Chromosomal Proximity of Genes as an Indicator of Functional Linkage

  • Vijaykumar Yogesh Muley
  • Vishal Acharya
Part of the SpringerBriefs in Systems Biology book series (BRIEFSBIOSYS, volume 2)


Mostly prokaryotic genes have a tendency to be organized as clusters across chromosomes. Chromosomal proximity of genes, irrespective of the relative gene orientation, has been shown to be an indicative of their co-regulation. Genes that participate in related biological processes are often observed to be co-regulated. Hence, chromosomal proximity of genes has been proposed as a parameter indicative of functional linkages between them. However, prokaryotic genomes have been subjected to random rearrangements during evolution but these rearrangements are conservative in nature which invariably maintain individual genes in very specific functional and regulatory contexts. Hence, it is possible to deduce these rearrangements of genes based on chromosomal proximity of orthologous genes in multiple reference genomes. This chapter introduces the concept of genomic re-arrangements and discusses chromosomal proximity based three protein–protein interaction prediction methods.


Reference Genome Gene Pair Functional Linkage Prokaryotic Genome Intergenic Distance 
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Copyright information

© Vijaykumar Yogesh Muley 2013

Authors and Affiliations

  1. 1.Center of Excellence in EpigeneticsIndian Institute of Science Education and Research (IISER)PuneIndia
  2. 2.Biotechnology DivisionCSIR-Institute of Himalayan Bioresource Technology (IHBT)PalampurIndia

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