Impact of COVID-19 pandemic on profiles of antibiotic-resistant genes and bacteria in hospital wastewater

[1]  S. Giono-Cerezo,et al.  Gram-negative ESKAPE bacteria bloodstream infections in patients during the COVID-19 pandemic , 2023, PeerJ.

[2]  Zhihua Zhang,et al.  Long Term Characteristics of Clinical Distribution and Resistance Trends of Carbapenem-Resistant and Extended-Spectrum β-Lactamase Klebsiella pneumoniae Infections: 2014–2022 , 2023, Infection and drug resistance.

[3]  Hong Chen,et al.  Deciphering basic and key traits of antibiotic resistome in influent and effluent of hospital wastewater treatment systems. , 2023, Water research.

[4]  L. Palmer,et al.  Mobile genetic elements in Acinetobacter antibiotic‐resistance acquisition and dissemination , 2022, Annals of the New York Academy of Sciences.

[5]  A. Steinberg,et al.  What happens after they leave the hospital? , 2022, Resuscitation.

[6]  A. Hammami,et al.  Trends in human intestinal carriage of ESBL- and carbapenemase-producing Enterobacterales among food handlers in Tunisia: emergence of C1-M27-ST131 subclades, blaOXA-48 and blaNDM. , 2022, The Journal of antimicrobial chemotherapy.

[7]  B. Alisjahbana,et al.  MDR Pathogens Organisms as Risk Factor of Mortality in Secondary Pulmonary Bacterial Infections Among COVID-19 Patients: Observational Studies in Two Referral Hospitals in West Java, Indonesia , 2022, International journal of general medicine.

[8]  C. Ayoub Moubareck,et al.  The Collateral Effects of COVID-19 Pandemic on the Status of Carbapenemase-Producing Pathogens , 2022, Frontiers in Cellular and Infection Microbiology.

[9]  Jun Liu,et al.  Strain-level characterization of broad host range mobile genetic elements transferring antibiotic resistance from the human microbiome , 2022, Nature Communications.

[10]  L. Shrestha,et al.  Co-infection of Uropathogenic Escherichia coli among COVID-19 Patients Admitted to a Tertiary Care Centre: A Descriptive Cross-sectional Study , 2022, JNMA; journal of the Nepal Medical Association.

[11]  X. Xia,et al.  Emergence of Carbapenem-Resistant ST244, ST292, and ST2446 Pseudomonas aeruginosa Clones in Burn Patients in Yunnan Province , 2022, Infection and drug resistance.

[12]  E. Hui,et al.  Antibiotic use among COVID-19 patients in Hong Kong, January 2018 to March 2021 , 2022, Journal of Infection.

[13]  Guo-Bao Tian,et al.  Carriage of distinct blaKPC-2 and blaOXA-48 plasmids in a single ST11 hypervirulent Klebsiella pneumoniae isolate in Egypt , 2022, BMC Genomics.

[14]  J. Cisneros,et al.  Has the COVID-19 pandemic wiped out the seasonality of outpatient antibiotic use and influenza activity? A time-series analysis from 2014 to 2021 , 2022, Clinical Microbiology and Infection.

[15]  A. Barra Caracciolo,et al.  Antibiotics and antibiotic resistance genes in anaerobic digesters and predicted concentrations in agroecosystems. , 2022, Journal of environmental management.

[16]  Sadhana Yelamanchili,et al.  An Update on Secondary Bacterial and Fungal Infections and Their Antimicrobial Resistance Pattern (AMR) in COVID-19 Confirmed Patients , 2022, Journal of Laboratory Physicians.

[17]  S. H. Hashemi,et al.  Molecular Detection of blaOXA -type Carbapenemase Genes and Antimicrobial Resistance Patterns among Clinical Isolates of Acinetobacter baumannii , 2021, Global Medical Genetics.

[18]  Nisrine Haddad,et al.  Challenges to Antimicrobial Stewardship in the Countries of the Arab League: Concerns of Worsening Resistance during the COVID-19 Pandemic and Proposed Solutions , 2021, Antibiotics.

[19]  H. Zhang,et al.  Seasonal distribution of antibiotic resistance genes in the Yellow River water and tap water, and their potential transmission from water to human. , 2021, Environmental pollution.

[20]  D. MacFadden,et al.  The impact of COVID-19 on community antibiotic use in Canada: an ecological study , 2021, Clinical Microbiology and Infection.

[21]  Fei Liu,et al.  Distribution of Antibiotic Resistance Genes in Karst River and Its Ecological Risk. , 2021, Water research.

[22]  Xiaoyang Jiao,et al.  Antimicrobial resistance bacteria and genes detected in hospital sewage provide valuable information in predicting clinical antimicrobial resistance. , 2021, The Science of the total environment.

[23]  X. Xia,et al.  Occurrence of pharmaceuticals and personal care products in bottled water and assessment of the associated risks. , 2021, Environment international.

[24]  Fengxia Yang,et al.  Tracking antibiotic resistance gene transfer at all seasons from swine waste to receiving environments. , 2021, Ecotoxicology and environmental safety.

[25]  Dorota Ozga,et al.  Carbapenem-Resistant Klebsiella pneumoniae Infections in ICU COVID-19 Patients—A Scoping Review , 2021, Journal of clinical medicine.

[26]  M. Ellabaan,et al.  Forecasting the dissemination of antibiotic resistance genes across bacterial genomes , 2021, Nature Communications.

[27]  L. Westblade,et al.  Bacterial Coinfections in Coronavirus Disease 2019 , 2021, Trends in Microbiology.

[28]  Honghu Sun,et al.  Co-occurrence of plasmid-mediated resistance genes tet(X4) and blaNDM-5 in a multidrug-resistant Escherichia coli isolate recovered from chicken in China. , 2021, Journal of global antimicrobial resistance.

[29]  Quentin J. Leclerc,et al.  Antimicrobial resistance and COVID-19: Intersections and implications , 2021, eLife.

[30]  B. Icgen,et al.  intI1 Type Mobile Genetic Elements Co-selected Antibiotic-Resistant Genes in Untreated Hospital Wastewaters , 2021, Bulletin of Environmental Contamination and Toxicology.

[31]  D. MacFadden,et al.  Antibiotic prescribing in patients with COVID-19: rapid review and meta-analysis , 2021, Clinical Microbiology and Infection.

[32]  Nadine Shehab,et al.  Trends in U.S. outpatient antibiotic prescriptions during the COVID-19 pandemic , 2020, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

[33]  Hassan Mahmoudi.  Bacterial co-infections and antibiotic resistance in patients with COVID-19 , 2020, GMS hygiene and infection control.

[34]  H. Azaizeh,et al.  Fate and removal of bacteria and antibiotic resistance genes in horizontal subsurface constructed wetlands: Effect of mixed vegetation and substrate type. , 2020, The Science of the total environment.

[35]  M. Momba,et al.  Shared Extended-Spectrum β-Lactamase-Producing Salmonella Serovars between Agricultural and Aquatic Environments Revealed through invA Amplicon Sequencing , 2020, Microorganisms.

[36]  T. Clark,et al.  SARS-CoV-2 has displaced other seasonal respiratory viruses: Results from a prospective cohort study , 2020, Journal of Infection.

[37]  K. Koelle,et al.  The Effect of SARS-CoV-2 Mitigation Strategies on Seasonal Respiratory Viruses: A Tale of Two Large Metropolitan Centers in the United States , 2020, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

[38]  Kristen M. Johnson,et al.  Comparison of diagnosis and prescribing practices between virtual visits and office visits for adults diagnosed with uncomplicated urinary tract infections within a primary care network , 2020, Infection Control & Hospital Epidemiology.

[39]  A. Kerckhoffs,et al.  Few bacterial co-infections but frequent empiric antibiotic use in the early phase of hospitalized patients with COVID-19: results from a multicentre retrospective cohort study in The Netherlands , 2020, Infectious diseases.

[40]  Kristy L Marynak,et al.  Delay or Avoidance of Medical Care Because of COVID-19–Related Concerns — United States, June 2020 , 2020, MMWR. Morbidity and mortality weekly report.

[41]  A. Koohpaei,et al.  Evaluation of bacterial co-infections of the respiratory tract in COVID-19 patients admitted to ICU , 2020, BMC Infectious Diseases.

[42]  P. Andreani,et al.  Antimicrobial Stewardship Program, COVID-19, and Infection Control: Spread of Carbapenem-Resistant Klebsiella Pneumoniae Colonization in ICU COVID-19 Patients. What Did Not Work? , 2020, Journal of clinical medicine.

[43]  G. Igrejas,et al.  Implications of antibiotics use during the COVID-19 pandemic: present and future , 2020, The Journal of antimicrobial chemotherapy.

[44]  A. Firth,et al.  Azithromycin: The First Broad-spectrum Therapeutic , 2020, Journal of Translational Autoimmunity.

[45]  F. Sperling,et al.  Within-population diversity of bacterial microbiomes in winter ticks (Dermacentor albipictus). , 2020, Ticks and tick-borne diseases.

[46]  A. Rai,et al.  Metagenomic study focusing on antibiotic resistance genes from the sediments of River Yamuna. , 2020, Gene.

[47]  B. Zhu,et al.  Co-infection with respiratory pathogens among COVID-2019 cases , 2020, Virus Research.

[48]  Evangelos I. Kritsotakis,et al.  A systematic review of the global seasonality of infections caused by Acinetobacter species in hospitalized patients. , 2020, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[49]  A. Aggarwal,et al.  Detection of New Delhi metallo-beta-lactamase enzyme gene bla NDM-1 associated with the Int-1 gene in Gram-negative bacteria collected from the effluent treatment plant of a tuberculosis care hospital in Delhi, India , 2020, Access microbiology.

[50]  Shaoyong Lu,et al.  Distribution of antibiotic resistance genes in an agriculturally disturbed lake in China: Their links with microbial communities, antibiotics, and water quality. , 2020, Journal of hazardous materials.

[51]  Guang-li Cao,et al.  Removal of antibiotic resistant bacteria and antibiotic resistance genes in wastewater effluent by UV-activated persulfate. , 2020, Journal of hazardous materials.

[52]  Ji Won Kim,et al.  Implementation of a Pediatric Emergency Telemedicine Program. , 2020, Pediatric emergency care.

[53]  Tiangang Luan,et al.  Occurrence of antibiotic resistance genes in extracellular and intracellular DNA from sediments collected from two types of aquaculture farms. , 2019, Chemosphere.

[54]  F. Aarestrup,et al.  Secrets of the Hospital Underbelly: Patterns of Abundance of Antimicrobial Resistance Genes in Hospital Wastewater Vary by Specific Antimicrobial and Bacterial Family , 2019, Frontiers in Microbiology.

[55]  Jennifer Lu,et al.  Improved metagenomic analysis with Kraken 2 , 2019, Genome Biology.

[56]  Dawen Gao,et al.  Seasonal distribution characteristics and health risk assessment of typical antibiotics in the Harbin section of the Songhua River basin , 2019, Environmental technology.

[57]  Yong Huang,et al.  Diversity and abundance of bacterial pathogens in urban rivers impacted by domestic sewage. , 2019, Environmental pollution.

[58]  G. Lu,et al.  Occurrence and ecological risk assessment of pharmaceuticals and personal care products in Taihu Lake, China: a review. , 2018, Environmental science. Processes & impacts.

[59]  M. Aydın,et al.  Antibiotics in hospital effluents: occurrence, contribution to urban wastewater, removal in a wastewater treatment plant, and environmental risk assessment , 2018, Environmental Science and Pollution Research.

[60]  Liqing Zhang,et al.  MetaCompare: a computational pipeline for prioritizing environmental resistome risk , 2018, FEMS microbiology ecology.

[61]  I. Senta,et al.  Negative environmental impacts of antibiotic-contaminated effluents from pharmaceutical industries. , 2017, Water research.

[62]  H. Ochman,et al.  The Evolution of Bacterial Genome Architecture , 2017, Front. Genet..

[63]  Sebastian M. Gygli,et al.  Antimicrobial resistance in Mycobacterium tuberculosis: mechanistic and evolutionary perspectives , 2017, FEMS microbiology reviews.

[64]  Raymond Lo,et al.  CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database , 2016, Nucleic Acids Res..

[65]  B. Ibelings,et al.  Occurrence of Antibiotic Resistance Genes and Bacterial Markers in a Tropical River Receiving Hospital and Urban Wastewaters , 2016, PloS one.

[66]  Yi Luo,et al.  Prevalence and proliferation of antibiotic resistance genes in two municipal wastewater treatment plants. , 2015, Water research.

[67]  Asmat Ahmad,et al.  Antibiotic resistance profiling and phenotyping of Aeromonas species isolated from aquatic sources , 2015, Saudi journal of biological sciences.

[68]  Blake Matthews,et al.  Does human activity impact the natural antibiotic resistance background? Abundance of antibiotic resistance genes in 21 Swiss lakes. , 2015, Environment international.

[69]  T. Bell,et al.  Bacterial adaptation to sublethal antibiotic gradients can change the ecological properties of multitrophic microbial communities , 2015, Proceedings of the Royal Society B: Biological Sciences.

[70]  S. Chhibber,et al.  Azithromycin and ciprofloxacin: a possible synergistic combination against Pseudomonas aeruginosa biofilm-associated urinary tract infections. , 2015, International journal of antimicrobial agents.

[71]  B. Bishayi,et al.  Killing of Staphylococcus aureus in murine macrophages by chloroquine used alone and in combination with ciprofloxacin or azithromycin , 2015, Journal of inflammation research.

[72]  A. Pruden,et al.  Elevation of antibiotic resistance genes at cold temperatures: implications for winter storage of sludge and biosolids , 2014, Letters in applied microbiology.

[73]  K. Konstantinidis,et al.  Inter-phylum HGT has shaped the metabolism of many mesophilic and anaerobic bacteria , 2014, The ISME Journal.

[74]  Kunihiko Sadakane,et al.  MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph , 2014, Bioinform..

[75]  A. Witney,et al.  Extensive Horizontal Gene Transfer during Staphylococcus aureus Co-colonization In Vivo , 2014, Genome biology and evolution.

[76]  Jian Yang,et al.  Monitoring and assessing the impact of wastewater treatment on release of both antibiotic-resistant bacteria and their typical genes in a Chinese municipal wastewater treatment plant. , 2014, Environmental science. Processes & impacts.

[77]  Björn Usadel,et al.  Trimmomatic: a flexible trimmer for Illumina sequence data , 2014, Bioinform..

[78]  L. Wiesner,et al.  Pharmacokinetics of Ofloxacin and Levofloxacin for Prevention and Treatment of Multidrug-Resistant Tuberculosis in Children , 2014, Antimicrobial Agents and Chemotherapy.

[79]  Thomas Backhaus,et al.  Human Health Risk Assessment (HHRA) for Environmental Development and Transfer of Antibiotic Resistance , 2013, Environmental health perspectives.

[80]  Peter J. Alaimo,et al.  Direct photolysis of human metabolites of the antibiotic sulfamethoxazole: evidence for abiotic back-transformation. , 2013, Environmental science & technology.

[81]  Maxime Déraspe,et al.  Complete Sequence of pOZ176, a 500-Kilobase IncP-2 Plasmid Encoding IMP-9-Mediated Carbapenem Resistance, from Outbreak Isolate Pseudomonas aeruginosa 96 , 2013, Antimicrobial Agents and Chemotherapy.

[82]  P. Higgins,et al.  Detection of intrinsic blaOXA-51-like by multiplex PCR on its own is not reliable for the identification of Acinetobacter baumannii. , 2013, International journal of medical microbiology : IJMM.

[83]  H. Richet,et al.  Seasonality in Gram-negative and healthcare-associated infections. , 2012, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[84]  Steven L Salzberg,et al.  Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.

[85]  E. Kristiansson,et al.  Pyrosequencing of Antibiotic-Contaminated River Sediments Reveals High Levels of Resistance and Gene Transfer Elements , 2011, PloS one.

[86]  Miriam L. Land,et al.  Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .

[87]  Jessina C. McGregor,et al.  Summer Peaks in the Incidences of Gram-Negative Bacterial Infection Among Hospitalized Patients , 2008, Infection Control & Hospital Epidemiology.

[88]  Patricia Siguier,et al.  ISfinder: the reference centre for bacterial insertion sequences , 2005, Nucleic Acids Res..

[89]  Jun Yu,et al.  VFDB: a reference database for bacterial virulence factors , 2004, Nucleic Acids Res..

[90]  F. Fernández-Cuenca,et al.  In vitro Activity of Azithromycin in Combination with Amikacin, Ceftazidime, Ciprofloxacin or Imipenem against Clinical Isolates of Acinetobacter baumannii , 2003, Chemotherapy.

[91]  OUP accepted manuscript , 2022, Journal of Antimicrobial Chemotherapy.

[92]  P. Labadie,et al.  Fate of antibiotics from hospital and domestic sources in a sewage network. , 2017, The Science of the total environment.

[93]  Tong Zhang,et al.  Metagenomic insights into chlorination effects on microbial antibiotic resistance in drinking water. , 2013, Water Research.