Abstract:
BACKGROUND:Comparative knowledge of microbiomes and resistomes across environmental interfaces between animal production systems and urban settings is lacking. In this study, we executed a comparative analysis of the microbiota and resistomes of metagenomes from cattle feces, catch basin water, manured agricultural soil and urban sewage. RESULTS:Metagenomic DNA from composite fecal samples (FC; n = 12) collected from penned cattle at four feedlots in Alberta, Canada, along with water from adjacent catchment basins (CB; n = 13), soil (n = 4) from fields in the vicinity of one of the feedlots and urban sewage influent (SI; n = 6) from two municipalities were subjected to Illumina HiSeq2000 sequencing. Firmicutes exhibited the highest prevalence (40%) in FC, whereas Proteobacteria were most abundant in CB (64%), soil (60%) and SI (83%). Among sample types, SI had the highest diversity of antimicrobial resistance (AMR), and metal and biocide resistance (MBR) classes (13 & 15) followed by FC (10 & 8), CB (8 & 4), and soil (6 & 1). The highest antimicrobial resistant (AMR) gene (ARG) abundance was harboured by FC, whereas soil samples had a very small, but unique resistome which did not overlap with FC & CB resistomes. In the beef production system, tetracycline resistance predominated followed by macrolide resistance. The SI resistome harboured β-lactam, macrolide, tetracycline, aminoglycoside, fluoroquinolone and fosfomycin resistance determinants. Metal and biocide resistance accounted for 26% of the SI resistome with a predominance of mercury resistance. CONCLUSIONS:This study demonstrates an increasing divergence in the nature of the microbiome and resistome as the distance from the feedlot increases. Consistent with antimicrobial use, tetracycline and macrolide resistance genes were predominant in the beef production system. One of the feedlots contributed both conventional (raised with antibiotics) and natural (raised without antibiotics) pens samples. Although natural pen samples exhibited a microbiota composition that was similar to samples from conventional pens, their resistome was less complex. Similarly, the SI resistome was indicative of drug classes used in humans and the greater abundance of mercury resistance may be associated with contamination of municipal water with household and industrial products.
journal_name
BMC Microbioljournal_title
BMC microbiologyauthors
Zaheer R,Lakin SM,Polo RO,Cook SR,Larney FJ,Morley PS,Booker CW,Hannon SJ,Van Domselaar G,Read RR,McAllister TAdoi
10.1186/s12866-019-1548-xsubject
Has Abstractpub_date
2019-08-27 00:00:00pages
197issue
1issn
1471-2180pii
10.1186/s12866-019-1548-xjournal_volume
19pub_type
杂志文章相关文献
BMC MICROBIOLOGY文献大全abstract:BACKGROUND:Several plant-pathogenic bacteria are transmitted by insect vector species that often also act as hosts. In this interface, these bacteria encounter plant endophytic, insect endosymbiotic and other microbes. Here, we used high throughput sequencing to examine the bacterial communities of five different psyll...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-020-01895-4
更新日期:2020-07-20 00:00:00
abstract:BACKGROUND:The infections caused by antibiotic multidrug-resistant bacteria seriously threaten human health. To prevent and cure the infections caused by multidrug-resistant bacteria, new antimicrobial agents are required. Antimicrobial peptides are ideal therapy candidates for antibiotic-resistant pathogens. However, ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-015-0389-5
更新日期:2015-03-03 00:00:00
abstract:BACKGROUND:Staphylococcus aureus (S. aureus) is one of the primary causes of bone infections which are often chronic and difficult to eradicate. Bacteria like S. aureus may survive upon internalization in cells and may be responsible for chronic and recurrent infections. In this study, we compared the responses of a ph...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-014-0207-5
更新日期:2014-07-25 00:00:00
abstract:BACKGROUND:Saudi Arabia is mostly barren except the southwestern highlands that are susceptible to environmental changes, a hotspot for biodiversity, but poorly studied for microbial diversity and composition. In this study, 454-pyrosequencing of 16S rRNA gene hypervariable region V6 was used to analyze soil bacterial ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-015-0398-4
更新日期:2015-03-14 00:00:00
abstract:BACKGROUND:The hemibiotrophic fungus Moniliophthora perniciosa is the causal agent of Witches' broom, a disease of Theobroma cacao. The pathogen life cycle ends with the production of basidiocarps in dead tissues of the infected host. This structure generates millions of basidiospores that reinfect young tissues of the...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-9-158
更新日期:2009-08-04 00:00:00
abstract:BACKGROUND:Typically, raw meat can be contaminated with antibiotic resistant pathogens at unhygienic slaughter and sale points. Consumption of meat contaminated with antibiotic resistant E. coli is associated with grave health care consequences. The aim of this study was to determine the microbial quality of raw meat, ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-020-01935-z
更新日期:2020-08-14 00:00:00
abstract:BACKGROUND:Streptococcus pseudopneumoniae, is a novel member of the genus Streptococcus, falling close to related members like S. pneumoniae, S. mitis, and S. oralis. Its recent appearance has shed light on streptococcal infections, which has been unclear till recently. In this study, the transcriptome of S. pseudopneu...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-77
更新日期:2012-07-06 00:00:00
abstract:BACKGROUND:The Bacillus anthracis S-layer protein, BslA, plays a crucial role in mammalian infection. BslA is required to mediate adherence between host cells and vegetative forms of bacteria and this interaction promotes target organs adherence and blood-brain barrier (BBB) penetration in vivo. This study attempts to ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-016-0802-8
更新日期:2016-08-11 00:00:00
abstract:BACKGROUND:Vibrio parahaemolyticus is a food-borne pathogen causing inflammation of the gastrointestinal epithelium. Pathogenic strains of this bacterium possess two Type III Secretion Systems (TTSS) that deliver effector proteins into host cells. In order to better understand human host cell responses to V. parahaemol...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-10-329
更新日期:2010-12-30 00:00:00
abstract:BACKGROUND:Bacterial nucleoid consists of genome DNA, RNA, and hundreds of nucleoid-associated proteins (NAPs). Escherichia coli nucleoid is compacted towards the stationary phase, replacing most log-phase NAPs with the major stationary-phase nucleoid protein, Dps. In contrast, Staphylococcus aureus nucleoid sustains t...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-017-1114-3
更新日期:2017-10-02 00:00:00
abstract:BACKGROUND:Bacillus mycoides Flügge, a Gram-positive, non-motile soil bacterium assigned to Bacillus cereus group, grows on agar as chains of cells linked end to end, forming radial filaments curving clock- or counter-clockwise (SIN or DX morphotypes). The molecular mechanism causing asymmetric curving is not known: ou...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-2-33
更新日期:2002-11-13 00:00:00
abstract:BACKGROUND:Streptococcus agalactiae (GBS) is a common pathogen to infect newborn, woman, the elderly, and immuno-compromised human and fish. 37 fish isolates and 554 human isolates of the GBS in 2007-2012 were investigated in serotypes, antibiotic susceptibility, genetic difference and pathogenicity to tilapia. RESULT...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-016-0794-4
更新日期:2016-08-02 00:00:00
abstract:BACKGROUND:Many chronic diseases, such as non-healing wounds are characterized by prolonged inflammation and respond poorly to conventional treatment. Bacterial biofilms are a major impediment to wound healing. Persistent infection of the skin allows the formation of complex bacterial communities termed biofilm. Bacter...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-11-143
更新日期:2011-06-21 00:00:00
abstract:BACKGROUND:The genus Brucella contains highly infectious species that are classified as biological threat agents. The timely detection and identification of the microorganism involved is essential for an effective response not only to biological warfare attacks but also to natural outbreaks. Matrix-assisted laser desor...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-11-267
更新日期:2011-12-23 00:00:00
abstract:BACKGROUND:The genus Lactobacillus belongs to a large heterogeneous group of low G + C Gram-positive anaerobic bacteria, which are frequently used as probiotics. The health-beneficial effects, in particular the immunomodulation effect, of probiotics depend on the strain and dose used. Strain variations may be related t...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-016-0631-9
更新日期:2016-02-09 00:00:00
abstract:BACKGROUND:Extracellular aspartic proteinase (MCAP) produced by Mucor circinelloides in solid state fermentations has been shown to possess milk clotting activity and represents a potential replacement for bovine chymosin in cheese manufacturing. Despite its prospects in the dairy industry, the molecular characteristic...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-13-250
更新日期:2013-11-09 00:00:00
abstract:BACKGROUND:Recent studies suggest that the reported protective effects of statins (HMG-CoA reductase inhibitors) against community-acquired pneumonia (CAP) and sepsis in humans may be due to confounders and a healthy user-effect. To directly test whether statins are protective against Streptococcus pneumoniae, the lead...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-73
更新日期:2012-05-15 00:00:00
abstract:BACKGROUND:Campylobacter jejuni (C. jejuni) is a leading cause of foodborne gastroenteritis worldwide. This bacterium lacks many of the classical virulence factors, and flagellum-associated persistent colonization has been shown to be crucial for its pathogenesis. The flagellum plays a multifunctional role in C. jejuni...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-018-1318-1
更新日期:2018-10-22 00:00:00
abstract:BACKGROUND:The ColRS two-component system has been shown to contribute to the membrane functionality and stress tolerance of Pseudomonas putida as well as to the virulence of Pseudomonas aeruginosa and plant pathogenic Xanthomonas species. However, the conditions activating the ColRS pathway and the signal(s) sensed by...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-14-162
更新日期:2014-06-20 00:00:00
abstract:BACKGROUND:Non-typeable Haemophilus influenzae biofilm formation is implicated in a number of chronic infections including otitis media, sinusitis and bronchitis. Biofilm structure includes cells and secreted extracellular matrix that is "slimy" and believed to contribute to the antibiotic resistant properties of biofi...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-6-65
更新日期:2006-07-19 00:00:00
abstract:BACKGROUND:Streptococcus suis is a major swine pathogen worldwide that causes meningitis, septicemia, arthritis, and endocarditis. Using animal models, a surface-associated subtilisin-like protease (SspA) has recently been shown to be an important virulence factor for S. suis. In this study, we hypothesized that the S....
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-11-47
更新日期:2011-03-01 00:00:00
abstract:BACKGROUND:Iron is an essential nutrient but can be toxic at high intracellular concentrations and organisms have evolved tightly regulated mechanisms for iron uptake and homeostasis. Information on iron management mechanisms is available for organisms living at circumneutral pH. However, very little is known about how...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-203
更新日期:2008-11-24 00:00:00
abstract:BACKGROUND:Brucellosis caused by Brucella abortus is one of the most important zoonoses in the world. Multiple-locus variable-number tandem repeat analysis (MLVA16) has been shown be a useful tool to epidemiological traceback studies in B. abortus infection. Thus, the present study aimed (i) to evaluate the genetic div...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-14-186
更新日期:2014-07-11 00:00:00
abstract:BACKGROUND:The cell tropism of Brucella abortus, a causative agent of brucellosis and facultative intracellular pathogen, in the placenta is thought to be a key event of infectious abortion, although the molecular mechanism for this is largely unknown. There is a higher degree of bacterial colonization in the placenta ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-212
更新日期:2008-12-05 00:00:00
abstract:BACKGROUND:Salmonella enteritidis is suggested to translocate in the small intestine. In vivo it induces gene expression changes in the ileal mucosa and Peyer's patches. Stimulation of Salmonella translocation by dietary prebiotics fermented in colon suggests involvement of the colon as well. However, effects of Salmon...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-7-84
更新日期:2007-09-12 00:00:00
abstract:BACKGROUND:Malic enzymes decarboxylate the tricarboxylic acid (TCA) cycle intermediate malate to the glycolytic end-product pyruvate and are well positioned to regulate metabolic flux in central carbon metabolism. Despite the wide distribution of these enzymes, their biological roles are unclear in part because the rea...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/s12866-016-0780-x
更新日期:2016-07-26 00:00:00
abstract:BACKGROUND:A disrupted cell cycle progression of hepatocytes was reported in chronic hepatitis C virus (HCV) infection, which can contribute significantly in the associated pathogenesis. The present study aimed to further elaborate these disruptions by evaluating the expression of key cell cycle and apoptotic proteins ...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-8-133
更新日期:2008-08-05 00:00:00
abstract:BACKGROUND:The evolution of mycoplasmas from a common ancestor with Firmicutes has been characterized not only by genome down-sizing but also by horizontal gene transfer between mycoplasma species sharing a common host. The mechanisms of these gene transfers remain unclear because our knowledge of the mycoplasma mobile...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-257
更新日期:2012-11-12 00:00:00
abstract:BACKGROUND:Bordetella dermonecrotic toxin (DNT) causes the turbinate atrophy in swine atrophic rhinitis, caused by a Bordetella bronchiseptica infection of pigs, by inhibiting osteoblastic differentiation. The toxin is not actively secreted from the bacteria, and is presumed to be present in only small amounts in infec...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-10-247
更新日期:2010-09-25 00:00:00
abstract:BACKGROUND:Bacteria release a wide variety of small molecules including cell-to-cell signaling compounds. Gram-negative bacteria use a variety of self-produced autoinducers such as acylated homoserine lactones (acyl-HSLs) as signal compounds for quorum sensing (QS) within and between bacterial species. QS plays a signi...
journal_title:BMC microbiology
pub_type: 杂志文章
doi:10.1186/1471-2180-12-70
更新日期:2012-05-10 00:00:00