PROJECT INFORMATION | |||||||||||||||||||||||||||||||||||||
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GOLD Project ID
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Gp0733941
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Project Name
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Escherichia coli p11B
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Other Names
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Legacy GOLD ID
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NCBI BioProject Name | Investigate ESBL-positive Enterobacteriaceae that develop carbapenem resistance through non-carbapenemase-producing mechanisms in cancer patients with recurrent bacteremia. The objective of this study is to characterize clonal, serial isolates that develop carbapenem resistance via non-carbapenemase mechanisms. Our hypothesis is that a proportion of recurrent bacteremia cases due to persistent carriage of the same clonal, re-infecting strains have the ability to develop resistance to carbapenems independent of carbapenemase acquisition within our cancer population. We believe this is occurring through a mobile genetic element amplification mechanism with concomitant outer membrane porin disruption. | ||||||||||||||||||||||||||||||||||||
NCBI BioProject Accession
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PRJNA603908 |
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NCBI Locus Tag
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NYO14
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NCBI BioSample Accession
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SAMN13948685 |
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Source Sample ID
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PI | Unknown | ||||||||||||||||||||||||||||||||||||
Added By | JGI automated process on 2023-03-30 | ||||||||||||||||||||||||||||||||||||
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Project Comments |
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Project Status
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Complete and Published
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Project Relevance
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Medical |
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Sequencing Center
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University of Texas Houston Health Science Center
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Collaborating Institute
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Funding Agency
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Project Description
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Escherichia coli p11B genome sequencing
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Is JGI Project |
No
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Project Information Visibility
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Public | ||||||||||||||||||||||||||||||||||||
PROJECT TYPE | |||||||||||||||||||||||||||||||||||||
Specimen
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Organism |
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Nucleic Acid
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DNA |
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Sequencing Strategy
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Whole Genome Sequencing
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EXTERNAL PROJECT LINKS | |||||||||||||||||||||||||||||||||||||
JGI Data Utilization Status
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JGI Award DOI
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Genome Publications
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The Journal of antimicrobial chemotherapy: 76(2):385-395 IS26-mediated amplification of blaOXA-1 and blaCTX-M-15 with concurrent outer membrane porin disruption associated with de novo carbapenem resistance in a recurrent bacteraemia cohort. PubMed: 33164081 DOI: 10.1093/jac/dkaa447 |
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Other Publications
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Ignored Publications
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Unassigned Publications
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SRA Experiment |
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PROJECT COMPOSITION | |||||||||||||||||||||||||||||||||||||
Study |
Conjunction of Modular Beta-lactamase Encoding Gene Amplification with Porin Loss Drives Carbapenem Resistance in ESBL Positive Enterobacteriaceae from Patients with Recurrent Bacteremia |
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Organism |
Escherichia coli p11B |
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Analysis Projects |
Escherichia coli p11B |
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Number of Analysis Projects (AP) |
1 |
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Number of Derived Analyis Projects (DAP) |
0
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SEQUENCING INFORMATION | |
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Sequencing Status
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In progress |
Sequencing Quality (MIGS-31) |
Level 6: Finished |
Finishing Goal
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Contamination Screening Input
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DNA Amplification Method
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Single Cell Lysis Protocol
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Single Cell Lysis Approach
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Sequencing Comments
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DNA Amplification Kit
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Sequencing Technology
(MIGS-29)
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Oxford Nanopore GridION |
Library Method
(MIGS-28)
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Library Layout
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Library Screening Method
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Number Of Reads
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Read Size
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Vector
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GC Percent |
50.8
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Chromosome Count |
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Plasmid Count |
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ORGANISM NAME | |
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GOLD Organism ID |
Go0666262 |
Organism Name |
Escherichia coli p11B
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Other names (alias, synonyms, short names, common names) |
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Organism Domain |
BACTERIAL
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Phylogeny |
PROTEOBACTERIA-GAMMA
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Genus |
Escherichia
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Genus Synonyms |
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Species |
Escherichia coli
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Subspecies |
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Species Synonyms |
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Strain |
p11B
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Strain Synonyms |
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Serovar/Cultivar |
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Culture Collection ID |
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Type Strain |
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Exemplar DOI |
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Exemplar Name |
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Taxon DOI |
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Biosafety Level |
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Organism Comments |
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Cultured |
Yes
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Culture Type |
Isolate
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Organism Type |
Natural
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Uncultured Type |
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Commercial Strain |
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Commercial Strain Comments |
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ORGANISM TAXONOMY
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NCBI Taxonomy ID |
562 |
NCBI Superkingdom |
Bacteria
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NCBI Kingdom |
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NCBI Phylum |
Pseudomonadota
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NCBI Class |
Gammaproteobacteria
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NCBI Order |
Enterobacterales
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NCBI Family |
Enterobacteriaceae
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NCBI Genus |
Escherichia
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NCBI Species |
Escherichia coli
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ISOLATION CLASSIFICATION | |
Ecosystem |
Host-associated
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Ecosystem Category |
Mammals: Human
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Ecosystem Type |
Circulatory system
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Ecosystem Subtype |
Blood
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Specific Ecosystem |
Unclassified
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ORGANISM EXTERNAL REFERENCES | |
Strain Info ID |
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Genbank 16S ID |
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GENERAL PROPERTIES | |
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Oxygen Requirement |
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Cell Shape |
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Motility |
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Sporulation |
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Temperature Range |
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Salinity |
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pH |
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Cell Diameter |
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Cell Length |
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Color |
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Gram Staining |
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Biotic Relationships |
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Symbiotic Physical Interaction |
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Symbiotic Relationship |
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Symbiont Name |
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Symbiont Taxon ID |
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Cell Arrangements |
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Diseases |
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Known Habitats |
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Metabolisms |
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Phenotypes |
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Energy Sources |
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