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Microbiology

The department of Microbiology offers a high quality, 24-hour interpretative diagnostic Microbiology service to local hospitals and the community. As well as routine bacteriological culture, the department offers serological testing, liquid mycobacterial culture and rapid molecular detection techniques for the diagnosis of chlamydia. The department works in collaboration with the HPA and regional CCDCs to contribute to epidemiological surveillance and public health medicine.  The Microbiology department operates on both the York and Scarborough sites.

Use of the Laboratory

In these days of clinical budgeting everyone is encouraged to use the laboratory in a cost-effective manner.

The microbiology laboratory can help to:

  • provide or confirm a diagnosis
  • suggest appropriate antibiotics
  • monitor response to treatment

Inevitably judgements will have to be made about whether to treat blind or request an investigation which may cost more than a course of antibiotics. 

Failure to investigate may lead to:

  • An increased use of antibiotics causing possible harm to patients
  • An increasing reliance on expensive new broad spectrum agents
  • Increasing antibiotic resistance in the community (and concomitant lack of knowledge of this)
  • Difficulty in establishing a diagnosis when a patient has failed to respond to treatment

Laboratory Methods

Microbiology assesses the clinical relevance of investigations performed and the reliability of interpretative comments in consultation with its users through user surveys and general feedback.

New tests/services may be commissioned through discussions with the Clinical Microbiologists.

Methodology and testing is benchmarked against the Health Protection Agency (HPA) national standard operating procedures, whose web-site offers valuable information on microbiological disease processes and associated microbiological investigations. https://www.gov.uk/government/collections/standards-for-microbiology-investigations-smi

Contacts for the Microbiology Service:

For general result and specimen enquiries, clinical advice and key contact details for the Microbiology service: Click Here

For Infection Prevention key contact details: Click Here

Test Repertoire:

Microbiology provide a comprehensive traditional bacteriology service.  In addition the following tests are available.

Microbiology test information:  Click Here

Microbiology referred samples: Click Here

Specimens for routine investigations should be collected as early in the day as possible to ensure that they arrive in the laboratory during normal working hours.

Routine Requests

Specimens for routine investigations should be collected as early in the day as possible to ensure that they arrive in the laboratory during normal working hours.

Urgent Requests

Urgent Requests must be telephoned to alert the laboratory staff of their arrival. The request form must be clearly marked URGENT.

The Microbiology BMS on call MUST be contacted by the Switchboard Operator when ANY specimen requires urgent microbiological analysis out of normal working hours.   It is the responsibility of the doctor initiating the request to ensure that all urgent and important samples are expected by the relevant Laboratory.

Add on Tests (requesting further tests on samples already received in the laboratory)

For information: Click Here 

Frequency of assays

Turn Around Times

For information on expected turnaround time  Click Here


Key Factors which are known to affect the perfomance of Microbiology tests or interpretation of results

In general all specimens should reach the laboratory as soon as possible after being taken. Micro-organisms may be susceptible to drying, heat or cold (particularly freezing). In specimens such as sputum and urine they can multiply to inappropriate levels. Genital pathogens and anaerobic organisms are particularly sensitive to delays before culturing All bacterial swabs should be placed in Amies transport medium (the clear jelly seen in may swab tubes) that prevents drying, maintains pH and excludes oxygen; and kept at room temperature until delivery to the laboratory. Urine for culture should always be taken into the borate containing red-topped 30ml bottles to prevent bacterial overgrowth. Refrigerate until delivery. Specimens of clotted blood (brown top “serum” tubes) are suitable for all serological tests. Refrigerate until delivery: do NOT freeze. Blood cultures - Keep at room temperature and send the broths to the laboratory. Do not place on radiators etc as they get too hot (many pathogens cannot tolerate temperatures over 37°C).

Web page last updated: 6th February 2017

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We are currently working with reduced staffing levels within the Contact Centre.  This may mean that some of our patients encounter extended wait times when calling the Contact Centre.  This is not the level of service we wish to offer our patients and we are working hard to improve the situation.  If you wish to request to reschedule or cancel your appointment, you can complete our online form

We apologise for the inconvenience caused.