Rhizobium, Ochrobactrum, and Similar Organisms

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Rhizobium, Ochrobactrum, and Similar Organisms

Genera and Species to Be Considered

Current Name Previous Name
CDC group EF-4b CDC group EF-4
CDC group Ic  
CDC group O-3  
CDC group OFBA-1  
Ochrobactrum anthropi
Ochrobactrum intermedium
CDC group Vd1 -2
Paracoccus yeei CDC group EO-2
Psychrobacter immobilis (saccharolytic strains) Part of CDC group EO-2
Rhizobium radiobacter Agrobacterium radiobacter, CDC group Vd-3
Shewanella putrefaciens
Shewanella algae
Alteromonas putrefaciens, Achromobacter putrefaciens, CDC group Ib

*Quotation marks indicate a proposed organism name.

Epidemiology

As environmental organisms, these bacteria are rarely encountered in human specimens or infections. When they are encountered, they are found on contaminated medical devices or are isolated from immunocompromised or debilitated patients. Of the organisms listed in Table 23-1, Rhizobium radiobacter, and O. anthropi are the species most commonly encountered in the clinical setting. Ochrobactrum intermedium is phenotypically indistinguishable from O. anthropi. The other bacteria have rarely been discovered in clinical material, and several have never been established as the cause of human infection.

TABLE 23-1

Epidemiology

Species Habitat (Reservoir) Mode of Transmission
“Achromobacter” group Uncertain, probably environmental; may be part of endogenous flora of the ear and gastrointestinal tract Unknown
Nosocomial infections related to contaminated disinfectants, dialysis fluids, saline solution, and water
Rhizobium radiobacter Environmental, soil and plants; not part of human flora Contaminated medical devices, such as intravenous and peritoneal catheters
CDC group EF-4b Animal oral and respiratory flora; not part of human flora Animal contact, particularly bites or scratches from dogs and cats
Paracoccus yeei Environmental; not part of human flora Identified in human peritonitis
Psychrobacter immobilis Environmental, particularly cold climates such as the Antarctic; not part of human flora Unknown. Rarely found in humans. Has been found in fish, poultry, and meat products
CDC group OFBA-1 Uncertain, probably environmental; not part of human flora Unknown. Rarely found in humans
Ochrobactrum anthropi Uncertain, probably environmental; found in water and hospital environments; may also be part of human flora Uncertain. Most likely involves contaminated medical devices, such as catheters or other foreign bodies, or contaminated pharmaceuticals. Also can be acquired in community by puncture wounds
Shewanella putrefaciens
Shewanella algae
Environmental and foods; not part of human flora Unknown, rarely found in humans
Isolated from abscesses and wounds

R. radiobacter inhabits the soil, and human infections occur by exposure to contaminated medical devices.

The specific environmental niche of O. anthropi is unknown, but this organism is capable of survival in water, including moist areas in the hospital environment. The organism may also be a transient colonizer of the human gastrointestinal tract. Similar to R. radiobacter, human infections caused by O. anthropi are associated with implantation of intravenous catheters or other foreign bodies in patients with a debilitating illness. Acquisition by contaminated pharmaceuticals and by puncture wounds has also been documented.

The epidemiology of CDC group EF-4b is unlike that of the other bacteria discussed in this chapter. Animals, rather than the environment, are the reservoir, and transmission to humans occurs by dog or cat bites and scratches.

Pathogenesis and Spectrum of Disease

Because these organisms rarely cause human infections, little is known about what, if any, virulence factors they may produce to facilitate infectivity (Table 23-2). The fact that R. radiobacter and O. anthropi infections frequently involve contaminated medical materials and immunocompromised patients, and rarely, if ever, occur in healthy hosts, suggests that these bacteria have relatively low virulence. One report suggests that R. radiobacter is capable of capsule production. The ability of O. anthropi to adhere to the silicone material of catheters may contribute to this organism’s propensity to cause catheter-related infections. No known virulence factors have been described for CDC group EF-4b. Infection appears to require traumatic introduction by a puncture wound, bite, or scratch, which indicates that the organism itself does not express any invasive properties.

TABLE 23-2

Pathogenesis and Spectrum of Disease

Species Virulence Factors Spectrum of Disease and Infections
“Achromobacter” group Unknown Rarely isolated from humans.
Isolates have been recovered from wounds, blood, respiratory and gastrointestinal tract.
Rhizobium radiobacter Unknown. One blood isolate described as mucoid, suggestive of exopolysaccharide capsule production. Exposure of immunocompromised or debilitated patient to contaminated medical devices resulting in bacteremia and, less commonly, peritonitis, endocarditis, or urinary tract infection.
CDC group EF-4b Unknown Infected bite wounds of fingers, hands, or arm leading to cellulitis or abscess formation. Systemic infections are rare.
Paracoccus yeei Unknown No infections described in humans. Rarely encountered in clinical specimens.
Psychrobacter immobilis Unknown Rare cause of infection in humans. Has been described in wound and catheter site infections, meningitis, and eye infections.
CDC group OFBA-1 Unknown Rarely isolated from clinical specimens; found in blood, respiratory, wound, and catheter specimens.
Ochrobactrum anthropi Unknown. Exhibits ability to adhere to silicone catheter material in a manner similar to staphylococci. Catheter- and foreign body–associated bacteremia. May also cause pyogenic infections, community-acquired wound infections, and meningitis in tissue graft recipients. Patients are usually immunocompromised or otherwise debilitated.
Shewanella putrefaciens Unknown Clinical significance uncertain; often found in mixed cultures. Has been implicated in cellulites, otitis media, and septicemia; also may be found in respiratory tract, urine, feces and pleural fluid

For both R. radiobacter and O. anthropi, bacteremia is the most common type of infection (see Table 23-2); peritonitis, endocarditis, meningitis, urinary tract, and pyogenic infections are much less commonly encountered. R. radiobacter is frequently isolated from blood, peritoneal dialysate, urine, and ascitic fluid. Cellulitis and abscess formation typify the infections resulting from the traumatic introduction of CDC group EF-4b into the skin and subcutaneous tissue.

Although other species listed in Table 23-2 may be encountered in clinical specimens, their association with human infection is rare, and their clinical significance in such encounters should be carefully analyzed.

Laboratory Diagnosis

Specimen Collection and Transport

No special considerations are required for specimen collection and transport of the organisms discussed in this chapter. Refer to Table 5-1 for general information on specimen collection and transport.

Cultivation

Media of Choice

Rhizobium sp., P. yeei, CDC group Ic, CDC group O-3, S. putrefaciens, CDC group EF-4b, Ochrobactrum spp., CDC group OFBA-1, and Psychrobacter spp. grow well on routine laboratory media such as 5% sheep blood, chocolate, and MacConkey agars. These organisms also grow well in the broth of blood culture systems and in common nutrient broths such as thioglycollate and brain-heart infusion.

Colonial Appearance

Table 23-3 presents descriptions of the colonial appearance and other distinguishing characteristics (e.g., hemolysis and odor) of each genus when grown on 5% sheep blood or MacConkey agar.

TABLE 23-3

Colonial Appearance and Characteristics

Organism Medium Appearance
“Achromobacter” group BA Flat, spreading and rough colonies
Mac NLF; biovar F does not grow
CDC group EF-4b BA No distinctive appearance, but cultures smell like popcorn
Mac NLF
CDC group Ic BA No distinctive appearance
Mac NLF
CDC group O-3 BA Circular, entire, translucent, very punctate
Mac NLF, may grow poorly or not at all
CDC group OFBA-1 BA Beta-hemolytic
Mac NLF
Ochrobactrum anthropi BA Resembles colonies of Enterobacteriaceae, only smaller
Mac NLF
Paracoccus yeei BA Growth frequently mucoid
Mac NLF
Psychrobacter immobilis BA No distinctive appearance but usually does not grow well at 35°C; grows best at 20°C; cultures (saccharolytic strains) smell like roses
Mac NLF
Rhizobium radiobacter BA No distinctive appearance
Mac NLF (mucoid pink after extended incubation [>48 hr])
Shewanella putrefaciens BA Convex, circular, smooth; occasionally mucoid; lavender greening of blood agar; soluble brown to tan pigment
Mac NLF

image

BA, 5% sheep blood agar; Mac, MacConkey agar; NLF, non–lactose fermenter.

Approach to Identification

The ability of most commercial identification systems to accurately identify the organisms discussed in this chapter is limited or uncertain. Identification often requires the use of conventional biochemical profiles.

The key biochemical reactions used to presumptively differentiate among the genera discussed in this chapter are provided in Table 23-4. However, definitive identification of these organisms often requires performing an extensive battery of biochemical tests not commonly available in many clinical microbiology laboratories. Therefore, full identification of clinically relevant isolates may require identification by a reference laboratory.

TABLE 23-4

Key Biochemical and Physiologic Characteristics

Organism Oxidizes Glucose Oxidizes Xylose Oxidizes Mannitol Nitrate Reduction Gas from Nitrate Arginine Dihydrolase Esculin Hydrolyzed Growth on Cetrimide
“Achromobacter” groupa,b + + v + + + + v
CDC group EF–4b + + ND
CDC group Ic + + + +
CDC group O–3 + + + ND
CDC group OFBA–1c + + (+) + + + +
Ochrobactrum anthropib + + v v v v v
Paracoccus yeei + + + v v
Psychrobacter immobilisd (+) (+) v v
Rhizobium radiobacter + + + v +
Shewanella putrefaciense v +

image

Compiled from data in Weyant RS, Moss CW, Weaver RE et al, editors: Identification of unusual pathogenic gram-negative aerobic and facultatively anaerobic bacteria, ed 2, Baltimore, 1996, Williams & Wilkins; and Young JM, Kuykendall LD, Martínez-Romero E et al: A revision of Rhizobium Frank, 1889, with an emended description of the genus, and the inclusion of all species of Agrobacterium Conn, 1942 and Allorhizobium undicola de Lajudie et al, 1998 as new combinations: Rhizobium radiobacter, R. rhizogenes, R. rubi, R. undicola and R. vitis, Int J Syst Evol Microbiol 51:89, 2001.

ND, No data available; v, variable; +, >90% of strains are positive; −, >90% of strains are negative; (+), delayed.

aIncludes biovars B, E, and F; F does not grow on MacConkey agar.

bUsually motile by peritrichous flagella.

cOxidizes base.

dSaccharolytic variety; prefers growth at 25°C.

eH2S in butt of triple sugar iron (TSI) agar.

Comments Regarding Specific Organisms

Although the EF portion of the CDC group EF-4b designation stands for eugonic fermenter (an organism that grows well on common laboratory media), most CDC group EF-4b strains oxidize glucose, so the designation as a eugonic fermenter is a misnomer. P. yeei, formerly CDC group EO-2 (a eugonic oxidizer), has a biochemical profile very similar to that of the saccharolytic, nonhemolytic Acinetobacter spp., except that the latter are oxidase negative (see Chapter 21 for more information about this genus).

The notable characteristic of CDC group OFBA-1 is that it produces an acidlike reaction in the OF medium tube, even though no carbohydrates are present. In contrast, R. radiobacter produces acid from various carbohydrates, but it does not acidify the OF tube.

R. radiobacter may be differentiated from Ochrobactrum spp. by a positive β-galactosidase test result. O. anthropi often requires cellular fatty acid analysis for differentiation. Psychrobacter spp. can be either saccharolytic or asaccharolytic, although all members of this genus have an optimal growth temperature of less than 35°C.

CDC group O-3 is often misidentified as Campylobacter spp. because of its curved shape on Gram stain.

Shewanella spp. are notable for the production of hydrogen sulfide (H2S) in the butt of triple sugar iron (TSI) agar; this characteristic is rare among the nonfermentive gram-negative rods. S. algae is halophilic.

Antimicrobial Susceptibility Testing and Therapy

No validated susceptibility testing methods are available for the organisms discussed in this chapter. Although many of these organisms grow on the media and under the conditions recommended for testing of more commonly encountered bacteria (see Chapter 12 for more information on validated testing methods), no standardized reference exists for antimicrobial resistance for these organisms. The lack of validated in vitro susceptibility testing methods does not allow definitive treatment and testing guidelines to be given for the organisms listed in Table 23-5. Although susceptibility data for some of these bacteria can be found in the literature, the lack of understanding of potential underlying resistance mechanisms prohibits the validation of the data. Review Chapter 12 for preferable strategies used to provide susceptibility information and data when validated testing methods do not exist for a clinically relevant bacterial isolate.

TABLE 23-5

Antimicrobial Therapy and Susceptibility Testing

Species Therapeutic Options Potential Resistance to Therapeutic Options Validated Testing Methods* Comments
“Achromobacter” group No definitive guidelines. Human infections are rare. Resistant to narrow-spectrum penicillins, other cephalosporins, and aminoglycosides. Methods are not standardized. Methods used may include broth macrodilution and microdilution, agar dilution, breakpoint, and Etest.  
Rhizobium radiobacter Optimal therapy uncertain. Treatment involves removal of foreign body. Potentially active agents include ceftriaxone, cefotaxime imipenem, gentamicin, and ciprofloxacin Yes Not available Grows on susceptibility testing media, but standards for interpretation of results do not exist.
CDC group EF-4b No definitive guidelines. Potentially active agents include penicillin, ampicillin, ciprofloxacin, and ofloxacin Unknown; some cephalosporins may be less active than the penicillins. Not available Limited clinical data
Paracoccus yeei No definitive guidelines Unknown Not available No clinical data
Psychrobacter immobilis No definitive guidelines.
Usually penicillin susceptible.
Unknown Not available Limited clinical data
CDC group OFBA-1 No definitive guidelines Unknown Not available No clinical data
Ochrobactrum anthropi Optimal therapy uncertain. Treatment involves removal of foreign body. Potentially active agents include trimethoprim-sulfamethoxazole, ciprofloxacin, and imipenem; aminoglycoside activity variable Commonly resistant to all penicillins and cephalosporins. Not available Grows on susceptibility testing media, but standards for interpretation of results do not exist.
Shewanella putrefaciens No definitive guidelines. Generally susceptible to various antimicrobial agents Often resistant to ampicillin and cephalothin Not available  

image

*Validated testing methods include standard methods recommended by the Clinical and Laboratory Standards Institute (CLSI) and commercial methods approved by the U.S. Food and Drug Administration (FDA).

Because R. radiobacter and O. anthropi infections are frequently associated with implanted medical devices, therapeutic management of the patient often involves removal of the contaminated material. Although definitive antimicrobial therapies for these infections have not been established, in vitro data suggest that certain agents could be more effective than others (see Table 23-5). Most strains of R. radiobacter are susceptible to cephalosporins, carbapenems, tetracyclines, and gentamicin.

O. anthropi is commonly resistant to all currently available penicillins, cephalosporins, aztreonam, and amoxicillin-clavulanate but usually is susceptible to aminoglycosides, fluoroquinolones, imipenem, tetracycline, and trimethoprim-sulfamethoxazole. O. anthropi (colistin susceptible) may be differentiated from O. intermedium by colistin resistance. This resistance profile is sufficiently consistent with the species, making it potentially useful for confirming the organism’s identification. The organism may also appear susceptible to trimethoprim-sulfamethoxazole and ciprofloxacin, but antimicrobial therapy without removal of the contaminated medical device may not successfully eradicate the organism.

Prevention

Because these organisms are ubiquitous in nature and are not generally a threat to human health, no recommended vaccination or prophylaxis protocols have been established. Hospital-acquired infections are controlled by following appropriate sterile techniques, infection control guidelines and by implementing effective protocols for the sterilization and decontamination of medical supplies.