Microbial isolation and characterization from two flex lines from the urine processor assembly onboard the International Space Station

Biofilm - Tập 5 - Trang 100108 - 2023
Hang Ngoc Nguyen1, G. Marie Sharp2, Sarah Stahl-Rommel1, Yo-Ann Velez Justiniano3, Christian L. Castro1, Mayra Nelman-Gonzalez2, Aubrie O’Rourke4, Michael D. Lee5, Jill Williamson3, Chelsea McCool6, Brian Crucian7, Kenneth W. Clark1, Miten Jain8, Sarah L. Castro-Wallace7
1JES Tech, Houston, TX, USA
2KBR, Houston, TX, USA
3Space Systems Department, NASA Marshall Space Flight Center, Huntsville, AL, USA
4Exploration Research and Technology, NASA Kennedy Space Center, Merritt Island, FL, USA
5KBR, Moffett Field, CA, USA
6Jacobs, Huntsville, AL, USA
7Biomedical Research and Environmental Sciences Division, NASA Johnson Space Center, Houston, TX, USA
8Department of Bioengineering, Department of Physics, Northeastern University, Boston, MA, USA

Tài liệu tham khảo

Carter, 2009, Status of the regenerative ECLSS water recovery system, 2688 Volpin, 2020, Urine treatment on the international space station: current practice and novel approaches, Membranes, 10, 10.3390/membranes10110327 Carter, 2011, Status of ISS water management and recovery Williamson, 2019, Upgrades to the international space station urine processor assembly Kelsey, 2021, Closing the water loop for exploration: 2020-2021 status of the brine processor assembly Yamaguchi, 2014, Microbial monitoring of crewed habitats in space-current status and future perspectives, Microb Environ, 29, 250, 10.1264/jsme2.ME14031 Zea, 2018, Design of a spaceflight biofilm experiment, Acta Astronaut, 148, 294, 10.1016/j.actaastro.2018.04.039 Castro-Wallace, 2017, Nanopore DNA sequencing and genome assembly on the international space station, Sci Rep, 7, 10.1038/s41598-017-18364-0 Stahl-Rommel, 2021, Real-time culture-independent microbial profiling onboard the international space station using nanopore sequencing, Genes, 12, 106, 10.3390/genes12010106 Burton, 2020, Off Earth identification of bacterial populations using 16S rDNA nanopore sequencing, Genes, 11, 10.3390/genes11010076 De Coster, 2018, Visualizing and processing long-read sequencing data, Bioinformatics, 34, 2666, 10.1093/bioinformatics/bty149 Li, 2009, The sequence alignment/map format and SAMtools, Bioinformatics, 25, 2078, 10.1093/bioinformatics/btp352 Jain, 2015, Improved data analysis for the MinION nanopore sequencer, Nat Methods, 12, 351, 10.1038/nmeth.3290 2021 Epskamp, 2012, Borsboom, D. Qgraph: network visualizations of relationships in psychometric data, J Stat Software, 48, 1, 10.18637/jss.v048.i04 Wickham, 2009 Kolde, 2015 Bushnell Wick, 2017, Completing bacterial genome assemblies with multiplex MinION sequencing, Microb Genom, 3 Wick Wick, 2017, Unicycler: resolving bacterial genome assemblies from short and long sequencing reads, PLoS Comput Biol, 13, 10.1371/journal.pcbi.1005595 Parks, 2015, CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes, Genome Res, 25, 1043, 10.1101/gr.186072.114 Jain, 2018, High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries, Nat Commun, 9, 5114, 10.1038/s41467-018-07641-9 Tatusova, 2016, NCBI prokaryotic genome annotation pipeline, Nucleic Acids Res, 44, 6614, 10.1093/nar/gkw569 Blin, 2021, antiSMASH 6.0: improving cluster detection and comparison capabilities, Nucleic Acids Res, 49, W29, 10.1093/nar/gkab335 Carattoli, 2020, PlasmidFinder and in silico pMLST: identification and typing of plasmid replicons in whole-genome sequencing (WGS), 285 Clark, 2015, GenBank, Nucleic Acids Res, 44, D67, 10.1093/nar/gkv1276 Eren, 2021, Community-led, integrated, reproducible multi-omics with anvi'o, Nature microbiology, 6, 3, 10.1038/s41564-020-00834-3 Nguyen, 2017, Designing polymeric adhesives for antimicrobial materials: poly(ethylene imine) polymer, graphene, graphene oxide and molybdenum trioxide – a biomimetic approach, J Mater Chem B, 5, 6616, 10.1039/C7TB00722A Weir, N., Wilson, M., Yoets, A., Molina, T., Bruce, R., Carter, L. Microbiological characterization of the international space station water processor assembly external filter assembly S/N 01. In Proceedings of 42nd international conference on environmental systems; p. 3595.. Zea, 2020, Potential biofilm control strategies for extended spaceflight missions, Biofilms, 2 Yang, 2021, Longitudinal characterization of multispecies microbial populations recovered from spaceflight potable water, npj Biofilms and Microbiomes, 7, 70, 10.1038/s41522-021-00240-5 Pathak, 2017, Genome-centric evaluation of Burkholderia sp. strain SRS-W-2-2016 resistant to high concentrations of uranium and nickel isolated from the Savannah River Site (SRS), USA, Genomics Data, 12, 62, 10.1016/j.gdata.2017.02.011 You, 2021, Potential of cadmium resistant Burkholderia contaminans strain ZCC in promoting growth of soy beans in the presence of cadmium, Ecotoxicol Environ Saf, 211, 10.1016/j.ecoenv.2021.111914 Schuerger, 2021, Fusarium oxysporum as an opportunistic fungal pathogen on zinnia hybrida plants grown on board the international space station, Astrobiology, 21, 1029, 10.1089/ast.2020.2399 Sawana, 2014, Molecular signatures and phylogenomic analysis of the genus Burkholderia: proposal for division of this genus into the emended genus Burkholderia containing pathogenic organisms and a new genus Paraburkholderia gen. nov. harboring environmental species, Front Genet, 5, 10.3389/fgene.2014.00429 Lood, 2021, Genomics of an endemic cystic fibrosis Burkholderia multivorans strain reveals low within-patient evolution but high between-patient diversity, PLoS Pathog, 17, 10.1371/journal.ppat.1009418 O'Rourke, 2020, Genomic and phenotypic characterization of Burkholderia isolates from the potable water system of the International Space Station, PLoS One, 15 Yu, 2020, An operon consisting of a P-type ATPase gene and a transcriptional regulator gene responsible for cadmium resistances in Bacillus vietamensis 151–6 and Bacillus marisflavi 151–25, BMC Microbiol, 20, 18, 10.1186/s12866-020-1705-2 Leplae, 2011, Diversity of bacterial type II toxin-antitoxin systems: a comprehensive search and functional analysis of novel families, Nucleic Acids Res, 39, 5513, 10.1093/nar/gkr131 Prakash, 2019, Structure and function of an unusual flavodoxin from the domain Archaea, Proc Natl Acad Sci U S A, 116, 25917, 10.1073/pnas.1908578116 Elliott, 1998, Characterization of the roles of hemolysin and other toxins in enteropathy caused by alpha-hemolytic Escherichia coli linked to human diarrhea, Infect Immun, 66, 2040, 10.1128/IAI.66.5.2040-2051.1998 O'Rourke, 2017, Environmental and genetic factors controlling Burkholderia pseudomallei persister phenotypes, Current Tropical Medicine Reports, 4, 111, 10.1007/s40475-017-0116-4 Jeon, 2021, Identification and characterization of VapBC toxin–antitoxin system in Bosea sp. PAMC 26642 isolated from Arctic lichens, RNA, 27, 1374, 10.1261/rna.078786.121 Telford, 2006, Pili in gram-positive pathogens, Nat Rev Microbiol, 4, 509, 10.1038/nrmicro1443 Epler Barbercheck, 2018, Bacterial adhesion pili, 1 Galdiero, 2012, Microbe-host interactions: structure and role of Gram-negative bacterial porins, Curr Protein Pept Sci, 13, 843, 10.2174/138920312804871120 Cerdà-Costa, 2014, Architecture and function of metallopeptidase catalytic domains, Protein Sci : Publ Protein Soc, 23, 123, 10.1002/pro.2400 Garbinski, 2019, Pathways of arsenic uptake and efflux, Environ Int, 126, 585, 10.1016/j.envint.2019.02.058 Steffan, 2020, Let’s get physical: bacterial-fungal interactions and their consequences in agriculture and health, J Fungi, 6, 243, 10.3390/jof6040243 Ray, 2013, Bio (bacterial) control of pre- and postharvest diseases of root and tuber crops, 321 Córdova-Alcántara, 2019, Biofilm characterization of Fusarium solani keratitis isolate: increased resistance to antifungals and UV light, J Microbiol, 57, 485, 10.1007/s12275-019-8637-2 Castro-Bravo, 2018, Interactions of surface exopolysaccharides from bifidobacterium and lactobacillus within the intestinal environment, Front Microbiol, 9, 10.3389/fmicb.2018.02426 Muhammad, 2020, Beyond risk: bacterial biofilms and their regulating approaches, Front Microbiol, 11 Sousa, 2017, Burkholderia cepacia complex regulation of virulence gene expression: a review, Genes, 8, 43, 10.3390/genes8010043 seyed khoei, 2016, Comparative response of two Burkholderia fungorum strains grown as planktonic cells versus biofilm to dibenzothiophene and select polycyclic aromatic hydrocarbons, Can J Microbiol, 62 Kang, 2017, High-Throughput genetic screen reveals that early attachment and biofilm formation are necessary for full pyoverdine production by Pseudomonas aeruginosa, Front Microbiol, 8, 10.3389/fmicb.2017.01707 Kang, 2017, PqsA promotes pyoverdine production via biofilm formation, Pathogens, 7, 3, 10.3390/pathogens7010003 Gupta, 2017, Global awakening of cryptic biosynthetic gene clusters in Burkholderia thailandensis, ACS Chem Biol, 12, 3012, 10.1021/acschembio.7b00681 Schmidt, 2009, Production of the antifungal compound pyrrolnitrin is quorum sensing-regulated in members of the Burkholderia cepacia complex, Environ Microbiol, 11, 1422, 10.1111/j.1462-2920.2009.01870.x Nunvar, 2016, Understanding the pathogenicity of Burkholderia contaminans, an emerging pathogen in cystic fibrosis, PLoS One, 11, 10.1371/journal.pone.0160975 Banin, 2005, Iron and Pseudomonas aeruginosa biofilm formation, Proc Natl Acad Sci USA, 102, 11076, 10.1073/pnas.0504266102 Frey-Klett, 2011, Bacterial-fungal interactions: hyphens between agricultural, clinical, environmental, and food microbiologists, Microbiol Mol Biol Rev, 75, 583, 10.1128/MMBR.00020-11 Gu, 2011, Genetic and biochemical map for the biosynthesis of occidiofungin, an antifungal produced by Burkholderia contaminans strain MS14, Appl Environ Microbiol, 77, 6189, 10.1128/AEM.00377-11 Thomson, 2012, A Burkholderia cepacia complex non-ribosomal peptide-synthesized toxin is hemolytic and required for full virulence, Virulence, 3, 286, 10.4161/viru.19355 Jenul, 2018, Biosynthesis of fragin is controlled by a novel quorum sensing signal, Nat Commun, 9, 1297, 10.1038/s41467-018-03690-2 Palumbo, 2007, Isolation of maize soil and rhizosphere bacteria with antagonistic activity against Aspergillus flavus and Fusarium verticillioides, J Food Protect, 70, 1615, 10.4315/0362-028X-70.7.1615 Jia, 2022, Occidiofungin is the key metabolite for antifungal activity of the endophytic bacterium Burkholderia sp. MS455 against Aspergillus flavus, Phytopathology®, 112, 481, 10.1094/PHYTO-06-21-0225-R Passari, 2015, In vitro and in vivo plant growth promoting activities and DNA fingerprinting of antagonistic endophytic actinomycetes associates with medicinal plants, PLoS One, 10, 10.1371/journal.pone.0139468 Visser, 2004, Importance of the ornibactin and pyochelin siderophore transport systems in Burkholderia cenocepacia lung infections, Infect Immun, 72, 2850, 10.1128/IAI.72.5.2850-2857.2004 Depoorter, 2021, Burkholderia bacteria produce multiple potentially novel molecules that inhibit carbapenem-resistant gram-negative bacterial pathogens, Antibiotics, 10, 147, 10.3390/antibiotics10020147 Ho, 2021, Specific inactivation of an antifungal bacterial siderophore by a fungal plant pathogen, ISME J, 15, 1858, 10.1038/s41396-020-00871-0 Thapa, 2019, Do global regulators hold the key to production of bacterial secondary metabolites?, Antibiotics, 8, 160, 10.3390/antibiotics8040160