A method for detecting presence of a pathogen selected from the group consisting of Pseudomonas aeruginosa, Pneumocystis jirovecii, Bartonella spp., Acinetobacter baumannii, Klebsiella pneumoniae, Toxoplasma gondii, Moraxella catarrhalis, Escherichia coli, Shigella, Staphylococcus aureus, Chlamydia trachomatis, Ureaplasma urealyticum, Ureaplasma parvum, Ureaplasma spp., Streptococcus agalactiae, and a combination of two or more thereof in a sample, comprising:
- contacting the sample with one or more nucleic acid probes between 20 and 40 nucleotides in length comprising a nucleic acid sequence set forth as any one of SEQ ID NOs:
- 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 56, 60, or the reverse complement thereof;
- and
- detecting hybridization between the one or more probes and a nucleic acid in the sample, wherein detection of hybridization indicates the presence of one or more of said pathogens in the sample.