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Mycology

Pre-AIDS Era Isolates of Pneumocystis carinii f. sp. hominis: High Genotypic Similarity with Contemporary Isolates

Anthony G. Tsolaki, Pieter Beckers, Ann E. Wakefield
Anthony G. Tsolaki
Molecular Infectious Diseases Group, Department of Paediatrics, Institute of Molecular Medicine, John Radcliffe Hospital, Oxford, OX3 9DS, United Kingdom, and
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Pieter Beckers
Department of Medical Microbiology, University Hospital Nijmegen, Nijmegen, The Netherlands
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Ann E. Wakefield
Molecular Infectious Diseases Group, Department of Paediatrics, Institute of Molecular Medicine, John Radcliffe Hospital, Oxford, OX3 9DS, United Kingdom, and
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DOI: 10.1128/JCM.36.1.90-93.1998
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Tables

  • Table 1.

    Clinical details

    SampleYear of acquisitionAge of patient (yr)Underlying immunodeficiency
    LT681968UnknownUnknown
    US384619708a Unknown (low cellular and humoral responses)
    US3885197025Hypogammaglobulinemia
    US400119717Stem-cell leukemia
    US4015197125None (bronchiectasis)
    SP81198131Chronic myeloid leukemia
    • ↵a Eight months.

  • Table 2.

    Details of DNA amplification

    SampleType of PCR for gene encoding:
    mt LSU rRNAITSarom locusmt SSU rRNA
    LT68SingleSingleNestedSingle
    US3846NestedNestedNestedNested
    US3885NestedNestedNestedNested
    US4001NestedNested
    US4015NestedNested
    SP81SingleSingle
  • Table 3.

    Oligonucleotides used

    PrimerSequence
    pAZ102-H/RI5′-GGGAATTCGTGTACGTTGCAAAGTACTC-3′
    pAZ102-E/RI5′-GGGAATTCGATGGCTGTTTCCAAGCCCA-3′
    pAZ102-X/RI5′-GGGAATTCGTGAAATACAAATCGGACTAGG-3′
    pAZ102-Y/RI5′-GGGAATTCTCACTTAATATTAATTGGGGAGC-3′
    NITSF5′-GTCGTAACAAGGTTTCCGTA-3′
    NITSR5′-CCTCCGCTTATTGATATGCT-3′
    ITSF3/RI5′-GGGAATTCCTGCGGAAGGATCATTAGAAA-3′
    ITSF3/RI5′-GGGAATTCGATTTGAGATTAAAATTCTTG-3′
    pAZ112-10F/RI5′-GGGAATTCTAGACGGTCACAGAGATCAG-3′
    pAZ112-10R/RI5′-GGGAATTCGAACGATTACTAGCAATTCC-3′
    pAZ112-13/RI5′-GGGAATTCGAAGCATGTTGTTTAATTCG-3′
    pAZ112-14/RI5′-GGGAATTCTTCAAAGAA(T,C)CGAGTT(T,C)CAG-3′
    AroFunivB5′-ATCCCACCAN(T,C)(A,C)NGGCCA-3′
    AroFunivC5′-(A,G)ATATGGA(A,G)(T,C)CAATGACNGA-3′
    HsPcaro1/RI5′-GGGAATTCTTAACAACAACAATTTTAGCC-3′
    HsPcaro2/RI5′-GGGAATTCGGTGAAATGCATGCCAAGAC-3′
  • Table 4.

    Nucleotide sequence types in P. carinii f. sp. hominisa

    SampleITS sequence typeNucleotide at indicated position in gene encoding:
    mt LSU rRNAmt SSU rRNAarom locus
    8185248160196121208
    LT68B1a1 CTCCTCA
    B2a1
    US3846B1a1 CTNDd AGCA
    B2a1 CCNDCT
    B2a4 b
    US3885A2c1 CTNDAGCA
    A2c2 b CCND
    A3c1 b
    US4001B1a3 CTNDNDNDNDND
    B3a3 CCND
    US4015B1b2 CCNDNDNDNDND
    SP81B2a1 Tc CCNDNDNDND
    • ↵a New sequences were compared to sequences for ITS sequence types and the genes encoding mt LSU rRNA, mt SSU rRNA, and the arom locus from references 15, 14, 4, and 1, respectively, used as standards.

    • ↵b New sequence type identified in this study.

    • ↵c New variation at this nucleotide position.

    • ↵d ND, not determined.

  • Table 5.

    P. carinii f. sp. hominis ITS1 sequence typesa

    ITS1 sequence typeNucleotide(s) at position(s):
    21674–75111–113
    A2 CT—c TTA
    A3 b TA—TTA
    B1 TTAGTTA
    B2 TAAGTTA
    B3 CTAGTTA
    CTTAG—
    • ↵a Sequence in reference15 was used as a standard for comparison with new sequences.

    • ↵b New sequence type identified in this study.

    • ↵c —, nucleotide absent at this position.

  • Table 6.

    P. carinii f. sp. hominis ITS2 sequence typesa

    ITS2 sequence typeNucleotide(s) at position(s):
    54–566367–71122169–172176
    a1 TAA—c AATAT——G
    a2 TAA—AATAA——G
    a3 TAA—AATAA——A
    a4 b TAA—AATAT——A
    b1 TAA—AATAT——ATG
    b2 TAA—AATATC—ATG
    c1 —A———A
    c2 b —A———G
    dTAA—AATAT—ATATG
    • ↵a Sequence in reference15 was used as a standard for comparison with new sequences.

    • ↵b New sequence type identified in this study.

    • ↵c —, nucleotide absent at this position.

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Pre-AIDS Era Isolates of Pneumocystis carinii f. sp. hominis: High Genotypic Similarity with Contemporary Isolates
Anthony G. Tsolaki, Pieter Beckers, Ann E. Wakefield
Journal of Clinical Microbiology Jan 1998, 36 (1) 90-93; DOI: 10.1128/JCM.36.1.90-93.1998

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Pre-AIDS Era Isolates of Pneumocystis carinii f. sp. hominis: High Genotypic Similarity with Contemporary Isolates
Anthony G. Tsolaki, Pieter Beckers, Ann E. Wakefield
Journal of Clinical Microbiology Jan 1998, 36 (1) 90-93; DOI: 10.1128/JCM.36.1.90-93.1998
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