WikiJournal Preprints/Orientia tsutsugamushi, the agent of scrub typhus

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Author: Kholhring Lalchhandama Orcid icon.png , et al.

Lalchhandama, K; et al.. 


Orientia tsutsugamushi is a mite-borne bacterium belonging to the family Rickettsiaceae and is responsible for the disease scrub typhus in humans. It is an obligate intracellular parasite of Trombiculid mites, in which natural transmission is maintained from female to its eggs (transovarial transmission) and from the eggs to adults (transtadial transmission). With a genome of only 2.4–2.7 Mb, it has the most repeated DNA sequences among bacteria. It is transmitted by mite larvae (chiggers) to humans and rodents through accidental bite. Naosuke Hayashi first described it in 1920, giving the name Theileria tsutsugamushi, but renamed to Orientia tsutsugamushi in 1995, owing to its unique properties. Unlike other Gram-negative bacteria, its cell wall lacks lipophosphoglycan and peptidoglycan. It instead has a unique 56-kDa type-specific antigen (TSA56), which renders the bacterium to exist in many strains (sub-types) such as Karp, Gilliam, Kato, Shimokoshi, Kuroki, and Kawasaki. Primarily indicated by undifferentiated febrile illnesses, the infection can be complicated and often fatal. Diagnosis is difficult and requires laborious techniques such as Weil–Felix test, rapid immunochromatographic test, immunofluorescence assays, ELISA, or PCR. Eschar, if present on the skin, is a good indicator. One million infections are estimated to occur annually in the endemic region called Tsutsugamushi Triangle, which covers the Russian Far East in the north, Japan in the east, northern Australia in the south, and Afghanistan in the west. Antibiotics such as azithromycin and doxycycline are the main prescription drugs. There is no working vaccine.


Orientia tsutsugamushi.JPG

Figure 1 | A transmission electron micrograph of a mesothelial cell of a mouse containing numerous O. tsutsugamushi.
CDC, CC-BY 3.0

O. tsutsugamushi belongs to Gram-negative bacteria and is a permanent (obligate) parasite in mites. Within a single host cell, O. tsutsugamushi rapidy divides into many individuals as shown in Figure 1. A unicellular organism, it is rod shaped and measures 0.5 to 0.8 µm wide and 1.2 to 3.0 µm long. Due to similarity, it was initially categorised in the genus Rickettsia, but later assigned a separate genus, Orientia,[1] which it shares (so far) only with Candidatus Orientia chuto.[2] It is larger and broader, but shorter than other rickettsial bacteria. During reproduction, it divides (by binary fission) into two daughter cells by the process of budding. While undergoing budding, it accumulates on the host cell surface unlike other bacteria. One complete budding takes 9 to 18 hours.[3]

O. tsutsugamushi in U937 cells.tif

Figure 2 | O. tsutsugamushi in human (U937) cells. B = the bacteria; mp = microparticles formed by the outer cell wall leaflet.
Paris et al., 2012 CC-BY 3.0

The bacterium is enclosed by a cell wall on the outside and cell membrane on the inside (Figure 2). The cell covering take up stains such as Giemsa and Gimenez stains. Although its cell wall has a classic bacterial double layer, its outer leaflet is much thicker than the inner one, which is just the opposite in Rickettsia species.[4] A capsule layer that forms a spherical halo in other bacteria is missing. The cell wall is soft and tender due to the absence of peptidoglycan, which is otherwise characteristic of the rigid cell walls of other bacteria. Classic bacterial lipophosphoglycans such as muramic acid, glucosamine, hydroxy fatty acids, heptose, and 2-keto-3-deoxyoctonic acid are also absent in the cell wall. Due to the absence of peptidoglycan, the bacterium is naturally resistant to all β-lactam antibiotics (such as penicillin), to which Rickettsia species are normally sensitive to.[5] Its genome totally lacks the genes for lipophosphoglycan synthesis, but does contain those for peptidoglycan. In fact, peptidoglycan is synthesised in very small quantity that can hardly be detected and plays minor or no role in the cell wall. There are unique genes such as PBP1, alr, dapF, and murl, which are not known in other bacteria.[6] The cell membrane is also chemically different in its protein composition, and this difference gives rise to strain variations within the species itself.[7] The cytoplasm is clear and shows distinct DNA and ribosomes.

O. tsutsugamushi genomes.tif

Figure 3 | Genomes of O. tsutsugamushi strains.
Batty et al., 2017 CC-BY 3.0

The bacterium is highly virulent such that its isolation and cell culture are done only in a laboratory with biosafety level 3 facility. Unlike other bacteria which can easily grow on different culture media, it can be grown only in the yolk sacs of developing chicken embryos and in cultured cell lines such as HeLa, BHK, Vero, and L929 cell lines.[8] In contrast to Rickettsia species which reside in the nucleus of the host cell, it mostly grow within the cytoplasm of the host cell.[9] Genetically, it differs from other Rickettsia by only 9%.[10] Even though adaptation to obligate intracellular parasitism among bacteria generally results in reduced genome, it has a genome size of about 2.0–2.7 Mb depending on the strains (Figure 3), which is comparatively larger than those of other rickettsiales – two times larger than that of Rickettsia prowazekii,[11] the most well-known member. The entire genome is distributed in a single chromosome. Whole genome sequences are available only for Ikeda and Boryong strains, both from the Republic of Korea. The genome of Ikeda strain is 2,008,987 base pairs (bp) long, and contains 1,967 protein-coding genes.[12] The Boryong strain is larger with 2,127,051 bp and 2,179 protein-coding genes.[13]

Genome comparison shows only 657 core genes among the different strains.[14] With about 42-47% of repetitive sequences, O. tsutsugamushi has the most highly repeated bacterial genome sequenced so far.[15] The repeated DNA sequence includes short repetitive sequences, transposable elements (including insertion sequence elements, miniature inverted-repeat transposable elements, a Group II intron), and a greatly amplified integrative and conjugative element (ICE) called the rickettsial amplified genetic element (RAGE).[13] RAGE is also found in other rickettsial bacteria. In O. tsutsugamushi, however, RAGE contains a number of genes including tra genes typical of Type IV secretion systems and gene for ankyrin repeat–containing protein. Ankyrin repeat–containing proteins are secreted through a Type I secretion system into the host cell. The precise role of Type IV secretion system in O. tsutsugamushi is not known. It may be involved in horizontal gene transfer between the different strains.[16]

Life cycle and transmission[edit]


Figure 4 | Chigger with its feeding apparatus, the stylostome (arrowhead).
Walker, 2012 CC-BY 3.0

O. tsutsugamushi is naturally transmitted in the mite population belonging to the genus Leptotrombidium. It can be transmitted from female to its eggs through the process called transovarial transmission, and from the eggs to larvae and adults through the process of transtadial transmission. Thus, the bacterial life cycle is maintained entirely in mites. Infection to rodents and humans is an accidental transmission from the bite of mite larvae, and not required for reproduction or survival the bacterium. In fact, in rodents and humans the transmission is stopped, and the bacterium meets a dead end.[7]

In rodent and human infections, Leptotrombidium deliense is the most universal vector of O. tsutsugamushi. L. pallidum, L. fletcheri and L. scutellare are also carriers in many countries. In addition, L. akamushi is an endemic carrier in Japan, L. chiangraiensis and L. imphalum in Thailand, L. gaohuensis in China, and L. arenicola in Malaysia and Indonesia.[17] In parts of India, a different mite species, Schoengastiella ligula is also a major vector.[18] The third-stage larvae, commonly referred to as chiggers (Figure 4), are the only ectoparasitic stage feeding on the body fluids of rodents and other opportunistic mammals. Thus, they are the only stage in the life of mites that cause infection. Wild rats of the genus Rattus are the principal natural hosts of the chiggers.[19] Chiggers feed only once on a mammalian host. The feeding usually takes 2 to 4 days. In contrast to most parasites, they do not feed on blood, but instead on the body fluid through the hair follicles or skin pores. They possess a special feeding apparatus called stylostome on their heads. Their saliva can dissolve the host tissue around the feeding site, so that they ingest the liquefied tissue. O. tsutsugamushi is present in the salivary glands of mites and is released into the host tissue during this feeding.[20]

Cellular invasion[edit]

Orientia cell invasion.png

Figure 5 | Mechanism of cell invasion by O. tsutsugamushi.
Chhandama, 2018 CC-BY 3.0

O. tsutsugamushi initially attacks the myelocyte (young white blood cells) in the area of inoculation, and then the endothelial cells lining the vasculature. The process of cellular invasion is shown in Figure 5. In the blood circulation, it targets professional phagocytes (cell eaters white blood cells) such as dendritic cells and macrophages in all organs as the secondary targets. The parasite first attaches itself to the target cells using surface proteoglycans present on the host cell and bacterial surface proteins such as TSP56 (TSA56) and surface cell antigens (ScaA and ScaC).[21][22] These proteins interact with the host fibronectin to induce phagocytosis (the process of swallowing the bacterium). The ability to actually enter the host cell depends on integrin-mediated signaling and reorganisation of actin cytoskeleton.[23]

O. tsutsugamushi has a special adaptation for surviving in the host cell by evading the host immune reaction. Once it interacts with the host cells, it causes the host cell membrane to form a transportation bubble called a clathrin-coated vesicle by which it gets transported in the cytoplasm moves. Inside the cytoplasm, it makes an exit from the vesicle (now known as an endosome) before it is destroyed (in the process of cell-eating called autophagy) by the lysosome.[24] It then moves towards the nucleus, specifically at the perinuclear region, where it starts to grow and multiply. Unlike other closely related bacteria which use actin-mediated processes for movement in the cytoplasm (called intracellular trafficking or transport), O. tsutsugamushi is unusual in using microtubule-mediated processes similar to those employed by viruses such as adenoviruses and herpes simplex viruses. Further, the escape (exocytosis) from an infected host cell is also unusual. It forms another vesicle using the host cell membrane, gives rise to small bud, and releases itself from the host cell surface while still enclosed in the vesicle. The membrane-bound bacterium is formed by interaction between cholesterol-rich lipid rafts as well as HtrA, a 47-kDa protein on the bacterial surface.[25] However, the process of budding and importance of membrane-bound bacterium are not yet understood.


O. tsutsugamushi is a diverse species of bacteria. Ida A. Bengtson of the United States Public Health Services was the first to note the existence of different strains using antigen-antibody interaction (complement fixation test) in 1944.[26] He observed that different strains had varying degree of virulence, and that the blood sera having different strains could cross react. By 1946 he established that there were three principal strains (serotypes), namely Karp (from New Guinea), Gilliam (from India) and Seerangay (from British Malaya).[27] Akira Shishido discovered Kato strain, in addition to Gilliam and Karp, in Japan in 1958.[28] Since then six basic antigenic strains are recognised, namely Gilliam, Karp, Kato, Shimokoshi, Kawasaki, and Kuroki. Karp is the most abundant strain accounting for about 50% of all infections.[17] But in Korea, the major strain is Boryong.[29] So far, more than 30 different strains have been established in humans.[15] The number is much higher if the strains in rodents and mites are taken into account. For example, a study in Japan in 1994 reported 32 strains, 14 from human patients, 12 from wild rodents, and 6 from trombiculid mites. The different strains exert different levels of virulence, and the most virulent is KN-3, which is predominant among wild rodents.[30] Another study in 1996 reported 40 strains.[31] Genetic methods have revealed even greater complexity than had been previously described (for example, Gilliam is further divided into Gilliam and JG types). Due to immunological differences of the serotypes, simultaneous and repeated infection with different strains is possible.[32][33]

Antigenic variation[edit]

O. tsutsugamushi has four major surface-membrane proteins (antigens) having molecular weights 22 kDa, 47 kDa, 56 kDa and 110 kDa. A 56-kDa type specific antigen (TSA56) is the most important because it is not produced by any other bacteria, and is responsible for making the genetic diversity in different strains.[34] It accounts for about 10–15% of the total cell protein. The 22-kDa, 47-kDa or 110-kDa antigens are not normally detected by sophisticated diagnostic tests. But clinical tests easily detect the TSA56, making it the main target in diagnosis. [35] The protein assists the adhesion and entry of the bacterium into host cells, as well as evasion of the host's immune reaction. It varies in size from 516 to 540 amino acid residues between different strains, and its gene is about 1,550 base pairs long. It contains four hypervariable regions, indicating that it synthesise many antigenically different protein but of the same kind.[31] There are also 11-kDa and 60-kDa protein inside the bacterium which are very similar to GroES and GroEL of the bacterium Escherichia coli, but not that of Rickettsia species.[36] GroES and GroEL are heat shock proteins belonging to the family of molecular chaperones in bacteria. DNA analysis have shown that the GroES and GroEL genes are indeed present in O. tsutsugamushi with slight variation in different strain and they produce the 11-kDa and 60-kDa proteins.[37]


O. tsutsugamushi causes a complex and dangerous infection scrub typhus. Infection starts when chiggers bite on the skin during their feeding. The bacteria are deposited at the site of feeding (inoculation), where they multiply. They cause progressive tissue damage (necrosis). Necrosis progresses to inflammation of the blood vessels called vasculitis. This in turn causes inflammation of the lymph nodes, called lymphadenopathy. Within a few days, vasculitis extends to various organs including liver, brain, kidney, meninges and the lung.[38] The disease is responsible for nearly a quarter of all the febrile (high fever) illness in endemic areas. Mortality in severe case or due to improper treatment or misdiagnosis may be as high as 30-70%.[39] About 6% of infected people die untreated, and 1.4% of the patients die even with medical treatment. Moreover, death rate can be as high as 13% where medical treatment is not properly handled.[40] In cases of misdiagnosis and failure of treatment, systemic complications rapidly develop including acute respiratory distress syndrome, acute kidney failure, encephalitis, gastrointestinal bleeding, hepatitis, meningitis, myocarditis, pancreatitis, pneumonia, septic shock, subacute thyroiditis, and multi-organ dysfunctions.[41] Harmful symptoms involving multiple organ failure and neurological impairment are difficult to treat, and can be lifelong debilitation or directly fatal.[41] The central nervous system is often affected and result in various complications including cerebellitis, cranial nerve palsies , meningoencephalitis, plexopathy, transverse myelitis, neuroleptic malignant syndrome, and Guillan-Barré syndrome.[42] Death rates due to complications can be up to 14% in brain infections, and 24% with multiple organ failure.[40] It is the major cause of acute encephalitis syndrome in India, where viral infection Japanese encephalitis has been regarded as the main factor.[43]


Tsutsugamushi Triangle.tif

Figure 6 | Map showing the Tsutsugamushi Triangle.
Xu et al., 2017 CC-BY 3.0

The World Health Organization in 1999 stated that:

“Scrub typhus is probably one of the most underdiagnosed and underreported febrile illnesses requiring hospitalization in the region. The absence of definitive signs and symptoms combined with a general dependence upon serological tests make the differentiation of scrub typhus from other common febrile diseases such as murine typhus, typhoid fever and leptospirosis quite difficult.”[44]

Scrub typhus is historically endemic to the Asia-Pacific region covering the Russian Far East and Korea in the north to northern Australia in the south and Afghanistan in the west, including islands of the western Pacific Oceans such as Japan, Taiwan, Philippines, Papua New Guinea, Indonesia, Sri Lanka, and the Indian Subcontinent. This geographic region is popularly called the Tsutsugamushi Triangle as shown in Figure 6.[38] However, it has spread to Africa, Europe and South America.[45] One billion people are estimated to be at risk of infection at any moment and an average of one million cases occur every year in the Tsutsugamushi Triangle. In the absence of proper medical care, the case fatality rate can go beyond 30% to as high as 70% in some areas.[20] The burden of scrub typhus in rural areas of Asia is huge, accounting for up to 20% of febrile sickness in hospital, and seroprevalence (positive infection on blood test) over 50% of the population.[46] More than one-fifth of the population carry the bacterial antibodies, i.e., they had been infected, in endemic areas. South Korea has the highest level incidence (with its highest of 59.7 infection out of 100,000 people in 2013), followed by Japan, Thailand, and China at top of the list.[40]


O. tsutsugamushi infection can be treated with antibiotics such as azithromycin, chloramphenicol, doxycycline, rifampicin, roxithromycin, and tetracyclin. Doxycycline is the most commonly used and is considered as the drug of choice because of high efficacy and quick action. But in pregnant women and babies it is contraindicated, and azithromycin is the drug of choice. In Southeast Asia, where doxycycline and chloramphenicol resistance have been experienced, azithromycin is recommended for all patients.[47] A randomized controlled trial and systematic review showed that azithromycin is the safest medication.[48][49]



Scrub typhus eschar.tif

Figure 6 | Eschar due to O. tsutsugamushi infection on the shoulder (a, b) of a woman and on the penis (c, d) of a man.
Le Viet et al., 2017 CC-BY 3.0

The main symptom of O. tsutsugamushi infection is high (febrile) fever; however, the symptom is not unique and is similar to a group of acute undifferentiated fever, which includes those of malaria, leptospirosis, typhoid, murine typhus, chikungunya, and dengue fever.[50][51] This makes precise clinical diagnosis difficult, which often leads to misdiagnosis. The initial indications are fever with chills, associated with headache, muscle pain (myalgia), sweating and vomiting. The appearance of symptoms ( the incubation period) takes between 6 and 21 days.[38] A useful diagnosis is the presence of an inflamed scar-like scab called eschar, which is regarded as "the most useful diagnostic clue in patients with acute febrile illness". Eschar is formed on the skin where an infected mite bit, usually seen in the armpit, groin or any abdominal area (Figure 7). In rare cases, it can be seen on the cheek, ear lobe and dorsum of the feet.[52] But the problem is that eschar is not always present. At the highest record, only 55% of scrub typhus patients had eschar during an outbreak in south India.[53] Also that eschar is not specific to scrub typhus, as other rickettsial diseases such as Rocky Mountain spotted fever,[54] Brazilian spotted fever,[55] and Indian tick typhus.[56][57] Using DNA analysis by advanced polymerase chain reaction, different rickettsial infection can be identified from eschars.[58][59]

Blood test[edit]

O. tsutsugamushi is most often detected from blood serum using Weil–Felix test. Weil–Felix test is the most simple and rapid test, but it is not sensitive and specific as it detects any kind of rickettsial infection. More sensitive tests such as rapid immunochromatographic test (RICT), immunofluorescence assays (IFA), ELISA, and DNA analysis using polymerase chain reaction (PCR) are used.[19][8] IFA is regarded as the gold standard test, as it gives reliable result. However, it is expensive and not specific for different rickettsial bacteria.[60] ELISA and PCR can detect O. tsutsugamushi-specific proteins such as the TSA56 and GroEL so that they are highly specific and sensitive.[61] On the other hand, they are highly sophisticated and expensive techniques.


No licensed O. tsutsugamushi vaccines are currently available. The first vaccines were developed in the late 1940s, but failed in the clinical trials.[62][63] Considered an ideal target, the unique TSA56 itself is highly variable in its chemical composition in different strains. An effective vaccine for one strain is not useful for another. An ideal vaccine should give protection to all the strains present locally. This complexity makes it difficult to produce a usable vaccine.[64] A vaccine targeting the 47-kDa outer membrane protein (OMP) is a promising candidate with experimental success in mice against Boryong strain.[65] Combined targetting of TSA56 and ScaA is also a good candidate for mixed-strain infection.[22]


There is no complete immunity to O. tsutsugamushi infection. Enormous antigenic variation among O. tsutsugamushi strains makes the immune system unable to fully recognise them. An infected individual may develop a short-term immunity but that disappears after a few month, and immunity to one strain does not confer immunity to another.[64] An immunisation experiment was done in 1950 in which 16 volunteers still developed the infection after 11–25 months of primary infection.[66] It is now known that the longevity of immunity depends on the strains of the bacterium. When reinfection occurs with the same strain as the previous infection, there can be immunity for 5–6 years in monkeys.[67] But in humans, immunity declines after one year, and is lost by two years.[68]


The earliest record of O. tsutsugamushi infection was in the 3rd century (313 CE) in China.[69] Japanese were also familiar with the link between the infection and mites for centuries. They gave several names such as shima-mushi, akamushi (red mite) or kedani (hairy mite) disease of northern Japan, and most popularly as tsutsugamushi (from tsutsuga meaning fever or harm or illness, and mushi meaning bug or insect). Japanese physician Hakuju Hashimoto gave the first medical account from Niigata Prefecture in 1810. He recorded the prevalence of infection along the banks of the upper tributaries of Shinano River.[70] The first report to the Western world was made by Theobald Adrian Palm, a physician of the Edinburgh Medical Missionary Society at Niigata in 1878. Describing his first-hand experience, Palm wrote:

Last summer [i.e. 1877], I had the opportunity of observing a disease which, so far as I know, is peculiar to Japan, and has not yet been, described. It occurs, moreover, in certain well-marked districts, and at a particular season of the year, so that the opportunities of investigating it do not often occur. It is known here as the shima-mushi, or island-insect disease, and is so-named from the belief that it is caused by the bite or sting of some insect peculiar to certain islands in the river known as Shinagawa, which empties itself into the sea at Niigata.[71]

The aetiology of the disease was never apparent. In 1908 a mite theory of the transmission of tsutsugamushi disease was postulated by Taichi Kitashima and Mikinosuke Miyajima.[72] In 1915 a British zoologist Stanley Hirst suggested that the larvae of mite Microtrombidium akamushi (later renamed Leptotrombidium akamushi) which he found on the ears of field mice could carry and transmit the infection.[73] In 1917 Mataro Nagayo and colleagues gave the first complete description of the developmental stages such as egg, nymph, larva, and adult of the mite; and also asserted that only the larvae bites mammals, and are thus the only carriers of the parasites.[74] But then the actual infectious agent was not known, and it was generally attributed to either a virus or a protozoan.[75]

The causative pathogen was first identified by Naosuke Hayashi in 1920. Confident that the organism was a protozoan, Hayashi concluded, stating, "I have reached the conclusion that the virus of the disease is the species of Piroplasma [protozoan] in question... I consider the organism in Tsutsugamushi disease as a hitherto undescribed species, and at the suggestion of Dr. Henry B. Ward designate it as Theileria tsutsugamushi." [76] Discovering the similarities with the bacterium R. prowazekii, Mataro Nagayo and colleagues gave a new classification with the name Rickettsia orientalis in 1930.[77][78] (R. prowazekii is a causative bacterium of epidemic typhus first discovered by American physicians Howard Taylor Ricketts and Russell M. Wilder in 1910; and described by a Brazilian physician Henrique da Rocha Lima in 1916.[79])

The taxonomic confusion worsened. In 1931 Norio Ogata gave the name Rickettsia tsutsugamushi,[80] while Rinya Kawamüra and Yoso Imagawa independently introduced the name Rickettsia akamushi.[81] Kawamüra and Imagawa discovered that the bacteria are stored in the salivary glands of mites, and that mites feed on body (lymph) fluid, thereby establishing the fact that mites transmit the parasites during feeding.[82]

For more than 60 years there was no consensus on the choice of name – both R. orientalis and R. tsutsugamushi were equally used. Akira Tamura and colleagues reported in 1991 the structural differences of the bacterium from Rickettsia species that warranted separate genus, and proposed the name Orientia tsutsugamushi.[9] Finally in 1995, they made a new classification based on the morphological and biochemical properties, formally creating the new name O. tsutsugamushi.[1]


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