Showing posts with label Microbiology. Show all posts
Showing posts with label Microbiology. Show all posts

Sunday, March 4, 2018

PCR tests for HIV

The polymerase chain reaction (PCR) is a method of amplifying a sample of DNA exponentially.

Can be used for:
1. Detection of viral DNA in the patient (for diagnosis.)
2. Detection of HIV RNA (as a measure of viral load - track response to therapy.)
3. Detect mutations in the HIV viral DNA (for determining source of therapy failure.)

UTI Series: Pathogenesis, risk factors and diagnosis

Hello Awesomites! :)

This post on Urinary Tract Infection (UTI) is brought to you by our passionate MSGA Calvin Ong K.Y. and me, Upasana Y. 

The following parts can be infected in an UTI:
- Kidney
- Urinary bladder
- Ureter

Infections of urethra is known as Urethritis, which is dealt under different clinical syndromes. Infection of the urethra is mainly caused by N. gonorrhoeae, C. trachomatis, M. genitalium. T. vaginalis, HSV, and adenovirus can also cause urethritis.

Pathogens

Escherichia coli - It is the most common urinary pathogen.

Proteus, Klebsiella, Pseudomonas species and Staphylococcus aureus are associated with hospital acquired infections because their resistance to antibiotics favor their selection. Catheterization and gynecological surgery increase risk for these infections.

Proteus infections are associated with renal stones. Proteus produces a potent urease which acts on ammonia, rendering the urine alkaline.

S. saprophyticus infections are found in sexually active young women.

Candida infection is usually seen in diabetic patients and in the immunosuppressed.

M. tuberculosis is carried in blood to kidney from another site of infection. (eg. respiratory TB)

Polymicrobial bacteruria is due to fistulas, urinary retention, infected stones or catheters.

Pathogenesis of UTI

1. COLONIZATION - Pathogens colonizes the periurethral area and ascends through urethra upward towards the bladder.

2. UROEPITHELIUM PENETRATION - Fimbria allow bladder epithelial cell attachment and penetration. Bacteria continue to replicate and may form biofilm.

3. ASCENSION  -Bacterial toxins may also play a role by inhibiting peristalsis (reducing the flow of urine)

4. PYELONEPHRITIS

5. ACUTE KIDNEY INJURY

Risk factors of UTI

IATROGENIC/DRUGS-
  • Indwelling catheter
  • Antibiotic use
  • Spermicides
BEHAVIOURAL-
  • Voiding dysfunction
  • Frequent or recurrent sexual intercourse
ANATOMIC/PHYSIOLOGIC-
  • Vesicoureteral reflux
  • Female sex (short urethra ~4cm)
  • Pregnancy (progesterone mediated smooth muscle relaxation to the bladder and ureters and compression of ureters by the uterus)
GENETIC-
  • Familial tendency
  • Susceptible uroepithelial cells 
  • Vaginal mucus properties
Route of spread
  • Ascending route
  • Hematogenous
  • Lymphatic
Signs & Symptoms of Urinary Tract Infection
Urinary tract affected:
1. Urethra – cause urethritis
-Burning and pain with urination 
(Urethritis is classified as an STI and not UTI by many textbooks)

2. Bladder – cause cystitis
-Painful urination
-Frequent and persistent urge to urinate
-Lower abdomen discomfort
-Cloudy/Strong-smelling urine

3. Kidneys – cause pyelonephritis
-Flank pain (Upper back and side)
-Fever 
-Chills
-Nausea and vomiting

Diagnostic Testing for Urinary Tract Infections:

Types of urine Samples
-Mid stream Urine sample
-Catheter specimen of urine during cystoscopy
-Suprapubic aspirate
-Early morning urine (TB of urinary tract)
-Initial flow (Urethritis, prostatitis)
                                                 
Test
1. Urine microscopy
-Pyuria (pus presented in urine + elevated white blood cells in urine)
-Hematuria (red blood cells in urine)
RBCs may be found in the urine during menstruation in a woman’s urine sample, thus leading to a false positive result.
-Motile bacteria – E.Coli, Proteus, Pseudomonas
-Non-motile bacteria – Klebsiella
-Presence of cocci – Staphylo-, Strepto-, Enterococci 
**Presence of WBC casts indicates pyelonephristis rather than cystitis
**If urine sample contains abundant squamous epithelial cells - sample is contaminated and results are not reliable

2. Urine dipsticks 
-Use different chemicals reagants on a strip that is dipped in urine to diagnose urinary tract diseases
-E.g. of dipstick result (positive leukocyte esterase, positive nitrite, positive haemoglobin)

3. Urine culture
-Culture of mid-stream urine – Blood agar, Mac Conkey agar
-Midstream void - ≥1 × 105 CFU/μL is consistent with infection
-Samples collected via catheterization -≥1 × 102 CFU/μL is consistent with infection
**Contamination of samples may occur when urine passes through outer third of urethra
**Therefore, numeric threshold of colony-forming units (CFU) per millilitre is used to confirm infection.

4. Imaging test:- 
It is not routinely done in case of UTI.

Ultrasonography is indicated
-Obstruction in urinary flow
-Stones
-Measurement of bladder residual volume in BPH 
-Recurrent UTI 
-Pyelonephritis or hematuria.

KUB is most useful in suspected case of urolithiasis.

Computed tomography urography is used to view the kidneys and adjacent structures, and may be considered to further evaluate patients with possible abscess, obstruction, or suspected anomalies when ultrasonography is not diagnostic.

If urinalysis is unrevealing, cystoscopy can be performed to evaluate for bladder cancer, hematuria, and chronic bladder symptoms.

Urodynamic studies can be performed for persistent voiding symptoms.

Intravenous urography - for hematuria evaluation if CT urography is not available.

Men with UTI
US with abdominal X-RAY and flow rate
  • No abnormality detected  - no further imaging 
  • Abnormal upper tract 
  • Abnormal lower urinary tract - further investigation (e.g.cystoscopy,urodynamics or transrectal US)
We are grateful to our teachers. :)

- Upasana Y. and Calvin Ong K.Y.

Thursday, December 7, 2017

Mnemonic on viral structures

Hey guys!! Long time!

As the title suggests this post will help you remember the different viral structures in a way that is fun and easier.

Thursday, October 12, 2017

Quick Facts - Swimming associated Diseases.

Hello everybody!
Let's swim through microbiology today and review some swimming related diseases.

Swimming pool conjunctivitis -
Caused by : Adenovirus 3,7 and 14 (tends to occur in children's swimming camps)
                      Chlamydia Trachomatis.

Swimming pool Granuloma -
Caused by Mycobacterium Marinum.

Swimmer's Itch -
Caused by Schistosoma Mansoni.

Swimmer's Ear - Pseudomonas.

Swimming in contaminated water can also cause Primary Amoebic Meningoencephalitis by Naegleria Fowleri which is a free living ameba.

If you come across more eponymous swimming diseases do share.

Let's learn Together!
-Medha.

Tuesday, October 10, 2017

Quick Facts - Fried Egg Appearance!

Hello everybody!
So the next time you make your own fried egg add some medicine to it!
Here is a list of certain characteristic fried egg appearances that you may Come across:
Mycoplasma Pneumoniae colonies show fried egg colonies on Eaton agar.
Oligodendroglioma cells show a fried egg appearance.
Hairy cell leukemia cells on bone marrow biopsy.
Seminoma and Dysgerminoma  cells on light microscopy.
Parietal cells of the stomach due to acidophilic cytoplasm & large central nuclei also resemble fried egg appearance.
Plasma cells in MULTIPLE MYELOMA
Malassezia furfur 
They also show fried egg appearance on sabourauds dextrose agar with olive oli overlay.

Let's learn Together!
Medha.

Quick Facts - Human Herpes Virus 6!

Hello everyone!

Here are some quick important facts for the Human herpes Virus 6 (HHV-6)

HHV-6 affects T cells binds to CD46.

It has two variants 6A and 6B

The 6B variant causes 6th disease  (easy to remember HHV-6 causes 6th disease)
also called as Roseola infantum or exanthema subitum in children.

Roseola infantum -The disease is characterized by high grade fever wherein Febrile seizures can be seen.
After the defervescence the Rash classically appears.
One important finding is Nagayama spots which are small reddish papular lesion seen on the soft palate.

In Older age grp causes Infectious Mononucleosis like disease.

If you have more facts on it, Do share!

-Let's Learn Together!
Medha

Wednesday, September 27, 2017

Echinocandins: Mechanism of action, side effects and orgranisms affected (mnemonic)

To easily remember anything related to Echinocandins (eg: Caspofungin, Micafungin) , just think of the letters "C, A and N"  => CAN :D

=> EchinoCANdins.
=> Inhibit synthesis of B-gluCAN. 
=> Used in CANdida and a thing that CAN invade your body (invasive aspergillosis).
=> CAN make you flush ( due to histamine release).

-Murad

Saturday, September 23, 2017

Bacterial exotoxins that work via overactivating Adenylate Cyclase, a mnemonic

There are many bugs which have many exotoxins - to memorize those that have an exotoxin which work through overactivating Adenylate Cyclase therefore increasing cyclic AMP (+ cAMP) => just remember the letters of the word: CAMP

=> the bugs are:
Cholera (Vibrio Cholera)
Anthrax (Bacillus Anthracis)
Moctezuma's revenge (a fancy name of heat labile entertotoxigenic E.coli, ETEC)
Pertussis (Bordetella Pertussis)

-Murad

Saturday, August 26, 2017

Immunology question

Hola awesomites!!

So, this is answer of our previous question. Lets have a look into it.

Q1)Which of the following features is not shared between T cells and B cells
a)Antigen specific Receptors
b)Class 1 MHC expression
c)Positive selection during development
d)All of the above

Answer is
C) Positive selection during development

Explanation:

Positive selection:
Site is thymic cortex.
-T cells having affinity for MHC molecules are selected since T cells having affinity for MHC molecules can interect with APC  and one who don't have recognisation is killed

Negative selection:
Site:Thymic medulla
Selected T cells are sent to medulla,where there affinity for self antigens are tested.If the have affinity they are programmed to death.

Incase of B cells,if they recognize self antigens they do not undergo death instead there receptors are changed by the process called as "Receptor editing" .If receptor editing dose not take place,then apoptosis takes place.This is negative selection of immature B cells. B cells negative selection occurs in the bone marrow

Both T-cell and B-cell have TCRs and BCRs respectively.
Class I MHC is expressed on both T cells and B cells..

Stay awesome:)

~Ojas

Wednesday, August 16, 2017

Causative microbes in acute osteomyelitis

 

Hello Awesomites!
Let's discuss some facts about Common microbes involved in Acute Osteomyelitis.

Staphylococcus aureus is the most common infecting organism found in older children and adults with osteomyelitis.

Gram negative bacteria - vertebral body infections in adults.

Pseudomonas  - intravenous drug abusers.

Fungal osteomyelitis - chronically ill patients receiving long-term intravenous therapy or parenteral nutrition.

Salmonella osteomyelitis - Sickle cell hemoglobinopathies - tends to be diaphyseal.

Infants -S. aureus (most common),group B streptococcus & gram-negative coliforms . 
Group B streptococcus - otherwise healthy infants 2 to 4 weeks of age.

Animal Bite - Pasteurella

Human Bite - Eikinella

That's all!
Thank you.

MD Mobarak Hussain (Maahii)

Monday, August 7, 2017

Microbiology question


#Microbiology
#Medicowesome
A patient is suffering from features of septic shock with following clinical picture.Most probable causative organism is
A) Staphylococcus
B) Listeria
C) CMV
D) Meningococcus

Answer is "D" that is Meningococcus.
It is a classical case of Waterhouse-friderichsen syndrome/Purpura fulminans/Fulminant meningococcemia:It is simply trauma to adrenal gland causing extensive bleeding, multiple organ failure, leucopenia, thromobocytopenia and consistent development of DIC.Low level of blood glucose and sodium and high level of ACTH and potassium level is suggestive of adrenal failure.
It differs from other septic shock because of the presence of prominent hemorrhagic skin lesions petechia, purpura.

Monday, July 31, 2017

Cutaneous manifestations of Streptococcus

Hello awesomites!
Here's a collection of Cutaneous infections/diseases caused by Streptococcus pyogenes

Direct infections of skin or subcutaneous tissue-

1. Cellulitis
2. Impetigo
3.Ecthyma,Erysipelas
4. Vulvovaginitis
5. Perianal infection
6. Streptococcal ulcers
7. Blistering distal dactylitis
8. Necrotizing fasciitis

Secondary infection-

Eczema, infestations, ulcers, etc.

Tissue damage from circulating toxins-

1. Scarlet fever
2. Toxic‐shock‐like syndrome
3. Recurrent toxin‐mediated perineal erythema

Skin lesions due to allergic hypersensitivity to Streptococcal antigens

1. Erythema nodosum
2. Vasculitis

Skin disease provoked or influenced by Streptococcal infection (mechanism uncertain)-

1. Psoriasis, especially guttate forms.
2. Kawasaki disease.

That's all!

MD Mobarak Hussain (Maahii)

Friday, July 28, 2017

Image Based MCQ on Blood Agar

Hello awesomites!

Yesterday, we posted an Image based MCQ - And as promised, here is the answer!

#Microbiology
Q. Which organism shows the below depicted phenomenon when incubated with staphylococcus aureus on blood agar:
A. Clostridium perfringens
B. Bacillus anthracis
C. Haemophilus influenzae
D. Corynebacterium diphtheria

The correct answer is C. Haemophilus influenzae.

The given image shows the phenomenon of satellitism which is exhibited by Haemophilus influenzae when incubated on blood agar along with Staphylococcus. Factor V produced by Staph aureus helps in growth of Haemophilus. Haemophilus   colonies will be larger and well developed alongside the streak of staphylococcus aureus since V factor diffuses into surrounding medium. This is known as satellitism.

MD Mobarak Hussain (Maahii) 

Monday, July 24, 2017

Emphysematous Cholecystitis

Hello guys! Here's a brief description about Emphysematous Cholecystitis.

What are the risk factors for Emphysematous Cholecystitis?

1. Diabetes Mellitus (Most Important)
2. Immunosuppresion
3. Vascular compromise (Obstruction & stenosis of Cystic artery).

Emphysematous Cholecystitis is a life-threatening form of Acute cholecystitis & caused due to infection of the gall bladder wall with Gas forming bacteria like: Clostridium welchi.
Gas forms in gall bladder wall with occasional detection of crepitation (that's why called Emphysematous).
Development of gangrene & perforation is common.
It is managed by Emergency cholecystectomy with broad spectrum antibiotics.

Thank you
MD Mobarak Hussain (Maahii)

Sunday, July 23, 2017

Brain Abscess - Important facts

Hello guys! Here are some important facts about Brain Abscess.

Most Common site: Frontal lobe

Sequence of involvement: Frontal lobe > Temporal lobe > Parietal Lobe > Occipital lobe.

Most Common site of Brain Abscess in Tetralogy of Fallot: Parietal Lobe.

Most Common site of Brain Abscess in CSOM: Temporal lobe (Mastoiditis).

Most Common organisms involved are Anaerobic bacteria > Staphylococcus aureus > Streptococcus pyogenes.

Empirical therapy: Vancomycin + Ceftriaxone + Metronidazole for 4 to 8 weeks.

I hope that it's helpful to you.
Thank you!

MD Mobarak Hussain (Maahii)

Thursday, July 20, 2017

Viral Exanthems - Mnemonic

Mnemonic to remember the Viral Exanthems of childhood

ME gave ROSE to my BELLA after eating CHICKEN at 5 PM.

ME =MEasles
ROSE= ROSEola
BELLA = ruBELLA
CHICKEN = CHICKEN Pox
5 P= 5th disease (Parvovirus)

Thank you!
-Md Mobarak Hussain (Maahii)

Saturday, July 15, 2017

Fact of the day: Gonorrhea and vulvovaginitis

Gonorrheal infection is generally limited to superficial mucosal surfaces lined with columnar epithelium. The areas most frequently involved are the cervix, urethra, rectum, pharynx, and conjunctiva