, DC: Am. Soc. Microbiol. 1-11.</ref> They may be located on a bacterial chromosome or may be transferred within a [[plasmid]] or can be found in bacteriophage genomes.<ref name="Hacker_2000"/> Every genomic island has the following characteristics; a [[GC-content|GC- content]] that differs from the surrounding DNA sequence, a connection with tRNA genes, the presence of repeats on both ends (flanking), and the capacity to recombine, which is usually shown by the presence of an [[integrase]].<ref name=":1" /> The GC-content and codon usage of pathogenicity islands often differs from that of the rest of the genome, potentially aiding in their detection within a given DNA sequence, unless the donor and recipient of the PAI have similar GC-content.<ref name="Hacker_2000"/>

The most basic kind of mobile genetic element is an [[Insertion sequence|insertion sequence (IS)]], which usually just has one or two [[open reading frame]]s that encode genes to make transposition easier.<ref name=":1" /> Sections inside the PAI may be rearranged or deleted with the use of IS components.<ref name="Hacker_2000" /> These changes encourages adaption and aid in the generation of alternative strains.<ref name=":1" /> PAIs also contain transposons, which are more sophisticated forms of IS elements. The majority are surrounded by brief terminal inverted repeats that serve as [[homologous recombination]] sites, enhancing a PAI's stability.<ref name=":1">{{Cite book |last1=Hallstrom |first1=Kelly N. |last2=McCormick |first2=Beth A. |chapter=Pathogenicity Islands: Origins, Structure, and Roles in Bacterial Pathogenesis |date=2015 |title=Molecular Medical Microbiology |pages=303–314 |publisher=Academic Press |language=en |doi=10.1016/b978-0-12-397169-2.00016-0 |isbn=978-0-12-397169-2}}</ref> Bacteriophage integrases also found on pathogenicity islands (PAIs) are enzymes produced by bacteriophages to enable site-specific recombination between two [[recognition sequence]]s, serving as another form of mobility element to enable PAIs insertion into host DNA.<ref name=":1" /> PAIs are often associated with [[tRNA]] genes, which target sites for this integration event.<ref name="Hacker_2000"/> Given that integration may result in tRNA truncation, it is probable that only non-essential tRNA loci found in multiple locations, or those possessing wobble capacity (the ability of a 5' base of a tRNA anticodon to mispair with the third base of an mRNA codon) can become common integration sites.<ref name="Hacker_2000" /> They can be transferred as a single unit to new bacterial cells, thus conferring virulence to formerly benign strains.<ref name="Groisman_1996"/>

Pathogenicity islands carry genes encoding one or more virulence factors, including, but not limited to, [[Bacterial adhesin|adhesin]]s, [[Bacterial secretion system|secretion systems]] (type III and IV secretion system), [[toxin]]s, [[invasin]]s, [[Phenol-soluble modulin|modulin]]s, [[effector (biology)|effector]]s, [[superantigens]], iron uptake systems, o-antigen synthesis, serum resistance, [[immunoglobulin A]] proteases, [[apoptosis]], [[Benign tumor|capsule]] synthesis, and plant tumorigenesis via ''[[Agrobacterium tumefaciens]]''.<ref name="Hacker_2000"/> Type III and type IV secretion systems, which are both expressed in Gram-negative bacteria, are the secretion systems most frequently linked to PAIs.<ref name=":1" /> The bacterial membranes contain the [[type III secretion system]] (T3SS), which functions essentially as a molecular syringe. The needle-like apparatus secretes effectors, which go from the bacterial cell to the host cell via the tip of the apparatus, creating a hole in the membrane of the host cell.<ref name=":1" />

There are various combinations of regulation involving pathogenicity islands. The first combination is that the pathogenicity island contains the genes to regulate the virulence genes encoded on the PAI.<ref name="Hacker_2000"/> The second combination is that the pathogenicity island contains the genes to regulate genes located outside of the pathogenicity island.<ref name="Hacker_2000"/> Additionally, regulatory genes outside of the PAI may regulate virulence genes in the pathogenicity island.<ref name="Hacker_2000"/> Regulation genes typically encoded on PAIs include AraC-like proteins and two-component response regulators.<ref name="Hacker_2000"/>

PAIs can be considered unstable DNA regions as they are susceptible to deletions or mobilization.<ref name="Hacker_2000"/> This may be due to the structure of PAIs, with direct repeats, insertion sequences and association with tRNA that enables deletion and mobilization at higher frequencies.<ref name="Hacker_1997"/> Additionally, deletions of pathogenicity islands inserted in the genome can result in disrupting tRNA and subsequently affect the metabolism of the cell.<ref name="Groisman_1996"/>

==Examples==
*The [[P fimbriae]] island contains virulence factors such as haemolysin, pili, cytotoxic necrosing factor, and uropathogenic specific protein (USP).<ref>Nakano M. et al. 2001 [http://onlinelibrary.wiley.com/doi/10.1111/j.1574-6968.2001.tb10927.x/pdf Structural and sequence diversity of the pathogenicity island of uropathogenic Escherichia coli which encodes the USP protein]</ref>
*''[[Yersinia pestis]]'' high pathogenicity island I has genes regulating iron uptake and storage.
*''[[Salmonella]]'' ''SP-1'' and ''SP-2'' sites regulates bacterium's invasion and survival within host cells.<ref name="Groisman_1996"/>
*''[[Rhodococcus equi]]'' virulence plasmid pathogenicity island encodes virulence factors for proliferation in macrophages.
*The [[SaPI]] family of ''Staphylococcus aureus'' pathogenicity islands, mobile genetic elements, encode [[superantigens]], including the gene for [[toxic shock syndrome]] toxin, and are mobilized at high frequencies by specific [[bacteriophage]]s.<ref>{{cite journal|last=Lindsay|first=JA|author2=Ruzin, A |author3=Ross, HF |author4=Kurepina, N |author5=Novick, RP |display-authors=3|title=The gene for toxic shock toxin is carried by a family of mobile pathogenicity islands in Staphylococcus aureus.|journal=Molecular Microbiology|date=Jul 1998|volume=29|issue=2|pages=527–43|pmid=9720870|doi=10.1046/j.1365-2958.1998.00947.x|s2cid=30680160|doi-access=free}}</ref>
*Phage encoded Cholera toxin of ''[[Vibrio cholerae]]'', Diphtheria toxin of ''[[Corynebacterium diphtheriae]]'', [[Neurotoxin]]s of ''[[Clostridium botulinum]]'' and Cytotoxin of ''[[Pseudomonas aeruginosa]]''.<ref name="Hacker_1997"/>
*''[[Helicobacter pylori]]'' has two strains, one being more virulent than the other due to the presence of the ''Cag'' pathogenicity island.<ref name="Hacker_1997"/>
*''[[Escherichia coli]]'' pathogenicity island carries genes of [[toxin]]s (e.g., [[Shiga toxin]]) in enterohemorrhagic ''E. coli'' (EHEC) strains.

==References==
{{Reflist}}

==External links==
*[https://web.archive.org/web/20051026231847/http://www.jenner.ac.uk/BacBix3/BACdef.htm BAC definition of pathogenicity]
{{Repeated sequence}}

[[Category:Genetics]]