Genomic correlates of hyperthermostability, an update.

@article{citeulike:249080, abstract = {It has been shown (Cambillau, C., and Claverie, J. M. (2000) J. Biol. Chem. 275, 32383-32386) that a large difference between the proportions of charged versus polar (non-charged) amino acids (CvP-bias) was an adequate, if empirical, signature of the proteome of hyperthermophilic organisms (T(growth) >80 degrees C). Since that study, the number of available microbial genomes has more than doubled, raising the possibility that the simple CvP-bias rule might no longer hold. Taking advantage of the new sequence data, we re-analyzed the genomes of 9 fully sequenced thermophiles, 9 hyperthermophiles, and 53 mesothermophile microorganisms to identify the genomic correlates of hyperthermostability on a wider data set. Our new results confirm that the CvP-bias previously identified on a much smaller data set still holds. Moreover, we show that it is an optimal criterion, in the sense that it corresponds to the most discriminating factor between hyperthermophilic and mesothermophilic microorganisms in a principal component analysis. In parallel, we evaluated two other recently proposed correlates of hyperthermostability, the proteome average pI and the dinucleotide statistical index (Kawashima, T., Amano, N., Koike, H., Makino, S., Higuchi, S., Kawashima-Ohya, Y., Watanabe, K., Yamazaki, M., Kanehori, K., Kawamoto, T., Nunoshiba, T., Yamamoto, Y., Aramaki, H., Makino, K., and Suzuki, M. (2000) Proc. Natl. Acad. Sci. 97, 14257-14262). We show that the CvP-bias is the sole criterion that is able to clearly discriminate hyperthermophile from mesothermophile microorganisms on a global genomic basis.}, address = {Structural and Genomic Information Laboratory, UPR 2589-CNRS, Institute of Structural Biology and Microbiology, CNRS, Marseille, France.}, author = {Suhre, K. and Claverie, J. M. }, citeulike-article-id = {249080}, doi = {10.1074/jbc.M301327200}, issn = {0021-9258}, journal = {J Biol Chem}, keywords = {for-thuber, genomics, hyperthermophily, protein, structure}, month = {May}, number = {19}, pages = {17198--17202}, posted-at = {2008-01-25 06:11:08}, priority = {2}, title = {Genomic correlates of hyperthermostability, an update.}, url = {http://dx.doi.org/10.1074/jbc.M301327200}, volume = {278}, year = {2003} }

TY - JOUR ID - citeulike:249080 L3 - citeulike-article-id:249080 TI - Genomic correlates of hyperthermostability, an update. JF - J Biol Chem VL - 278 IS - 19 SP - 17198 EP - 17202 AD - Structural and Genomic Information Laboratory, UPR 2589-CNRS, Institute of Structural Biology and Microbiology, CNRS, Marseille, France. SN - 0021-9258 N2 - It has been shown (Cambillau, C., and Claverie, J. M. (2000) J. Biol. Chem. 275, 32383-32386) that a large difference between the proportions of charged versus polar (non-charged) amino acids (CvP-bias) was an adequate, if empirical, signature of the proteome of hyperthermophilic organisms (T(growth) >80 degrees C). Since that study, the number of available microbial genomes has more than doubled, raising the possibility that the simple CvP-bias rule might no longer hold. Taking advantage of the new sequence data, we re-analyzed the genomes of 9 fully sequenced thermophiles, 9 hyperthermophiles, and 53 mesothermophile microorganisms to identify the genomic correlates of hyperthermostability on a wider data set. Our new results confirm that the CvP-bias previously identified on a much smaller data set still holds. Moreover, we show that it is an optimal criterion, in the sense that it corresponds to the most discriminating factor between hyperthermophilic and mesothermophilic microorganisms in a principal component analysis. In parallel, we evaluated two other recently proposed correlates of hyperthermostability, the proteome average pI and the dinucleotide statistical index (Kawashima, T., Amano, N., Koike, H., Makino, S., Higuchi, S., Kawashima-Ohya, Y., Watanabe, K., Yamazaki, M., Kanehori, K., Kawamoto, T., Nunoshiba, T., Yamamoto, Y., Aramaki, H., Makino, K., and Suzuki, M. (2000) Proc. Natl. Acad. Sci. 97, 14257-14262). We show that the CvP-bias is the sole criterion that is able to clearly discriminate hyperthermophile from mesothermophile microorganisms on a global genomic basis. KW - for-thuber KW - genomics KW - hyperthermophily KW - protein KW - structure AU - Suhre, K AU - Claverie, JM PY - 2003/05/09/ UR - http://dx.doi.org/10.1074/jbc.M301327200 ER -