RT Journal Article
SR Electronic
T1 A Metagenomic Analysis with Oligotrophic Enrichment Approach for Detecting Specified Microorganisms
JF PDA Journal of Pharmaceutical Science and Technology
JO PDA J Pharm Sci Technol
FD Parenteral Drug Association (PDA)
SP 753
OP 754
DO 10.5731/pdajpst.2024.99902
VO 78
IS 6
A1 Marasa, B.
A1 Gaoh, S. Daddy
A1 Alusta, P.
A1 Lee, Y-.J.
A1 LiPuma, J.J.
A1 Hussong, D.
A1 Ahn, Y.
YR 2024
UL http://journal.pda.org/content/78/6/753.abstract
AB In pharmaceutical manufacturing, benefit is conferred in detection of specified microorganism (i.e., Burkholderia cepacia complex (BCC), E. coli, Pseudomonas aeruginosa, Salmonella enterica) not readily identified by culture-dependent methods. It's logical to test for the presence of “specified microorganism” using metagenomic analysis before culturing a “specified organism”, especially when the organism isn't easy to culture. We developed a metagenomic analysis during enrichment to identify specified organisms. The enriched bacterial community consisted predominantly of Bacillus spp. and Stenotrophomonas spp., each contributing about 97-99% to total taxon abundance in TSB and 1/10× TSB. The specified microorganisms that were observed were Clostridium spp., Burkholderia spp., and Staphylococcus spp. (0.04 - 0.07%) in TSB, otherwise Burkholderia spp., Pseudomonas spp., Salmonella spp., Staphylococcus spp. and Escherichia spp. (0.01 - 1.73%) in 1/10× TSB. PreQ0 biosynthesis (PWY-6703) and guanosine ribonucleotides de novo biosynthesis (PWY-7221) were the most abundant pathways in 1/10× TSB-24 h. BCC chiefly contributed to the toluene degradation (PWY-5180 and PWY-5182) pathways. Initial results demonstrate the potential of the metagenomic approach during enrichment in water-based environments. These results indicate that a metagenomic enrichment approach to evaluating water samples can be useful to monitor specified organisms over time, including oligotrophs such as BCC in 1/10× TSB.