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

DOI: 10.1128/JCM.36.1.90-93.1998

Article Figures & Data

Table 1.

Clinical details

Sample	Year of acquisition	Age of patient (yr)	Underlying immunodeficiency
LT68	1968	Unknown	Unknown
US3846	1970	8^a	Unknown (low cellular and humoral responses)
US3885	1970	25	Hypogammaglobulinemia
US4001	1971	7	Stem-cell leukemia
US4015	1971	25	None (bronchiectasis)
SP81	1981	31	Chronic myeloid leukemia

Table 2.

Details of DNA amplification

Table 3.

Oligonucleotides used

Primer	Sequence
pAZ102-H/RI	5′-GGGAATTCGTGTACGTTGCAAAGTACTC-3′
pAZ102-E/RI	5′-GGGAATTCGATGGCTGTTTCCAAGCCCA-3′
pAZ102-X/RI	5′-GGGAATTCGTGAAATACAAATCGGACTAGG-3′
pAZ102-Y/RI	5′-GGGAATTCTCACTTAATATTAATTGGGGAGC-3′
NITSF	5′-GTCGTAACAAGGTTTCCGTA-3′
NITSR	5′-CCTCCGCTTATTGATATGCT-3′
ITSF3/RI	5′-GGGAATTCCTGCGGAAGGATCATTAGAAA-3′
ITSF3/RI	5′-GGGAATTCGATTTGAGATTAAAATTCTTG-3′
pAZ112-10F/RI	5′-GGGAATTCTAGACGGTCACAGAGATCAG-3′
pAZ112-10R/RI	5′-GGGAATTCGAACGATTACTAGCAATTCC-3′
pAZ112-13/RI	5′-GGGAATTCGAAGCATGTTGTTTAATTCG-3′
pAZ112-14/RI	5′-GGGAATTCTTCAAAGAA(T,C)CGAGTT(T,C)CAG-3′
AroFunivB	5′-ATCCCACCAN(T,C)(A,C)NGGCCA-3′
AroFunivC	5′-(A,G)ATATGGA(A,G)(T,C)CAATGACNGA-3′
HsPcaro1/RI	5′-GGGAATTCTTAACAACAACAATTTTAGCC-3′
HsPcaro2/RI	5′-GGGAATTCGGTGAAATGCATGCCAAGAC-3′

Table 4.

Nucleotide sequence types in P. carinii f. sp. hominis^a

Sample	ITS sequence type	Nucleotide at indicated position in gene encoding:
		mt LSU rRNA			mt SSU rRNA		arom locus
		81	85	248	160	196	121	208
LT68	B₁a₁	C	T	C	C	T	C	A
	B₂a₁
US3846	B₁a₁	C	T	ND^d	A	G	C	A
	B₂a₁	C	C	ND	C	T
	B₂a₄ ^b
US3885	A₂c₁	C	T	ND	A	G	C	A
	A₂c₂ ^b	C	C	ND
	A₃c₁ ^b
US4001	B₁a₃	C	T	ND	ND	ND	ND	ND
	B₃a₃	C	C	ND
US4015	B₁b₂	C	C	ND	ND	ND	ND	ND
SP81	B₂a₁	T^c	C	C	ND	ND	ND	ND

↵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 6.

P. carinii f. sp. hominis ITS2 sequence types^a

↵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.