Microbiology Conditions Flashcards

1
Q

What are the 5 viruses that cause hepatitis?

A

Hepatitis A (HAV) - RNA
Hepatitis B (HBV) - DNA
Hepatitis C (HCV) - RNA
Hepatitis D (HDV) - RNA
Hepatitis E (HEV) - RNA

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2
Q

How are hepatitis A and E transmitted?

A

Via Faecal-oral transmission

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3
Q

How are hepatitis B,C and D transmitted?

A

Blood to blood transmission

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4
Q

What is acute hepatitis?
What Hepatitis viruses cause acute hepatitis?

A

A sudden illnesss with a mild to severe course followed by complete resolution

All hepatitis Viruses

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5
Q

What is chronic hepatitis
What Hepatitis viruses cause acute hepatitis?

A

A prolonged course of active disease or silent asymptomatic infection.

HBV, HCV, HDV

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6
Q

Outline Acute hepatitis

A

Variable incubation period
-Systemic symptoms first:
-**Fatigue, low-grade fever, muscle/joint aches, cough, runny nose, and
pharyngitis. **

Jaundice (1-2 weeks after infection)

LFTs (rise through hepatocyte death from virus)
**ALT and AST to elevate to very high **
levels, while GGT, ALP, and bilirubin are only mildly elevated

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7
Q

Outline Chronic Hepatitis

A

More difficult to Diagnose
Patient is often asymptomatic
Clinical manifestations arethe same regardlesss of virus causing hepatitis.

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8
Q

Describe the transmission of hepatitis A

A

Ingesting contaminated drinking water or food

Close person to person contact

Often infects young children

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9
Q

What is the pathogenesis of HAV?

A

-Initial immune response consists IgM antibody; important in the laboratory
diagnosis of hepatitis A.
-1 to 3 weeks later IgG antibody is produced→ lifelong protection

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10
Q

What are the clinical findings of HAV?

A

Incubation of 3-4 weeks
Fever, anorexia, nausea, vomiting and jaundice
Dark urine, pale faeces, elevated ALT and AST.
Cases often resolve spontaneously in 2-4 weeks.

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11
Q

What Ix are required for HAV diagnosis?

A

LFTs: High AST and ALT.
Bilirubin and ALP usually only mild.

Serology - Detection of anti-HAV IgM confirms the diagnosis and remails for 3-6 months.

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12
Q

What is the treatment for HAV infection?

A

Acute Infection:
Symptomatic treatment (avoid paracetamol)

Fulminant Hepatitis:
Supportive therapy - consider liver transplanation

Pre-exposure prophylaxis - Vaccination

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13
Q

What is Hepatitis B virus?

A

DNA virus that lives in all human body fluids in an infected individual.

Semen, urine, saliva, blood, breast milk

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14
Q

What are HBV 3 main antigens?

A

HBsAg - surface antigen - required for lab diagnosis and immunity

HBcAg - Core antigen

HbeAg - e Antigen - indicator of transmissibiility

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15
Q

How can HBV be transmitted and give examples?

A

Blood to blood transmission - parenteral transmission.

Needle sharing, accidental medical exposures, sexual contact Blood transfusions

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16
Q

Where is HBV prevalent

A

ASIA

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17
Q

How does HBV present?

A

3 clinical states:
Acute hepatitis

Fulminant hepatitis - severe acute hepatitis with rapid destruction of the liver

Chronic Hepatitis

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18
Q

How do you diagnose HBV infection?

A

HBsAg antigen means there is LIVE virus and infection.

Anti - HBsAg antibodies - patient is protected and immune

HBcAg - antibodies are not protective but can be used to understand length of infection.

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19
Q

What are the complications of HBV infection?

A

HDV co-infection

Hepatocellular carcinoma
End-stage liver disease/cirrhosis

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20
Q

What is Hepatitis C virus

A

RNA virus
Incubation period 6-12 weeks

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21
Q

What is the clinical signs of HCV infection?

A

Acute infection is usually asymptomatic - some patients will present with classic acute hepatitis symptoms

Up to 85% of patients of HCV will develop chronic hepatitis

HCV strongly predisposes HCC.

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22
Q

Outline HCV transmission

A

Blood-to-blood contact via blood transfusions, injecting drug use, nosocomial (needle sticks, dialysis, inadequate sterilisation of colonoscopes

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23
Q

What is the most common indication for liver transplantation?

A

Liver cirrhosis resulting from chronic HCV infection

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24
Q

What comorbidities arise with HCV infection?

A

HCV infection can lead to significant autoimmune reactions:
vasculitis, arthralgias, purpura, membranoproliferative glomerulonephritis

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25
How is HCV diagnosed?
Testing for antiHCV antibodies (detectable within 6-8 weeks after exposure and remain positive thereafter) Measure HCV viral RNA An ELISA antibody test for detectable viral RNA is positive for at least 6 months.
26
What is the treatment for HCV infection
Acute HCV infection - pegINF alpha decreases the number of patients who become chronic carriers. Patients with chronic HCV - reduce or eliminate alcohol consumption to reduce HCC or cirrhosis risk. Chronic HCV treatment is direct-acting antivirals (DAAs) No vaccine currently exists.
27
What is Hepatitis D virus?
An RNA virus It is a defetive virus an it cannot replicate itself due to not having the genes to envelop protein. HDV can only be replicated in cells co-infected with HBV. HDV uses HBsAg to evelope its protein.
28
Outline the transmission of HDV?
Transmitted in the same way as HBV Coinfection of HBV and HDV is more severe than those infected with HBV alone.
29
What is the presentation of a HDV infection?
Can range from asymptomatic to fulminant liver failure Simultaneous co-infection with HBV/HDV - causes acute hepatitis. HDV superinfection of a carrier of HBV can cause liver flare.
30
What diagnostic tests are required for HDV infection?
Detecting delta antigen or IgM antibody against delta antigen in the patient's serum.
31
What is the treatment for HDV infection?
PegINF alpha can mitigate chronic effects but does not eradicate the carrier state. no vaccine against HDV but a person immunized against HBV will not get HDV infection.
32
What is Hepatitis E infection?
RNA virus similar to HAV.
33
How is HEV transmitted?
Via the faecal oral route Waterborne transmission is most common.
34
What is the clinical presentation of HEV infection?
Clinically similar to HAV infection. Chronic infection can be caused in immunocompromised individuals.
35
How is HEV diagnosed?
Detecting IgM antibodies to HEV.
36
What is the treatment to HEV infection?
No antiviral drug available for acute infection in immunocompetent patients. Treatment is supportive.
37
How can diarrhoea present?
It can be acute (lasting 2 weeks) or chronic (persisting for > 4 weeks)
38
What are the 2 classifications of acute diarrhoea?
Noninflammatory (watery, non-blood) Inflammatory (bloody - dysentery)
39
What most commonly causes acute diarrhoea?
Infections in the small intestine (where the majority of the fluid is normally absorbed)
40
What is the pathophysiology of Diarrhoea?
Pathogens secrete exotoxins directly into food or into the body (enterotoxins) to disrupt the intestinal homeostasis and cause mucosal damage.
41
What pathogens can produce preformed exotoxins?
Staphylococcus aureus Bacillus cereus Clostridium perfringens
42
What pathogens cause non-inflammatory acute diarrhoea by enterotoxin production?
Enterotoxigenic Escherichia coli (ETEC) Vibrio cholerae
43
What pathogens cause acute inflammatory diarrhoea?
Salmonella, shigella, campylocbacter Shiga-toxin producing E.coli (STEC)
44
What causes pseudomembranous colitis and what can predispose this condition?
Clostridium difficile Predisposed by antibiotic use
45
What are the risk factors for developing diarrhoea?
PPIs (reducing gastric acid levels) Travel to developing countries Antibiotic treatment Immunosuppressed patients.
46
What is the presentation of diarhoea?
Symptoms tend to begin 6 hours after ingestion of suspected contaminated food. diarrhoea urgency abdominal bloating cramping
47
What are the signs of acute inflammatory diarrhoea
Blood and pus in the stool fever
48
What other systemic effects may be present in someone with diarrhoea
dehydration tachycardia orthostatic hypotension
49
What kind of diarrhoea is caused by Staphylococcus aureas. What is the presentation and Tx
Acute noninflammatory Vomiting, epigastric pain diarrhoea Tx - supportive care fluids and electrolytes Within 6 hours of eating uncooked meat or diary.
50
What kind of diarrhoea is caused by ETEC. What is the presentation and Tx?
Acute noninflammatory Watery diarrhoea Tx is ciprofloxacin (this is traveller's diarrhoea)
51
What kind of diarrhoea is caused by Listeria monocytogenes? What is the presentation and Tx?
Febrile diarrhoea Tx is supportive caused by eating cheese, raw veggies and cold food.
52
What kind of diarrhoea is caused by vibrio cholerae? What is the presentation and Tx?
Acute - noninflammatory Severe watery diarrhoea (loss of volume) Tx is supportive care and rehydration therapy. Rice water stool
53
What kind of diarrhoea is caused by norovirus? What is the presentation and Tx?
Acute noninflammatory Vomiting, headache and diarrhoea Tx is supportive care. Typically infected on cruise ships and nursing homes.
54
What kind of diarrhoea is caused by STEC? What is the Px, Dx and Tx?
Px: acute inflammatory diarrheoa bloody and abdominal pain Dx: Stool cultures grow e.coli Tx. none - do not give children antibiotics as this can cause HUS
55
What kind of diarrhoea is caused by shigella? What is the Px, Dx and Tx?
Px: inflammatory diarrhoea with blood and pus Dx: stool culture Tx: Ciprofloxacin
56
What kind of diarrhoea is caused by Salmonella? What is the Px, Dx and Tx?
Inflammatory diarrhoea with blood and fever Dx: Stool culture Tx: ciprofloxacin Caused by undercooked eggs, raw veggies, undercooked poultry
57
What kind of diarrhoea is caused by campylobacter jejuni? What is the Px, Dx and Tx?
Inflammatory diarrhoea Fever Dx: Stool culutre Tx: Azithromycin or ciprofloxacin
58
What kind of diarrhoea is caused by C.difficle? What is the Px, Dx and Tx?
Inflammatory bloody diarrhoea, Fever Dx: Stool culture, colonoscopy - pseudomembranous colitis Tx: Metronidazole Associated with antibiotic use especially in hospitals
59
What is cellulitis?
An infection caused by bacteria getting into the deeper layers of skin such as the dermis or subcutaneous fat. It is caused by a break in the normal skin integrity.
60
What are the common sites where cellulitis occurs?
Legs face arms
61
What are the risk factors for developing cellulitis?
Skin wounds diabetes bites elderly swollen legs immunosuppression
62
What causative organisms can cause cellulitis
Beta-haemolytic streptococci (S.pyogenes, sS. agalactiae) S.aureus.
63
What is the presentation of cellulitis?
Symptoms spread quickly: Erythema - tracking occurs along lymphatics Pain, swelling and warm to touch. Associated wounds - ulcers, bite marks, injection site
64
What is the diagnosis of cellulitis?
Usually clinical diagnosis
65
What is the treatment of cellulitis?
Elevate and mobilise limb wash out wonds empiric treatment with IV flucloxacillin or clindamycin. Vancomycin for MRSA cellulitis.
66
What is necrotising fasciitis?
A necrotising infection of the deep structures of the skin including the underlying fascia
67
What are the causes of necrotising fasciitis?
break in the skin caused by trauma or surgery passage of organisms to deeper structures infection of the fascial layer resulting in thrombosis of vascular supply manifests as necrosis can spread to superficial layers of the skin
68
What pathogens cause necrotising fasciitis?
Type I: aerobic and anaerobic organisms Type II: due to streptococcus pyogenes, clostridium perfringens
69
What is the clinical presentation of necrotising fasciitis?
-Erythema, warmth, and tenderness; pain out of proportion of the examination findings. -Skin changes often spread and progress very quickly -Followed by evidence of skin hypoperfusion, blue-gray coloring, bullae, loss of sensation -Crepitus may be felt. -Signs and symptoms of systemic infection and/or sepsis -Fournier’s gangrene is a form of necrotizing fasciitis that affects the male genitals and is usually polymicrobial.
70
What is the diagnosis of necrotising fasciitis?
Surgery - clinical diagnosis confirmed by surgical exploration Tissues appear swollen, easy separation of tissue planes by blunt dissection Microbiology - surgical samples sent for gram stain and culture.
71
What is the treatment for necrotising fasciitis?
Emergency surgical exploration and debridement Empirical therapy - broad antibiotics (piperacillin), clindamycin S.pyogenes - penicillin and clindamycin
72
What is appedicitis?
Inflammation of the appendix caused by an obstruction which cna lead to bacterial overgrowth and then infection and inflammation!
73
What is a complication of appedicitis?
If the appendix becomes necrosed it can perforate and lead to diffuse peritonitis
74
What pathogens are responsible for causing appedicitis?
Colonic flora: E. coli, peptostreptococcus, bacteriodes fragillis, pseudomonas
75
What is the presentation of appendicitis?
Abdominal pain - periumbilical pain migrating to the right lower quadrant. Anorexia, nausea, vomiting Potentially low grade fever and leukocytosis
76
How is appendicitis diagnosed?
Clinical presentation of appendicitis Confirmed by CT or ultrasound
77
What is the treatment of appendicitis?
Surgical (usually) - an appendectomy Some cases can be managed by antibiotics (metronidazole, cefoxitin) but there is a risk of recurrence
78
What is diverticulitis?
Inflammation of the diverticula (diverticula is a sac like protrusion of the colonic wall usually in the sigmoid colon)
79
What is a complication of diverticulitis?
Perforation of the diverticulum leading to abscess formation and peritonitis
80
What can cause diverticula?
Low fibre diet constipation obesity
81
What is acute diverticulitis and who typically is at risk?
Inflammation of the diverticula Common in the elderly and those with extensive disease
82
What is complicated diverticulitis?
Acute diverticulitis with one of the following complications: Abscess colovesical or colovaginal fistula perforation obstruction
83
What pathogens are typically involved in diverticulitis?
Bowel flora: B.fragillis E.coli
84
What is the presentation of diverticulitis?
Dull aching and pain in the left lower quadrant of the abdomen Diarrhoea or constipation may be present Nausea and vomiting. if perforated then diffuse abdominal pain
85
How is diverticulitis diagnosed?
Clinical Hx Confirmed by abdominal CT scan or ultrasound WCC (White cell count) is elevated
86
What is the treatment for acute and complicated diverticulitis?
Acute: Co-amoxiclav, ciprofloxacin + Metronidazole Complicated: Piperacillin-tazobactam
87
What is osteomyelitis?
Infection of the bone and or bone marrow. It can occur as a result of haematogenous seeding, contiguous spread from nearby tissue or traumatic or surgical introduction of an organism.
88
Who can get osteomyelitis?
More common in children than adults but can be seen in both. Can be acute or chronic (elderly)
89
What pathogens can cause osteomyelitis and in what context?
Most common - S.aureus IVD users - Pseudomonas, E.coli Sickle cell Patients - salmonella Hip or knee prosthesis patients - S. epidermidis
90
What is the presentation of osteomyelitis?
Pain around the affected region. swelling, tenderness, warmth erythema Systemic signs Chronic osteomyelitis can have sinus tracts or ulcers (diabetics)
91
What Ix are required for a diagnosis of osteomyelitis?
Suspected clinically Dx - confirmed by radiological and microbiological findings Ix: Blood tests - raised WCC, raised inflammatory markers (ESR, CRP) CT/MRI - sensitive but expensive Bone/percutaneous biopsy should be taken
92
What is the Tx for osteomyelitis?
Surgical debridement and antibiotic therapy combination. Antibiotics: flucloxacillin, fusidic acid, or vancomycin.
93
What is septic arthritis?
Infectious arthritis is an infection of the joints
94
What is the pathophysiology of septic arthritis?
Organisms reach the joint via the bloodstream from a skin site. Organisms can enter joints through penetrating trauma, medical procedures or contiguous osteomyelitis
95
What are the risk factors for septic arthritis?
elderly - >80yrs Diabetes Mellitus RA Prosthetic joint recent joint surgery skin infections or ulcers. Intra-articular corticosteroid infection. Injection drug use alcoholism
96
What pathogens are usually responsible for septic arthritis?
S.aureas N.gonorrhoeae (in sexually active adults) S.epidermidis in prosthesis IVD users - P.aeruginosa
97
What is the Px of septic arthritis?
Acute onset inflamed joint - usually hip or knee Fever is often present Joint is red, warm swollen and painful reluctant movement of joint
98
What Ix confirm a diagnosis of septic arthritis?
Raised WCC Raised inflammatory markers (ESR, CRP) Synovial fluid is cloudy and has at least 20,000 neutrophils/ul with a low glucose conc ultrasound shows effusion CT/MRI - sensitive but expensive
99
What is the treatment of septic arthritis?
Drainage of the joint urgently remove prosthetics Antibiotics - flucloxacillin, vancomycin Vancomycin - S.aureus Ceftriaxone - N.gonorrhoeae
100
What is chlamydia?
The most common bacterial STI
101
What pathogen causes chlamydia?
Chlamydia Trachomatis
102
What is the presentation of chlamydia?
Majority are Asymptomatic - 70% of women and 50% of men Men - urethritis, testicular pain Women - Vaginal discharge, post coital bleeding, intermenstrual bleeding, pelvic pain
103
What can be some complications of chlamydia?
Pelvic inflammatory disease infertility reactive arthritis epididymo-orchitis
104
What is the Dx of chlamydia?
NAAT (nucleic acid amplification tests) are the most sensitive and specific test for C.trachomatis. Vaginal swabs, urethral swabs, first catch urine sample.
105
What is the Tx for Chlamydia?
Avoid intercourse until Tx is finished screen for other STIs Antibiotics: doxycycline, Azithromycin Contact trace
106
What is gonorrhoea?
Second commonest STI in the UK. Many women are asymptomatic and act as a reservoir of infection.
107
What pathogen causes gonorrhoea?
Neisseria gonorrhoea
108
What is the presentation of gonorrhoea?
Asymptomatic Men - urethritis, puruplent discharge and dysuria Women - pelvic pain, vaginal dischage, itch and dysuria
109
What Ix are required for a Dx of gonorrhoea?
NAATs Microscopy shows gram-negative diplococci
110
What is the Treatment of gonorrhoea?
Antibiotics First line is ceftriaxone and azithromycin
111
What is viral meningitis?
Most common form of meningitis which is often mild and usually is resolved with a full recovery
112
What pathogens cause viral meningitis?
enteroviruses Herpes simplex virus Mumps
113
What is the Px of viral meningitis?
Influenza like illness followed by meningism (stiff neck, headache and photophobia) Fever and nonspecific signs
114
What is the Dx of viral meningitis?
Lumbar puncture CSF microscopy, PCR lymphocytosis with normal protein and glucose levels viral culture
115
What is the Tx for viral meningitis?
No specific antiviral therapy Supportive treatment: antipyretics, hydration and analgesics Acyclovir for HSV meningitis
116
What is bacterial meningitis
Upper respiratory tract infection that can be very severe and result in other defects such as neurological deficits.
117
What pathogens cause bacterial meningitis?
Neisseria meningitidis - most common in young adults (students) Streptococcus pneumoniae - most common in the young (<2yrs) and elderly
118
How is N.meningitidis spread?
Through droplets or the bloodstream if it is meningococcal menignitis
119
What is the Px of bacterial meningitis?
Rapid onset headache, fever, meningism Signs of cerebral dysfunction (confusion, delirium, falling consciousness) seizures focal neurological deficits - CN palsies papilledema Non-blanching rash with meningococcal septicemia if bacteria spills into the blood.
120
What is the Dx of bacterial meningitis?
Blood culture performed urgently lumbar puncture unless contraindicated: Low glucose, increased protein, cloudy fluid, and raised neutrophils. Perform culture on CSF Kernigs and budzinskis sign.
121
What is the treatment of bacterial meningitis?
Benzylpenicillin or cefotaxime Vancomycin if suspected strep resistance steroids
122
What is malaria?
A serious disease caused by the P.falcioarum bacteria spread via a bite of the female anopheles mosquito.
123
What pathogens cause malaria?
P.falciparum - 80% of cases and has the highest mortality P.vivax and P.ovale - similar but much milder infections P.malariae - rarely causes acute illnes P.knowlesi
124
What is the pathogenesis of malaria?
Sporozoites travel through the blood stream and entre hepatocytes where they cause rupture and release merozoites into the blood stream to invade RBCs
125
What is the Px of malaria?
Fever and sweats - cyclical Anaemia - erythrocyte haemolysis hepatosplenomegaly
126
What are some complications of malaria infection?
Cerebral malaria jaundice kidney injury acidosis
127
What is the Dx of malaria?
Thick and thin blood smears - stained with fields or geimsa stain. Laboratory findings - haemolytic anaemia, thrombocytopenia, uraemia, hyperbilirubinaemia, abnormal LFTs and coagulopathy
128
What is the Tx for malaria?
Quinolone derivatives - chloroquine, quinine Antifolates - pyrimethamine, sulfonomides Ribosomal inhibitors - tetracycline, doxycycline, clindamycin Supportive therapy
129
What is Tuberculosis?
A serious bacterial infection that mainly affects the lungs caused by Mycobacterium tuberculosis.
130
What pathogen causes TB?
Mycobacterial tuberculosis
131
What percentage of the worlds population is infected with TB?
1/3
132
How are TB infections usually spread?
By inhalation of droplet nuceli which are aerosolised by coughing or sneezing. these dry in the air and can remain suspended for long periods of time.
133
What is the pathogenesis of primary TB?
Inhalation of M.TB resulting in mild acute inflammatory reaction in the lung parenchyma Alveolar macrophages phagocytose the bacilli Bacilli survive and multiply within the phagocytes and are carried to the hilar lymph nodes which then enlarge. Local lesions (granulomas) form (epithelial cells and giant cells) These eventually undergo caseous necrosis. The immune system kills the bacteria and the lesion becomes fibrotic and calcified (in some cases the granuloma is made but the TB is not killed and can lie dormant leading to latent TB) In some patients the microorganism can spread locally and via the blood to other organs leading to widespread disease (miliary TB)
134
How does secondary TB occur?
Dormant M.TB may reactivate often in the lung apex or in other organs such as the kidney and bone. A patient may also become re-infected after further exposure.
135
What is the presentation of TB?
Fever and night sweats. Pleuritic chest pain - dyspnoea Cough - can be with or without blood fatigue, arthralgia and weight loss.
136
What Ix are required for a Dx of TB?
Sputum smear microscopy - Zn stain shows AFB (acid fast bacilli) mycobacterial culture Chest X-ray shows nodules Elevated ESR and CRP anaemia TB skin test (mantoux test) shows latent TB.
137
What is the Tx for TB?
2 month initiation phase with 4 drugs: Rifampicin, isoniazid, pyrazinamide, ethambutol Followed by a 4 month continuation phase with 2 drugs: rifampicin and isoniazid
138
What is pneumonia?
An infection of the lungs that primarily affects the alveoli
139
What are the different classifications of pneumonia?
Community-acquired pneumonia Hospital-acquired pneumonia Pneumonia in immunocompromised individuals aspiration pneumonia
140
What are the risk factors for pneumonia?
extremes of age smoking COPD diabetes CVD severe intercurrent illness recent intubation immunosuppression
141
What pathogens can cause TB?
Mycoplasma pneumoniae H.influenza Streptococcus pneumoniae. Respiratory syncytial virus - common cause in young children.
142
What is the presentation of pneumonia?
Sudden onset chills, fever, cough, mucopurulent sputum, pleuritic chest pain, fatigue, anorexia and sweats Tachypnoea, tachycardia, postural BP drop Elderly may present with subtle signs - confusion, abdominal pain and nausea
143
What Ix are required to diagnose pneumonia?
Sputum specimens - culture and microscopy blood cultures Urine antigen detection for pneumococcal and legionella infection PCR for viruses, mycoplasma, chlamydophila and coxiella infections. Bronchoalveolar lavage (BAL) Chest X-ray - lobar patchy or diffuse shadowing.
144
What is the Tx for pneumonia?
IV fluids appropriate oxygen therapy. Antibiotics: Amoxicillin - for non-severe Clarithromycin + co-amoxiclav - for severe illness Once a microorganism is identified then: S.pneumoniae - amoxicillin or benzylpenicillin M.pneumoniae - clarithromycin C.pneumoniae - clarithromycin