Genome Features

Biomacromolecules, by C. Stan Tsai Copyright 2007 John Wiley Sons, Inc. 

Oiganism Number of base ptiirs (bp) Contour length (pm) Max. possible number of proteins encoded 

Eukaryotic single cell organisms (e.g. yeast) appear to have little extra DNA aside from transposons and the relatively few introns (intervening sequences, regions removed from functional RNA products). 

All higher organisms nsnally have linear chromosomal DNA molecnles, although circles can be prodnced nnder special circumstances. 

The protein-coding portion of enkaryotic cells of metazoans and higher plants make up a small fraction ( 1%) of the total DNA of the cell. Distinct fnnctional transcription units (the DNA regions that are transcribed to produce the primary transcripts) are most often separated by great distance. 

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Tab. 2.1 Genomic features of representative pathogenic bacterial and eukaryotic genomes...

Orthology prediction using only the relative levels of similarity of genes can be useful for quantitative estimates of certain genomic features such as the number of shared genes or the number of conserved gene pairs, rather than filling in their specific function, e.g., to predict the existence of a metabolic pathway. 

Codon usage and the related amino acid usage data have been correlated with a number of genomic features mostly related to evolution (17) and more... 

Ikeda, M. and Nakagawa, S. (2003) The Corynebacterium glutamicum genome features and impacts on biotechnological processes. Appl. Microbiol. Biotechnol., 62 (2-3), 99-109. 

Sharma, P.K., Fu,Zhang, X., Fristensky, B., Sparling, R., and Levin, D.B. (2014) Genome features of Pseudomonas putida LS46, a novel polyhydroxyalkanoate producer and its comparison with other P. putida strains. AMB Express, 4, 37. 

Capra JA, Paeschke K, Singh M, Zakian VA. G-quadtuplex DNA sequences are evolutionarily conserved and associated with distinct genomic features in Saccharomyces cerevisiae. PLoS Comput Biol. 1000 6(7) el000891. doi 10.1371/joumal.pcb.861. Smith JA, Chen Q, Yatsunyk LA, Nicoludis KM, Garcia MS, Kranaster R, Balasubramanian S, Monchaud D, Teulade-Fichou M-P, Abramowitz L, Schultz DC, Johnson FB. Rudimentary G-quadruplex-based telomere eapping in Saccharomyces cerevisiae. Nat Struct Mol Biol. 2011 18 478-85. 

Klaenhammer, T. R., Barrangou, R, Buck, B. L., Azcarate-Peril, M. A. Altermann, E. (2005). Genomic features of lactic acid bacteria effecting bioprocessing and health. 

The aims of this chapter are to review the main physiological modifications occurring in Komagataeibacter spp. during submerged vinegar production, and to describe their characteristics and genomic features. 

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