Microbiology Case Study: A 73 Year Old Man with Altered Mental Status and Fever

Case History

A 73 year old man was brought to the emergency room with altered mental status and fever, which developed a few days following a 1-2 day illness characterized by myalgia and diarrhea. He was admitted to the hospital and blood cultures were drawn.

Laboratory Identification

The bottles flagged positive after 12 hours and Gram stain showed small, Gram positive rods (Figure 1). Growth of white, smooth translucent colonies was seen on the blood and chocolate plates, with a small rim of beta-hemolysis on the blood plate (Figure 2). MALDI-TOF confirmed the identification as Listeria monocytogenes.

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Figure 1. Gram stain morphology of the colonies growing, demonstrating short Gram positive bacilli.

 list1

Figure 2. Smooth white colonies growing on the blood and chocolate plates, with a soft rim of beta-hemolysis visible on the blood plate.

Discussion

Listeria monocytogenes is prevalent throughout the environment, and can also colonize the human gastrointestinal tract. Humans are exposed by consumption of contaminated food, particularly soft cheeses, deli meats, and fruit. Listeria can grow at 4C which means it can multiply in refrigerated foods, making even low-level contamination a potential hazard. On gram stain, it is a short gram positive rod which may form chains. In some cases, the rods may be so short as to resemble chains of Streptococci, and with the soft surrounding beta hemolysis, could potentially be confused for Group B Streptococcus. However, Listeria is catalase positive, while Group B Strep is negative. Another characteristic feature of Listeria is the “tumbling motility” on wet prep at 20-25C, or “umbrella motility” in tube agar. Listeria also has the unique feature of manipulating the host cells’ intracellular actin framework, using it to facilitate direct cell-to-cell spread of the bacteria. The main virulence factor is the listeriolysin toxin, which is postulated to permit survival of the organism within macrophages via cytotoxic activity.

Listeria can cause a self-limited febrile gastroenteritis in previously healthy individuals, but typically only if they consume a large inoculum. However, in neonates, the elderly, or the immunosuppressed, it can invade and cause sepsis, meningitis, or meningoencephalitis. In pregnant women, Listeria can cross the placenta and lead to intrauterine fetal demise, premature labor, or neonatal meningitis, as well as the typically fatal condition granulomatosis infantiseptica in which the newborn develops widespread abscesses throughout multiple organ systems. Infection during pregnancy usually happens during the 3rd trimester, though the effects seem to be more severe with earlier infection.

 Listeria has been cultured from the stool of up to 3.4% of healthy, asymptomatic humans, and so there is little utility in stool cultures for Listeria except for epidemiologic purposes during an outbreak. Infections due to outbreaks of Listeria are far less common than sporadic infections, which comprise 95% of Listeria infections. Additionally, traditional stool cultures are poor at detecting Listeria and selective media is usually required. Blood and cerebrospinal fluid are the preferred sites of culture if there is suspicion for disseminated infection. Meningitis caused by Listeria is unique in that is can cause a lymphocyte-predominant CSF pleocytosis, which may result in confusion for viral meningitis. Additionally, gram stains of the CSF are only positive in approximately 1/3 of patients, so a high index of suspicion needs to be maintained while awaiting final culture results. While antibiotic treatment is not recommended for otherwise healthy patients with febrile gastroenteritis, it is recommended for those with disseminated infection or at high risk of dissemination (i.e. extremes of age, immunocompromised, or pregnant).

 

-Alison Krywanczyk, MD is a 3rd year anatomic and clinical pathology resident at the University of Vermont Medical Center.

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-Christi Wojewoda, MD, is the Director of Clinical Microbiology at the University of Vermont Medical Center and an Assistant Professor at the University of Vermont.

Microbiology Case Study: A 5 Month Old with Redness in her Left Eye

Case History

A 5 month old girl was brought to her pediatrician by her mother for redness of the medial canthus of her left eye. There was some associated thick discharge as well. The mother mentioned that her daughter had excessive tearing from the left eye since birth. The pediatrician diagnosed dacryocystitis, and prescribed a course of oral cefdinir. However, the swelling and redness continued to worsen, and the infant began to have low-grade fevers. She was sent to pediatric ophthalmology for a consult, and admitted to the hospital on IV clindamycin. The following day, she was taken to the operating room, where they opened the obstructed nasolacrimal duct and sent the contents for culture.

Laboratory Work-Up

Gram stain and smear: No neutrophils, no bacteria seen.

Routine bacterial culture showed growth of small, smooth and translucent colonies on the chocolate agar only. The colonies had a distinct wet-mouse odor.

Repeat review of the gram stain showed moderate neutrophils, with gram negative coccibacilli both extracellular and intracellular.

Hflu1
Chocolate plate demonstrating growth of smooth, translucent colonies.
Hflu2
Thick, uninterpretable region of gram stain.
Hflu3
Repeat review of gram stain showed gram negative coccobacilli, with intraleukocytic organisms.

Discussion

The gram stain and colony morphology described above are consistent with Haemophilus influenzae. Identification of the organism was confirmed by MALDI-TOF.

Congenital nasolacrimal duct obstruction is a common problem, affecting up to 6% of newborns. The vast majority of cases will resolve without treatment by the time the child is 6 months old. However, complications can arise, include acute or chronic dacryocystitis. Acute dacryocystitis causes swelling, warmth, and erythema with or without purulent discharge. The organisms most commonly implicated are alpha-hemolytic streptococci, Staphylococcus epidermidis, and Staphylococcus aureus. In chronic dacryocystitis, there is purulent drainage from the eye but no other signs or symptoms. The most common organisms isolated in these cases are Streptococcus pneumonia, Haemophilus influenzae, Pseudomonas aeruginosa, and viridans group Streptococci.  Acute dacryocystitis usually requires systemic antibiotics, while chronic can be treated with topical antibiotics. In this case, the infant had clinical features of acute dacryocystitis, but infection with an organism more typically associated with chronic dacryocystitis.

H. influenzae is a gram negative coccobacillus, which grows only on chocolate agar due to its requirement for factors V and X. However, H. influenzae can grow on blood agar if it is growing around an organism that hemolyzes the red blood cells in the media, releasing factor V (i.e. Staphylococcus aureus), a phenomenon known as satelliting.

As illustrated by this case, reviewing gram smears inconsistent with the final culture is an important aspect of quality assurance in the microbiology laboratory. This allows the opportunity to provide continuous feedback to technologists on their technique, and lets us keep track of any trends or common mistakes that may be occurring. In this instance, on review of the gram smear it appears the original reader examined only the very thick portions of the smear, which were uninterpretable. However, by moving out to the edges, neutrophils and bacteria were clearly visible. Feedback was provided to the original reader. The provider was immediately called and notified that a corrected report would be issued; the patient was switched to oral Augmentin based on these results.

-Alison Krywanczyk, MD is a 3rd year anatomic and clinical pathology resident at the University of Vermont Medical Center.

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-Christi Wojewoda, MD, is the Director of Clinical Microbiology at the University of Vermont Medical Center and an Assistant Professor at the University of Vermont.

Microbiology Case Study: 15 Year Old with Bacteremia

Case History

A 15-year-old male patient with acute myeloid leukemia (AML) had a central line placed for chemotherapy and subsequently developed symptoms of fever, abdominal pain, and diarrhea a few weeks later. He was treated with metronidazole for intra-abdominal infection and experienced improvement in diarrhea and abdominal pain, however his fever remained. Blood cultures were drawn from his central line and were positive.

gran1

Figure 1. Gram stain of the positive blood culture showing Gram-variable cocci in pairs and chains

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Figure 2. Growth profile on organism on 5% sheep blood and chocolate agars

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Figure 3. Colony Gram stain demonstrating pleomorphic, Gram-variable cocci in pairs and short chains

Laboratory diagnosis

Gram stain of the blood specimen revealed Gram-variable cocci in pairs and chains (Figure 1). The specimen was cultured on 5% sheep blood, chocolate blood, MacConkey, and Columbia colistin nalidix agar (CNA) agars. The next day, growth of small, round, grey colonies was seen only on the chocolate agar (Figure 2). Catalase test was negative. MALDI-TOF (Matrix Assisted Laser Desorption/Ionization, Time-of-Flight) identified Granulicatella adiacens with a 2.267 match score.

Discussion

The Granulicatella genus is a former member of the Abiotrophia genus, previously known as nutritionally variant or satelliting streptococci. The Granulicatella genera consists of G. adiacens and G. elegans (formerly A. adiacens and A. elegans respectively); of the Abiotrophia genus, only A. defectiva remains. These organisms are normal flora of the oral cavity, upper respiratory tract, gastrointestinal tract, and genitourinary tract. Granulicatella endocarditis is an uncommon, but well-documented phenomenon of both native and prosthetic valves and accounts for 5-6% of all streptococcal endocarditis. Other potential complications include ocular, central nervous system, musculoskeletal infections, bacteremia, pneumonia, scrotal abscess, septic arthritis, peritoneal dialysis-associated peritonitis, and breast-implant associated infections.

The Granulicatella spp. are catalase-negative, oxidase-negative, facultative anaerobic, gram-positive coccobacillus arranged in pairs and chains; although pleomorphism may occur (Figure 3, colony Gram stain). Notably, Granulicatella will grow on chocolate blood agar, but not 5% sheep blood agar or CNA agar because it requires Pyridoxine or vitamin B6 for growth. In addition to chocolate agar, Granulicatella can grow on Brucella agar with 5% horse blood and in thioglyconate broth. Granulicatella and other nutritionally variant streptococci exhibit satelliting behavior.  Satellite testing is performed on a media that supports no or little growth of Granulicatella (e.g. sheep blood agar). A single streak of Staphyloccous aureus across an area of the media inoculated with Granulicatella is incubated at 35°C in a high CO2 atmosphere. Granulicatella will grow only in the vicinity of S. aureus growth.  An alternate test for satelliting involves supplementation of media with pyridoxine hydrochloride, to allow growth of Granulicatella.

Biochemical reactions include: pyrrolidonyl arylamidase production (PYR) positive, leucine aminopeptidase production (LAP) positive, 6.5% NaCl negative, and bile esculin negative. Species identification is accomplished by arginine hydrolysis (ARG) and beta-glucuronidase (BGUR) activity testing. G. elegans is ARG-positive, while G. adiacens and Abitrophia are both negative. G. adiacens is further identified by a positive BGUR analysis, and Abiotrophia is again negative.

Abiotrophia and Granulicatella have shown variable susceptibility to both penicillin and aminoglycoside antibiotics. There is documented resistance to clindamycin, tetracycline, erythromycin, and ciprofloxacin, but not to rifampin or vancomycin. Current recommendations are to treat similarly as for enterococcal endocarditis using a combination therapy of a beta-lactam antibiotic with an aminoglycoside antibiotic, such as penicillin plus gentamycin. Unfortunately, relapse rates appear high despite appropriate treatment.

The likely source of this patient’s Granulicatella bacteremia is bacterial translocation from the gut in the setting of an immunocompromised state. The work up for a central line source of the bacteremia is still currently in progress, and echocardiogram was negative for vegetation.  He is currently being treated with vancomycin for bacteremia, and cefepime and metronidazole for intra-abdominal infection.

References

  1. Ruoff, K. Aerococcus, Abiotrophia, and other aerobic catalase-negative, gram-positive cocci. Manual of Clinical Microbiology, 10th Edition(pp. 365–376). American Society of Microbiology.
  2. Procop, G. W., Church, D. L., Hall, G. S., Janda, W. M., Koneman, E. W., Schreckenberger, P. C., & Woods, G. L. (2016). Koneman’s Color Atlas and Textbook of Diagnostic Microbiology(7th ed.). Philadelphia: Wolters Kluwer.
  3. Cargill, J., Scott, K., Gascoyne-Binzi, D., Sandoe, J. “Granulicatella infections: diagnosis and management.” Journal of Medical Microbiology 16 (2012): 755-761.

 

-Melinda Flores, MD, is a 1st year clinical and anatomic pathology resident at the University of Texas Southwestern Medical Center, Dallas, Texas.

-Erin McElvania TeKippe, PhD, D(ABMM), is the Director of Clinical Microbiology at Children’s Medical Center in Dallas Texas and an Assistant Professor of Pathology and Pediatrics at University of Texas Southwestern Medical Center.

 

 

 

Microbiology Case Study: A Newborn Baby in Respiratory Distress

Case History

A 29 year old G2P1 woman presented in labor at 39+2 weeks gestational age. Her pregnancy had been previously uncomplicated. Prenatal infectious disease testing showed that she was negative for HIV and Hepatitis C, but that she was positive for Group B Streptococcus. No test results were available for rubella, VZV, toxoplasmosis, or syphilis.

A term male infant was born shortly afterwards by spontaneous vaginal delivery; the mother received less than 4 hours of antibiotics.  The baby was noted to be covered in petechiae, and in a moderate amount of respiratory distress. A CBC showed thrombocytopenia to 23 K/cmm. The baby was transported emergently to the neonatal intensive care unit, where platelet transfusions were given. Blood cultures were drawn. The baby was started empirically on ampicillin/gentamycin, and the following day, once platelet counts were improved, a lumbar puncture was performed. The cell counts in the CSF were unremarkable. A cranial ultrasound showed scattered bilateral parenchymal calcifications, mineralized vasculature of the lenticulostriate arteries, and a subependymal cyst. Urine PCR testing was positive for CMV.

Laboratory Work-up

  • Bacterial Culture and Smear, CSF: No neutrophils, no bacteria. No growth.
  • CSF Viral PCR: Negative for HSV and VZV.
  • Urine CMV PCR: Positive.
  • The placenta was not sent for pathologic examination.

CMV1

Cranial ultrasound demonstrating scattered parenchymal calcifications.

CMV2
Photomicrograph of a lung from a 20 week gestation fetus demonstrating the characteristic “Owl’s Eye” inclusion of CMV.
CMV3
Photomicrograph of the placenta from the same case as B. The chronic villitis with plasma cells seen here is a sign of CMV infection.

 

Discussion

Cytomegalovirus is one of the classic “TORCH” infections. TORCH is an acronym for a group of pathogens that can cause in-utero or intrapartum infections:

  •                 T= Toxoplasmosis
  •                 O= other (syphilis, VZV, parvovirus)
  •                 R= rubella
  •                 C= CMV
  •                 H= HSV

Although these infections share several common signs and symptoms, there are clinically suggestive findings that can help target testing. The combination of thrombocytopenia and intracranial calcifications in this infant raised strong suspicion for congenital CMV. CMV is a member of the herpesvirus family.  It is a double-stranded DNA virus with both a viral capsid and envelope. While most babies born with congenital CMV are asymptomatic (~90%), congenital CMV infection is the main etiology of non-hereditary sensorineural hearing loss. This occurs in up to 50% of symptomatic infants and in 10-15% of asymptomatic infants. Symptomatic infants may be small for gestational age, and can be afflicted by thrombocytopenia, petechiae, intracranial calcifications, chorioretinitis, hepatosplenomegaly, microcephaly, and jaundice. While toxoplasmosis can also cause intracranial calcifications, it does not typically cause thrombocytopenia. Congenital HSV can cause thrombocytopenia, but is not associated with intracranial calcifications.

CMV infection during pregnancy is most often acquired by contact with young children. CMV has the ability to remain latent in the host, and become reactivated at a later time, so pregnancies can be affected by either primary infection or by reactivation of the virus. The risk of vertical transmission is much higher with primary CMV infection (32%) than with recurrent infection (1.4%). Although the rate of vertical transmission increases if the infection occurs later in pregnancy, infections acquired in early pregnancy are more likely to cause symptomatic disease. Treatment for the baby is generally supportive, with antivirals generally used only in symptomatic disease (their utility in asymptomatic infection is debated).

An audiology screen and ophthalmologic exam were both normal in the infant presented here. Oral valgancyclovir was started in addition to other supportive measures.

 

-Alison Krywanczyk, MD is a 3rd year anatomic and clinical pathology resident at the University of Vermont Medical Center.

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-Christi Wojewoda, MD, is the Director of Clinical Microbiology at the University of Vermont Medical Center and an Assistant Professor at the University of Vermont.

Microbiology Case Studies: Babesia vs. Malaria

Patient History: Case 1

A 55 year old Asian woman presented to an emergency department in southern New England in September with complaints of a high fever with chills for the past 5 days. She noted feelings of excessive tiredness, muscle aches, and headache. She also described a decrease in appetite and nausea with vomiting and diarrhea. On physical exam, she was febrile (103.8°F) and scleral icterus was identified. Laboratory workup revealed findings suggestive of hemolysis including increased LDH (401 U/L) and increased unconjugated bilirubin (1.7 mg/dL), despite hemoglobin & hematocrit values in the normal range (13.7 g/dL & 39.3%, respectively). Elevated liver enzymes were also noted; AST 81 U/L and ALT 72 U/L. When questioned regarding traveling history, she reported a trip to Spain and Portugal 5 months earlier. Though she acknowledged living in a rural area of the Northeastern U.S. and indicated that her husband was diagnosed with Lyme disease one year earlier, she denied both recent time outdoors and arthropod or mosquito bites.

Patient History: Case 2

A 31 year old African American woman with a history of sickle cell trait presented to an emergency department in southern New England in September complaining of fevers of 5 days duration. She described being asymptomatic in the mornings followed by high spiking fevers with muscle aches and dull frontal headaches in the evenings. A physical exam revealed a fever (103°F), but no evidence of meningismus. Laboratory workup revealed a mild, microcytic anemia (hemoglobin & hematocrit: 10.7 g/dL & 32.5%, MCV: 76.3 fL), a decreased absolute lymphocyte count and increased band neutrophils. When questioned regarding recent travel, she reported having returned from Africa 10 days earlier. While abroad, she had primarily been in Nigeria’s capital, but she had also visited rural areas. She did not recall having been bitten by mosquitos, but she did not take any anti-malarial prophylaxis. Further, she denied both recent travel to the woods in the Northeastern U.S. and recent arthropod bites.

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Figure 1. Peripheral blood smear from patient 1 showing ring-like forms which contain a small amount of cytoplasm and a chromatin dot as illustrated by the arrows. Both intra-erythrocytic and extra-cellular forms are present. Platelets are denoted by arrowheads.

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Figure 2. BinaxNOW lateral flow assay from patient 1 is negative for the various Plasmodium spp.

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Figure 3. Peripheral blood smear from patient 2 showing ring forms and trophozoites within red blood cells as denoted by arrows. Inset illustrates a scattered gametocyte. Platelets are denoted by arrowheads.

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Figure 4. BinaxNOW lateral flow assay from patient 2 is positive for non-falciparum malaria species as indicated by the faint positive reaction denoted by the red arrow in the T2 region.

 

For patient 1, given the results from the peripheral blood (Figure 1), the negative BinaxNow results (Figure 2) and her lack of recent travel to malaria endemic regions, her illness was attributed to infection by Babesia spp. Further serologic testing was positive for Babesia microti. She was seronegative for Anaplasma phagocytophilum, Borrelia burgdorferi, Ehrlichia chaffeenesis. This finding was confirmed by PCR of her blood, which detected B. microti, but failed to detect B. duncani or B. divergens/MO-1. Approximately 3% of her red blood cells contained intracellular parasites.

For patient 2, her disease was most consistent with an infection by a non-falciparum species of malaria, including P. ovale, P. vivax or P. malariae, given her recent travel to Nigeria and advanced forms seen in the peripheral blood (Figure 3). Further speciation was uncertain due to low parasitemia levels (<1%) and the findings were unable to exclude a mixed infection with a low P. falciparum burden.

Discussion

The clinical and laboratory presentations of babesiosis and malaria are quite similar despite the fact that each infection is caused by a distinct and highly unique microorganism. As seen in the two cases above, both illnesses often begin insidiously with fevers, headache and muscle & joint aches. The non-specific nature of the patient’s symptoms results in an unclear etiology unless key elements of the patient’s history, including exposure to insect and arthropod vectors and travel or habitation in endemic areas, are provided.

Examination of thick and thin blood smears is useful in the diagnosis of these two diseases. While both organisms have a very similar sized lifecycle forms which selectively infect red blood cells and prompt hemolysis, there are a few useful distinguishing characteristics. In the case of babesiosis, which is transmitted by the Ixodes scapularis tick in the United States, there are small ring like structures, both within red blood cells and extra-cellularly. The diagnostic tetrad form, known as a Maltese Cross, is helpful if identified but is not frequently observed in human infections. No advanced forms or pigment is present. In the case of malaria, which is transmitted via the female anopheline mosquito, protozoa are only found within red blood cells and advanced forms, including schizonts or gametocytes, are helpful in further speciation, if present. Other features, such as size of the infected red cell, number of merozoites, level of parasitemia and gametocyte shape, are helpful in the morphologic assessment of the Plasmodium spp.

Due to the pathogenic severity of P. falciparum, it is important that the microbiology laboratory has the ability to make the diagnosis in real time across all shifts. The BinaxNOW is an FDA approved lateral flow assay that is simple to perform and provides rapid diagnostics, though it isn’t as sensitive as microscopy. The test is comprised of two antigens: one specific to P. falciparum (T1) and one antigen common to all Plasmodium spp. (T2). The test will be positive for levels of parasitemia greater than 5,000 parasites per microliter.

As utilized in the above cases, other various laboratory modalities can aid in the diagnosis of babesiosis and malaria, including serologic tests and PCR, however, these tests may not be available in STAT situations. Using a variety of tests and obtaining a thorough travel history, will help the provider arrive at the correct diagnosis of blood protozoa.

 

lavik

-JP Lavik, MD, PhD, is a 3rd year Anatomic and Clinical Pathology Resident at Yale New Haven Hospital.

Stempak

-Lisa Stempak, MD, is an Assistant Professor of Pathology at the University of Mississippi Medical Center in Jackson, MS. She is certified by the American Board of Pathology in Anatomic and Clinical Pathology as well as Medical Microbiology. Currently, she oversees testing performed in both the Chemistry and Microbiology Laboratories. Her interests include infectious disease histology, process and quality improvement and resident education.

Microbiology Case Study: A 60 Year Old Woman with Increasingly Frequent Asthma Attacks

Case History

After experiencing increasingly frequent asthma attacks and multiple episodes of pneumonia within the last two years, a 60 year-old woman with a longstanding history of allergic asthma presents to a pulmonologist complaining of increased shortness of breath and cough. The patient reports a history of abnormal lung infiltrates for which she was previously treated with a three month course of azithromycin. A repeat chest CT shows diffusely scattered, nodular, ground-glass opacities which have increased in number since her last CT two year prior. A bronchoalveolar lavage is performed and specimen is sent for bacterial, fungal, and AFB cultures as well as a respiratory virus PCR panel.

nocar1
BAL on Chocolate agar
nocar2
BAL on 7H11 agar
nocar3
BAL on BCYE agar
nocar4
BAL with Modified Kinyoun stain

 

Laboratory Identification

The bacterial and fungal cultures do not grow any pathogens and the respiratory virus panel is negative. The AFB culture, however, grows beaded, Gram-Positive bacilli which are Auramine/Rhodamine negative and Modified Kinyoun positive. The organism grows well on 7H11, Chocolate, and Buffered Charcoal Yeast Extract (BCYE) agars forming irregular, chalky, white-pink colonies.

The organism is confirmed as Nocardia nova by molecular methods.

Discussion

Nocardia nova is a ubiquitous soil bacteria and one of several Nocardia species known to cause disease in humans. When contracted through traumatic inoculation, Nocardia may cause cutaneous diseases such as a mycetoma, superficial abscesses, or cellulitis. More commonly, however, Nocardia is contracted via inhalation and presents as a chronic, slowly progressive pulmonary infection with cough, shortness of breath, and fever. Complicated pulmonary infections may result in pleural effusions, empyema, pericarditis, chest wall abscesses, or dissemination to the brain and other deep organs. Due to low virulence, Nocardia primarily affects only the immunocompromised but those with pre-existing pulmonary disease are also susceptible to infection.

Nocardia is identified in the laboratory as an aerobic filamentous, beaded, Gram-Positive bacilli demonstrating right-angled branching. Nocardia is also weakly acid-fast and is usually identified by a Modified Kinyoun stain. While Nocardia grows within 3-5 days on blood and chocolate agar, it is often isolated on mycobacterial media or BCYE plates where it forms chalky white to faintly pigmented colonies. Accurate identification and speciation of Nocardia currently requires the use of molecular methods (primarily 16S ribosomal RNA gene sequencing). While many infections are successfully treated with a sulfonamide for 6 months to 1 year, the CDC recommends performing speciation and anti-microbial susceptibility testing on every clinical isolate due to species specific susceptibility profiles and multi-drug resistant strains. Nocardia farcinica, for example, is resistant to many antibiotics including 3rd generation cephalosporins.

 

-Elaine Amoresano, MD, is a 2nd year anatomic and clinical pathology resident at the University of Vermont Medical Center.

Wojewoda-small

-Christi Wojewoda, MD, is the Director of Clinical Microbiology at the University of Vermont Medical Center and an Assistant Professor at the University of Vermont.

 

Microbiology Case Study: 12 Year Old with Abdominal Pain

Case presentation

A 12-year-old female is seen in gastroenterology clinic following 2 weeks of abdominal pain. She is an otherwise healthy child with no significant past medical history. Her abdominal pain was diffuse, but it has worsened in the past 5 days and is now localized to the left upper quadrant and is sharp in nature. The pain was severe enough to prevent her from attending school last week. She was evaluated for appendicitis, which was ruled out. The patient was admitted for further management including an upper and lower endoscopy. During the endoscopy procedure, small, mobile worms were visualized in the ascending colon. Two worms were collected and removed for identification (Figure 1).

pin1

Figure 1. (A) Small, threadlike worms measuring 5-10 mm. Note pointed posterior tail. (B) Haematoxylin and eosin (H&E) stained cross section of the worm.

pin2.png

Figure 2. Cross section of the worms shows (A) anterior with cephalic inflations of the cuticle (arrows) and (B) a long pointed tail.

pin3

Figure 3. Internal eggs are 50-60 µm x 20-30 µm in size. They are elongated, flattened on one side, and have a thick colorless shell.

 

Discussion

The worms were identified as Enterobius vermicularis or pinworm. E. vermicularis is a nematode or round worm. Adult worms are 2.5 mm x 0.1 mm (males) and 8-13mm x 0.3-0.5mm (females). Both male and female worms have cephalic inflations of the cuticle at their anterior end (Figure 2A, arrows). Males have a wide blunt posterior tail while females have a long, pointed tail (Figure 1, 2B). Our worms were females as internal eggs were found in both worms. The eggs of E. vermicularis are 50-60 µm x 20-30 µm in size. They are elongated, flattened on one side, and have a thick colorless shell (Figure 3).

E. vermicularis infection is very common in preschool and school aged children as well as families and caregivers of infected children. Transmission occurs through the fecal-oral route. Embryonated eggs are ingested and travel to the small intestine. Adult worms reside in the colon. Gravid females migrate to the anus and deposit eggs onto the perianal area during the night. A single female can deposit as many as 10,000 fertilized eggs. Larvae within the eggs develop and become infective as quickly as 4-6 hours after they are deposited. The entire life cycle from ingestion until eggs are laid by a gravid female in the perianal area is 1-2 months. Perianal scratching and autoinfection are common as well as infection from contaminated fomites such as bedding, clothes, and shared toys.

The most common method of E. vermicularis detection is the Tape Prep method. Briefly, transparent (unfrosted) tape is used to touch the perianal region, after which the tape is placed on a glass slide for microscopic examination. The best time to detect E. vermicularis is 2-3 hours after the patient has gone to sleep due to the nocturnal cycle of the gravid females. Because E. vermicularis does not enter the stool stream, ova and parasite examination often fails to detect the parasite and is not recommended.

Discovery of E. vermicularis in our patient was an unexpected finding, as our patient had no perianal itching. Asymptomatic detection of E. vermicularis has been described in the past, so this finding is not unique. The patient was given a dose of albendazole and will receive another in two weeks, as the drug has reduced effectiveness at killing the eggs or larval stages of development. Her abdominal pain was attributed to overuse of nonsteroidal anti-inflammatory drugs (NSAIDS) and she is being monitored by gastroenterology outpatient clinic.

 

References

  1. Ash and Orihel’s Atlas of Human Parasitology, 5th
  2. Red Book 2015 Report of the Committee on Infectious Diseases, 30th

 

I would like to thank the staff of the Children’s Medical Center Histology Laboratory for sharing my enthusiasm for parasites as well as sectioning, staining, and taking images of the worms for educational purposes.

 

-Erin McElvania TeKippe, PhD, D(ABMM), is the Director of Clinical Microbiology at Children’s Medical Center in Dallas Texas and an Assistant Professor of Pathology and Pediatrics at University of Texas Southwestern Medical Center.

 

 

 

 

Microbiology Case Study: A 46 Year Old Man Newly Diagnosed with HIV

Clinical Case

A 46 year old male with history of anal HPV with AIN II and anal fissure status-post sphincterectomy and fissurectomy, tobacco and cannabis use, and recent shingles outbreak presented with 1 year of diarrhea, fevers, chills and weight loss and a 2 week history of congestion and productive cough. He was found to have diffuse ground glass opacities with large cysts of the lungs on CT scan, and after admission was found to be positive for HIV with concern for AIDS. He received a bronchoscopy on that showed Pneumocystis jiroveci pneumonia. He was treated and clinically improved over several days when HAART therapy was initiated. Shortly afterwards he became neutropenic with his ANC as low as 150. The initial BAL fluid and stool became positive for acid fast bacilli.

Laboratory Identification

On Löwenstein-Jensen media, the organisms show small, flat, translucent, smooth colonies. They are slow-growers readily detected by acid fast and Kinyoun staining. In broth, the organisms do not show clustering or “cording.”

 

mac1
Gram stain, from Middlebrook 7H11 agar
mac2
Kinyoun stain, from Middlebrook 7H11 agar
mac3
Kinyoun stain, from Middlebrook 7H11 agar
mac4
Growth on Löwenstein-Jensen media

Discussion

Mycobacterium avium complex (MAC) is the most common nontuberculous mycobacterium (NTM) species causing human disease in the United States and is ubiquitous in the environment. MAC refers to infection caused by one of two slowly-growing NTM species, M. avium and M. intracellulare.

The pathogenesis of MAC lung disease is poorly understood. Infection is most likely acquired via ingestion or inhalation of aerosols from the environment inoculating a mucosal surface. Soon after inhalation or ingestion of MAC organisms, the infection disseminates lymphohematogenously. The bacteria are taken up by mononuclear phagocytic cells throughout the body, seeding other organs and tissues. Unlike M. tuberculosis, there is no convincing evidence demonstrating human-to-human transmission of MAC.

Disseminated NTM disease occurred in 5.5% of AIDS cases reported to the Centers for Disease Control and Prevention (CDC) from 1981 to 1987. This dropped to 4% after 1996, and is now at a rate of less than 1% per year. The dramatic decline in the disseminated disease is attributed to the use of effective prophylaxis with clarithromycin and azithromycin, as well as the advent of potent antiretroviral therapy. However, as in our case, patients with low CD4 cell counts remain at risk. Blood cultures for MAC isolation should be obtained before prophylaxis is initiated if there is any suspicion of clinical disease; the treatment regimen is different if blood cultures are positive (ie, the patient has active disease).

Traditional methods of speciating mycobacterial isolates were based upon growth characteristics on solid media and subsequent biochemical tests, requiring additional weeks for subcultures. Now we have commercially available highly-accurate nucleic acid probes that can identify MAC isolates within one day of growth. Other techniques such as 16S ribosomal DNA sequencing, Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry, PCR-restriction length polymorphism analysis (PRA), and high-performance liquid chromatography (HPLC) are also available.

Susceptibility testing of MAC is difficult and controversial compared with M. tuberculosis. Exceptions to this are macrolides and amikacin, for which the MICs have been shown to correlate clinically with in vivo response. Additionally, clarithromycin resistance can be detected by a mutation in the 23S ribosomal macrolide binding site.

 

-Thomas Rogers, DO is a 3rd year anatomic and clinical pathology resident at the University of Vermont Medical Center.

Wojewoda-small

-Christi Wojewoda, MD, is the Director of Clinical Microbiology at the University of Vermont Medical Center and an Assistant Professor at the University of Vermont.

 

Microbiology Case Study: 37 Year Old Male with Cyclic Fever and Severe Headache

Case History

A 37 year old Indian male presents to the emergency department with complaints of a cyclic fever (102-103°F), chills, fatigue and a severe headache. He denies nausea, vomiting or diarrheal symptoms. His travel history is significant for a recent 2 month vacation to India and he is concerned he has malaria, given his symptoms. He reports no sick contacts or suspicious ingestions during his trip and his other family members are well. On physical exam, he is ill appearing, with dry mucous membranes but has no aversion to light or neck pain. Blood work revealed a normal white blood cell count and elevated liver enzymes (ALT 383 U/L, AST 282 U/L). Blood and CSF were collected and sent to the microbiology laboratory for Gram stain and culture. Additional tests for influenza, viral hepatitis and malaria were performed.

Laboratory Identification

salm1

Figure 1. Gram stain from a positive blood culture illustrating large Gram negative rods (100x, oil immersion).

salm2

Figure 2. Small, lactose negative colonies growing on MacConkey agar after 24 hours incubation in CO2 at 35°C.

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Figure 3. Green colonies growing on Hektoen enteric agar after 24 hours incubation in O2 at 35°C.

Within a day of collection, multiple blood cultures were positive for a large Gram negative rods (Figure 1). The organism grew after 24 hours incubation in CO2 at 35°C on blood, chocolate and MacConkey agars and was lactose negative (Figure 2). The identification by MALDI-TOF was Salmonella group. The isolate was then sent to the public health department for additional testing via molecular typing methods. The diagnosis of Salmonella serotype Typhi was confirmed. Testing for influenza, viral hepatitis and malaria were all negative.

Discussion

Salmonella serotype Typhi is a motile, Gram negative rod that is a member of Enterobacteriaceae family.  Typhoid fever is the cause of serious bloodstream infections in developing countries and the great majority of cases in the United States are identified after recent travel. Clinically, it presents with high fever and headaches, in the absence of gastrointestinal manifestations and causes a more severe illness than other Salmonella serotypes. The infecting organism, of which humans are the only known reservoir, is transmitted by food or drink contaminated with feces or person to person contact and has a low infectious dose. Healthy carriers that are able to asymptomatically shed the bacteria have been documented.

Salmonella serotype Typhi is more commonly isolated from blood rather than fecal specimens and grows well on a variety of media including blood, chocolate and Hektoen enteric agar (Figure 3). The characteristic reaction on a triple sugar iron (TSI) slate is alkaline/acid (K/A, only glucose fermented) with a small moustache of H2S production at the site of inoculation and no gas production. In addition, a positive lysine decarboxylase reaction helps to distinguish Typhi from non-typhoidal Salmonella subspecies I members. MALDI-TOF mass spectrometry is successfully able to identify the isolate as Salmonella spp., but additional testing must be performed to determine the particular serotypes.

Traditionally, serotyping of the O (somatic), H (flagellar) and Vi (capsular) antigens and applying results to the Kauffmann-White scheme is useful in confirming the diagnosis of Salmonella and defining the serotype name. In the case of Salmonella serotype Typhi, the somatic antigen groups as D1 and the Vi antigen is present. The Vi antigen (heat labile) sometimes masks the identity of the O antigen (heat stable). In these cases, heating the bacterial suspension in boiling water for 15 minutes and repeating the O antigen serotyping yields the correct O antigen. Given the expansion in molecular testing, methods based on identifying the genes responsible for the serotype are gaining favor.

Due to the high mortality rate in untreated cases of typhoid fever, treatment with antibiotics is necessary and given the increasing levels of resistance reported, particularly to ciprofloxacin, susceptibility testing should be performed in all cases of Salmonella serotype Typhi. It is recommended that ampicillin, a fluoroquinolone, trimethoprim-sulfamethoxazole and a 3rd generation cephalosporin be reported for all typhoid isolates based on the most current M100S-26 CLSI guidelines. Also, in the case of S. Typhi, reporting susceptibilities to azithromycin is encouraged (MIC ≤16 µg/mL S, ≥32 µg/mL R, interpretative criteria based on MIC distribution data).

In the case of our patient, he was started on ceftriaxone and continued to receive this IV antibiotic for seven days after blood cultures became negative. Susceptibility testing showed intermediate results for ciprofloxacin by disk diffusion and azithromycin was found to be susceptible with an MIC of ≤16 µg/mL. The patient has an uncomplicated hospital course and made a complete recovery.

 

Stempak

-Lisa Stempak, MD, is an Assistant Professor of Pathology at the University of Mississippi Medical Center in Jackson, MS. She is certified by the American Board of Pathology in Anatomic and Clinical Pathology as well as Medical Microbiology. Currently, she oversees testing performed in both the Chemistry and Microbiology Laboratories.  Her interests include infectious disease histology, process and quality improvement and resident education. 

Microbiology Case Study: 3-year-old Female with Facial Wound

 

Case History

A 3-year-old female with no significant past medical history presented to the emergency department 1 day following a provoked dog bite to the right cheek. At home, the bite area was cleaned, but it subsequently developed progressive erythema, swelling, and purulent discharge. Review of systems was otherwise negative. Both the patient and dog were up-to-date on vaccinations. On exam, the patient displayed a 1 cm area of induration with surrounding erythema and actively draining whitish fluid.

Fluid from the draining wound was sent to the microbiology laboratory for Gram stain and culture. On Gram stain, rare gram-negative rods were identified, as well as few polymorphonuclear leukocytes.  The following organism was recovered from culture the next day.

past1

Figure 1: Growth on blood, chocolate and MacConkey agars. Note one larger and one smaller colony morphology growing on blood and chocolate agars.  The organism did not grow on MacConkey agar.

past2

Figure 2. Subcultures of the two distinct colony types. The larger colonies (left) appeared more mucoid than the smaller colonies (right).

past3

Figure 3. Gram stains of the two colony types revealed a small, Gram-negative coccobacilli identified as Pasteurella multocida (right) and a larger, pleomorphic Gram-negative rod identified as Pasteurella canis (left).

Laboratory Work-Up

The specimen was cultured on 5% sheep blood, chocolate, and MacConkey agars. Two colony morphologies emerged on the blood and chocolate agar plates (Figure 1). The organism did not grow on MacConkey agar. Representatives of each colony morphology were subcultured onto 5% sheep blood agar with growth shown in Figure 2. One colony is larger and mucoid (Figure 2, left) while the second is smaller and non-mucoid (Figure 2, right).

MALDI-TOF (Matrix Assisted Laser Desorption/Ionization Time-of-Flight) identified two different species of Pasteurella. Colony Gram stains show P. multocida as small Gram-negative coccobacilli (Figure 3, right) and P. canis as pleomorphic Gram-negative rod (Figure 3, left).

Discussion

The Pasteurella spp. are non-motile, facultatively anaerobic, Gram-negative coccobacilli found in the respiratory tracts of nonhuman mammals, most notably cats and dogs. By current classification the genus includes P. multocida (with 3 subspecies), P. dagmatis, P. canis, and P. stomatis, with P. multocida being the most common human pathogen and species recovered from animals (>70% carriage in cats, >40% in dogs) [1]. The foremost human infection is bite or scratch wound with cellulitis, with rapid development of erythema, swelling, and purulent drainage as observed in this case. Licking may also transmit the bacteria.  Possible associated findings include fever and regional lymphadenopathy. More serious potential infections include osteomyelitis, septic joint, endocarditis, bacteremia, sepsis, and meningitis. Systemic illness typically requires immunocompromise (classically liver disease). The organisms are generally penicillin-sensitive [2].

Key identification features of Pasteurella spp. include oxidase positivity and failure to grow on MacConkey agar, both differentiating Pasteurella from the Enterobacteriaceae. Other common features include and catalase and indole positivity. Unlike other certain fastidious gram negative bacteria (e.g., Haemophilus), Pasteurella grow independently on blood agar without the requirement for hemin or NAD. Of note, Capnocytophaga spp. (also associated with dog bites) also grows on blood and chocolate but not MAC. However, Capnocytophaga require a CO2-enriched environment and the Gram stain is notably different as they are long, slender Gram-negative rods [1].

This case was notable for a dual Pasteurella infection, an uncommon but previously reported phenomenon [3]. The organisms differed by colony morphology, with P. multocida appearing larger and mucoid (reflecting capsule production) on the blood agar, and P. canis appearing smaller, grey, and non-mucoid. Capsule is a key virulence factor of P. multocida and tends to be associated with more severe infections [4].

The patient was treated with a 10 day course of amoxicillin-clavulanate and has completely recovered.

References

  1. Procop, G. W., Church, D. L., Hall, G. S., Janda, W. M., Koneman, E. W., Schreckenberger, P. C., & Woods, G. L. (2016). Koneman’s Color Atlas and Textbook of Diagnostic Microbiology (7th ed.). Philadelphia: Wolters Kluwer.
  2. Graevenitz, A., & Zbinden, R. (n.d.). Actinobacillus, Capnocytophaga, Eikenella, Kingella, Pasteurella, and Other Fastidious or Rarely Encountered Gram-Negative Rods. In Manual of Clinical Microbiology, 10th Edition (pp. 574–587). American Society of Microbiology.
  3. Holst, E., Rollof, J., Larsson, L., & Nielsen, J. P. (1992). Characterization and distribution of Pasteurella species recovered from infected humans. Journal of Clinical Microbiology, 30(11), 2984–7.
  4. Harper, M., Boyce, J. D., & Adler, B. (2006). Pasteurella multocida pathogenesis: 125 years after Pasteur. FEMS Microbiology Letters, 265(1), 1–10.

 

-William Phipps, M.D., 1st year Anatomic and Clinical Pathology Resident, UT Southwestern Medical Center

-Erin McElvania TeKippe, Ph.D., D(ABMM), is the Director of Clinical Microbiology at Children’s Medical Center in Dallas Texas and an Assistant Professor of Pathology and Pediatrics at University of Texas Southwestern Medical Center.