التفاصيل البيبلوغرافية
| العنوان: |
Bacteriophage functional genomics and its role in bacterial pathogen detection. |
| المؤلفون: |
Klumpp J; Institute of Food, Nutrition and Health, ETH Zurich, Zurich, Switzerland. jklumpp@ethz.ch, Fouts DE, Sozhamannan S |
| المصدر: |
Briefings in functional genomics [Brief Funct Genomics] 2013 Jul; Vol. 12 (4), pp. 354-65. Date of Electronic Publication: 2013 Mar 21. |
| نوع المنشور: |
Journal Article |
| اللغة: |
English |
| بيانات الدورية: |
Publisher: Oxford University Press Country of Publication: England NLM ID: 101528229 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2041-2657 (Electronic) Linking ISSN: 20412649 NLM ISO Abbreviation: Brief Funct Genomics Subsets: MEDLINE |
| أسماء مطبوعة: |
Original Publication: Oxford : Oxford University Press |
| مواضيع طبية MeSH: |
Bacteriophages/*genetics , Genomics/*methods , High-Throughput Nucleotide Sequencing/*methods |
| مستخلص: |
Emerging and reemerging bacterial infectious diseases are a major public health concern worldwide. The role of bacteriophages in the emergence of novel bacterial pathogens by horizontal gene transfer was highlighted by the May 2011 Escherichia coli O104:H4 outbreaks that originated in Germany and spread to other European countries. This outbreak also highlighted the pivotal role played by recent advances in functional genomics in rapidly deciphering the virulence mechanism elicited by this novel pathogen and developing rapid diagnostics and therapeutics. However, despite a steady increase in the number of phage sequences in the public databases, boosted by the next-generation sequencing technologies, few functional genomics studies of bacteriophages have been conducted. Our definition of 'functional genomics' encompasses a range of aspects: phage genome sequencing, annotation and ascribing functions to phage genes, prophage identification in bacterial sequences, elucidating the events in various stages of phage life cycle using genomic, transcriptomic and proteomic approaches, defining the mechanisms of host takeover including specific bacterial-phage protein interactions and identifying virulence and other adaptive features encoded by phages and finally, using prophage genomic information for bacterial detection/diagnostics. Given the breadth and depth of this definition and the fact that some of these aspects (especially phage-encoded virulence/adaptive features) have been treated extensively in other reviews, we restrict our focus only on certain aspects. These include phage genome sequencing and annotation, identification of prophages in bacterial sequences and genetic characterization of phages, functional genomics of the infection process and finally, bacterial identification using genomic information. |
| فهرسة مساهمة: |
Keywords: antimicrobials; genome annotation pathogen detection; next-generation DNA sequencing; prophage identification; reporter phage |
| تواريخ الأحداث: |
Date Created: 20130323 Date Completed: 20140305 Latest Revision: 20130815 |
| رمز التحديث: |
20240829 |
| DOI: |
10.1093/bfgp/elt009 |
| PMID: |
23520178 |
| قاعدة البيانات: |
MEDLINE |
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