PMC10358748_01
(a) Chest CT revealed cavitary lesion (56 mm x 41 mm) in the lower lobe of the left lung in case 1. (b) Chest-enhanced CT of case 2 showing a mass in the upper lobe of the left lung (about 45 x 34 mm). (c) A ches- enhanced CT scan revealed a soft tissue mass shadow in the upper lobe of the left lung in case 3.
j_biol-2022-0651-fig001.jpg
PMC10358748_03_j_biol-2022-0651-fig001.jpg
j_biol-2022-0651_fig_001
A few solid shadows in the lower lobes of both lungs were seen (Figure 1c).
Read numbers and relative abundance of pathogens in three patients using two different taxonomic software. (a) The read numbers of pathogens at the genus level. (b) Taxonomic composition and relative abundance of pathogens at the species level.
j_biol-2022-0651-fig002.jpg
PMC10358748_03_j_biol-2022-0651-fig002.jpg
j_biol-2022-0651_fig_002
Shotgun mNGS analysis revealed Fs and Streptococcus genus accounting for 66.2% of the total abundance, and a low amount of diversified microbiomes were detected such as Rhodococcus (6.8%) and Campylobacter (4.6%) (Figure 2e and 2f).
PMC10358748_02
(a) Chest CT revealed cavitary lesion (56 mm x 41 mm) in the lower lobe of the left lung in case 1. (b) Chest-enhanced CT of case 2 showing a mass in the upper lobe of the left lung (about 45 x 34 mm). (c) A ches- enhanced CT scan revealed a soft tissue mass shadow in the upper lobe of the left lung in case 3.
j_biol-2022-0651-fig001.jpg
PMC10358748_03_j_biol-2022-0651-fig001.jpg
j_biol-2022-0651_fig_001
A few solid shadows in the lower lobes of both lungs were seen (Figure 1c).
Read numbers and relative abundance of pathogens in three patients using two different taxonomic software. (a) The read numbers of pathogens at the genus level. (b) Taxonomic composition and relative abundance of pathogens at the species level.
j_biol-2022-0651-fig002.jpg
PMC10358748_03_j_biol-2022-0651-fig002.jpg
j_biol-2022-0651_fig_002
Shotgun mNGS analysis revealed Fs and Streptococcus genus accounting for 66.2% of the total abundance, and a low amount of diversified microbiomes were detected such as Rhodococcus (6.8%) and Campylobacter (4.6%) (Figure 2e and 2f).
PMC10358748_03
(a) Chest CT revealed cavitary lesion (56 mm x 41 mm) in the lower lobe of the left lung in case 1. (b) Chest-enhanced CT of case 2 showing a mass in the upper lobe of the left lung (about 45 x 34 mm). (c) A ches- enhanced CT scan revealed a soft tissue mass shadow in the upper lobe of the left lung in case 3.
j_biol-2022-0651-fig001.jpg
PMC10358748_03_j_biol-2022-0651-fig001.jpg
j_biol-2022-0651_fig_001
A few solid shadows in the lower lobes of both lungs were seen (Figure 1c).
Read numbers and relative abundance of pathogens in three patients using two different taxonomic software. (a) The read numbers of pathogens at the genus level. (b) Taxonomic composition and relative abundance of pathogens at the species level.
j_biol-2022-0651-fig002.jpg
PMC10358748_03_j_biol-2022-0651-fig002.jpg
j_biol-2022-0651_fig_002
Shotgun mNGS analysis revealed Fs and Streptococcus genus accounting for 66.2% of the total abundance, and a low amount of diversified microbiomes were detected such as Rhodococcus (6.8%) and Campylobacter (4.6%) (Figure 2e and 2f).
PCA of the datasets in the Fusobacterium and Streptococcus genus using KMA and Blastn. The green circles and red-brown triangles represent the Blastn and KMA taxonomic methods, respectively. The PCA results for the two taxonomic methods showed similar results in general, which reflects consistency in classification, despite the different methods used.
j_biol-2022-0651-fig003.jpg
PMC10358748_03_j_biol-2022-0651-fig003.jpg
j_biol-2022-0651_fig_003
To estimate the microbiome community structure differences in different taxonomic classification methods, a PCA was performed and reflects Fs and Streptococcus consistency in classification, despite particular deviations in relative abundance (Figure 3).