title: High-throughput screen of essential gene modules in Mycobacterium tuberculosis: a bibliometric approach.
abstract: BACKGROUND
  Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (M. tuberculosis). The annotation of functional genome and signaling network in M. tuberculosis are still not systematic. Essential gene modules are a collection of functionally related essential genes in the same signaling or metabolic pathway. The determination of essential genes and essential gene modules at genomic level may be important for better understanding of the physiology and pathology of M. tuberculosis, and also helpful for the development of drugs against this pathogen. The establishment of genomic operon database (DOOR) and the annotation of gene pathways have felicitated the genomic analysis of the essential gene modules of M. tuberculosis.
  
  
  METHODS
  Bibliometric approach has been used to perform a High-throughput screen for essential genes of M. tuberculosis strain H37Rv. Ant colony algorithm were used to identify the essential genes in other M. tuberculosis reference strains. Essential gene modules were analyzed by operon database DOOR. The pathways of essential genes were assessed by Biocarta, KEGG, NCI-PID, HumanCyc and Reactome. The function prediction of essential genes was analyzed by Pfam.
  
  
  RESULTS
  A total approximately 700 essential genes were identified in M. tuberculosis genome. 40% of operons are consisted of two or more essential genes. The essential genes were distributed in 92 pathways in M. tuberculosis. In function prediction, 61.79% of essential genes were categorized into virulence, intermediary metabolism/respiration, cell wall related and lipid metabolism, which are fundamental functions that exist in most bacteria species.
  
  
  CONCLUSIONS
  We have identified the essential genes of M. tuberculosis using bibliometric approach at genomic level. The essential gene modules were further identified and analyzed.
authors.affiliation: Key Laboratory of Zoonosis, Ministry of Education, Norman Bethune College of Medicine, Jilin University, Changchun, Jilin, China.
authors.forename: Guangyu
authors.initials: G
authors.lastname: Xu
authors.forename: Bin
authors.initials: B
authors.lastname: Liu
authors.forename: Fang
authors.initials: F
authors.lastname: Wang
authors.forename: Chengguo
authors.initials: C
authors.lastname: Wei
authors.forename: Ying
authors.initials: Y
authors.lastname: Zhang
authors.forename: Jiyao
authors.initials: J
authors.lastname: Sheng
authors.forename: Guoqing
authors.initials: G
authors.lastname: Wang
authors.forename: Fan
authors.initials: F
authors.lastname: Li
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D005798:Genes, Bacterial; D020043:Genes, Essential; D057166:High-Throughput Screening Assays / Q000379:methods; D006801:Humans; D053858:Metabolic Networks and Pathways / Q000235:genetics; D009169:Mycobacterium tuberculosis / Q000235:genetics*; D009876:Operon; D014376:Tuberculosis / Q000382:microbiology