About: Genomics and Proteomics of Mycobacteriophage Patience, an Accidental Tourist in the Mycobacterium Neighborhood

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About: Genomics and Proteomics of Mycobacteriophage Patience, an Accidental Tourist in the Mycobacterium Neighborhood Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Genomics and Proteomics of Mycobacteriophage Patience, an Accidental Tourist in the Mycobacterium Neighborhood
Creator	Jacobs-Sera, Deborah Kajee, Afsana Hatfull, Graham Hendrix, Roger Jacobs, William Larsen, Michelle Lawrence, Jeffrey Msibi, Zama Pope, Welkin Rubin, Daniel Russell, Daniel
Source	Medline; PMC
abstract	Newly emerging human viruses such as Ebola virus, severe acute respiratory syndrome (SARS) virus, and HIV likely originate within an extant population of viruses in nonhuman hosts and acquire the ability to infect and cause disease in humans. Although several mechanisms preventing viral infection of particular hosts have been described, the mechanisms and constraints on viral host expansion are ill defined. We describe here mycobacteriophage Patience, a newly isolated phage recovered using Mycobacterium smegmatis mc(2)155 as a host. Patience has genomic features distinct from its M. smegmatis host, including a much lower GC content (50.3% versus 67.4%) and an abundance of codons that are rarely used in M. smegmatis. Nonetheless, it propagates well in M. smegmatis, and we demonstrate the use of mass spectrometry to show expression of over 75% of the predicted proteins, to identify new genes, to refine the genome annotation, and to estimate protein abundance. We propose that Patience evolved primarily among lower-GC hosts and that the disparities between its genomic profile and that of M. smegmatis presented only a minimal barrier to host expansion. Rapid adaptions to its new host include recent acquisition of higher-GC genes, expression of out-of-frame proteins within predicted genes, and codon selection among highly expressed genes toward the translational apparatus of its new host.
has issue date	2014-12-02(xsd:dateTime)
bibo:doi	10.1128/mbio.02145-14
bibo:pmid	25467442
has license	cc-by-nc-sa
sha1sum (hex)	e100d3d45507da10018bc2b410c93072756fef47
schema:url	https://doi.org/10.1128/mbio.02145-14
resource representing a document's title	Genomics and Proteomics of Mycobacteriophage Patience, an Accidental Tourist in the Mycobacterium Neighborhood
has PubMed Central identifier	PMC4324244
has PubMed identifier	25467442
schema:publication	mBio
resource representing a document's body	covid:e100d3d45507da10018bc2b410c93072756fef47#body_text
is schema:about of	named entity 'ITS' named entity 'REVEALS' named entity 'ENVIRONMENT' named entity 'RARE' named entity 'INCLUDING' named entity 'MIGRATION' named entity 'POPULATION' named entity 'EXTANT' named entity 'CODON USAGE' named entity 'MC 2' named entity 'PHAGE' named entity 'MARKEDLY' named entity 'ACQUIRE' named entity 'LEVELS' named entity 'LANDSCAPE' named entity 'HUMAN' named entity 'SELECTION' named entity 'MATCHED' named entity 'COMPARISON' named entity 'MICROBIAL' named entity 'CODONS' named entity 'HOST' named entity 'BUT' named entity 'ACQUISITION' named entity 'TOURIST' named entity 'TO IDENTIFY' named entity 'PATIENCE' named entity 'USING' named entity 'BIASES' named entity 'PROTEIN ABUNDANCE' named entity 'ESTIMATE' named entity 'VIRUSES' named entity 'MYCOBACTERIUM SMEGMATIS' named entity 'VIRAL GENOME' named entity 'BARRIER' named entity 'HERE' named entity 'EVOLVED' named entity 'GENETIC' named entity 'HAVE' named entity 'HIGH' named entity 'HUMANS' named entity 'NONHUMAN' named entity 'DISTINCT FROM' named entity 'DESCRIBE' named entity 'PATIENCE' named entity 'MYCOBACTERIOPHAGE' named entity 'ACCIDENTAL' named entity 'GENOMICS' named entity 'PROTEOMICS' named entity 'VIRAL INFECTION' named entity 'FUNCTIONAL' named entity 'EBOLA VIRUS' named entity 'EXPRESSED' named entity 'CONSEQUENCE' named entity 'DECODED' named entity 'CODON' named entity 'PREVENTING' named entity 'FOUND' named entity 'GENOME' named entity 'ILL DEFINED' named entity 'HOSTS' named entity 'WAY' named entity 'ILL' named entity 'TRANSLATIONAL' named entity 'APPARATUS' named entity 'GENOME ANNOTATION' named entity 'PREDICTED' named entity 'PARTICULAR' named entity 'LIKELY' named entity 'RAPID' named entity 'GC CONTENT'

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