PMC9938668_01
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
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Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
PMC9938668_02
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
IDR-16-869-g0001.jpg
PMC9938668_06_IDR-16-869-g0001.jpg
f0001
Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
PMC9938668_03
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
IDR-16-869-g0001.jpg
PMC9938668_06_IDR-16-869-g0001.jpg
f0001
Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
Sequencing results and evolutionary tree for case 3, 4, 5. (A) Genome coverage of Case: Mapping of the 864 mNGS reads from Chlamydia psittaci to reference genome. (B) Case: Mapping of the 102 reads. (C) Case 5: Mapping of the 2 reads. (D) Electrophoresis of ompA gene. PCR product sequencing showed that sequences ~1000 bp in size were obtained from all 3 samples. These 3 bands correspond to the expected fragment size. (E) Phylogenetic tree of ompA gene. Coverage: the percentage of the genome covered by reads over 1x. Average depth: average sequencing depth. The number of bases aligned to the reference genome divided by the length of the genome.
IDR-16-869-g0002.jpg
PMC9938668_06_IDR-16-869-g0002.jpg
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All three samples were greater than 1000 bp in size (Figure 2D). All C. psittaci-positive samples shared the highest ompA similarity with C. psittaci strain 41A12, which belongs to the B genotype(Figure 2E).
PMC9938668_04
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
IDR-16-869-g0001.jpg
PMC9938668_06_IDR-16-869-g0001.jpg
f0001
Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
Sequencing results and evolutionary tree for case 3, 4, 5. (A) Genome coverage of Case: Mapping of the 864 mNGS reads from Chlamydia psittaci to reference genome. (B) Case: Mapping of the 102 reads. (C) Case 5: Mapping of the 2 reads. (D) Electrophoresis of ompA gene. PCR product sequencing showed that sequences ~1000 bp in size were obtained from all 3 samples. These 3 bands correspond to the expected fragment size. (E) Phylogenetic tree of ompA gene. Coverage: the percentage of the genome covered by reads over 1x. Average depth: average sequencing depth. The number of bases aligned to the reference genome divided by the length of the genome.
IDR-16-869-g0002.jpg
PMC9938668_06_IDR-16-869-g0002.jpg
f0002
All three samples were greater than 1000 bp in size (Figure 2D). All C. psittaci-positive samples shared the highest ompA similarity with C. psittaci strain 41A12, which belongs to the B genotype(Figure 2E).
PMC9938668_05
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
IDR-16-869-g0001.jpg
PMC9938668_06_IDR-16-869-g0001.jpg
f0001
Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
Sequencing results and evolutionary tree for case 3, 4, 5. (A) Genome coverage of Case: Mapping of the 864 mNGS reads from Chlamydia psittaci to reference genome. (B) Case: Mapping of the 102 reads. (C) Case 5: Mapping of the 2 reads. (D) Electrophoresis of ompA gene. PCR product sequencing showed that sequences ~1000 bp in size were obtained from all 3 samples. These 3 bands correspond to the expected fragment size. (E) Phylogenetic tree of ompA gene. Coverage: the percentage of the genome covered by reads over 1x. Average depth: average sequencing depth. The number of bases aligned to the reference genome divided by the length of the genome.
IDR-16-869-g0002.jpg
PMC9938668_06_IDR-16-869-g0002.jpg
f0002
All three samples were greater than 1000 bp in size (Figure 2D). All C. psittaci-positive samples shared the highest ompA similarity with C. psittaci strain 41A12, which belongs to the B genotype(Figure 2E).
PMC9938668_06
Chlamydia psittaci appearance on chest CT in Cases 1-6 (A-F) on the day of admission (left) and after treatment (right).
IDR-16-869-g0001.jpg
PMC9938668_06_IDR-16-869-g0001.jpg
f0001
Chest CT images obtained on the second day of hospitalization showed an air bronchogram in the right subpleural area with GGOs and halo signs (Figure 1F, left). After 6 days of doxycycline treatment, the patient's right upper lobe lesions improved and were totally absorbed (Figure 1F, right).
Sequencing results and evolutionary tree for case 3, 4, 5. (A) Genome coverage of Case: Mapping of the 864 mNGS reads from Chlamydia psittaci to reference genome. (B) Case: Mapping of the 102 reads. (C) Case 5: Mapping of the 2 reads. (D) Electrophoresis of ompA gene. PCR product sequencing showed that sequences ~1000 bp in size were obtained from all 3 samples. These 3 bands correspond to the expected fragment size. (E) Phylogenetic tree of ompA gene. Coverage: the percentage of the genome covered by reads over 1x. Average depth: average sequencing depth. The number of bases aligned to the reference genome divided by the length of the genome.
IDR-16-869-g0002.jpg
PMC9938668_06_IDR-16-869-g0002.jpg
f0002
All three samples were greater than 1000 bp in size (Figure 2D). All C. psittaci-positive samples shared the highest ompA similarity with C. psittaci strain 41A12, which belongs to the B genotype(Figure 2E).
Bronchoscope imagings of all cases after hospitalization. All patients showed hyperemia and swelling of bronchial mucosa, significant exudation in the bronchi, and a little of white secretions in the segmental bronchi.
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Supplementary. Significant congestion in the bronchial lumen of the lung was observed in all patients in fiberoptic bronchoscopy (Figure 3).