Extremely variable conservation of γ-type small, acid-soluble proteins from spores of some species in the bacterial order Bacillales

Journal of Bacteriology

Volumn 193, Issue 8, 2011, Pages 1884-1892

  Vyas, Jay ^a   Cox, Jesse ^a   Setlow, Barbara ^a   Coleman, William H ^a   Setlow, Peter ^a  

^a UNIVERSITY OF CONNECTICUT HEALTH CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; DNA; PROTEIN DERIVATIVE; SMALL ACID SOLUBLE PROTEIN GAMMA; UNCLASSIFIED DRUG;

ALICYCLOBACILLUS ACIDOCALDARIUS; ARTICLE; BACILLALES; BACILLUS TUSCIAE; BACTERIAL GENE; BACTERIAL SPORE; CLADISTICS; CLOSTRIDIALES; DNA BINDING; GENUS; NONHUMAN; PAENIBACILLUS; PHYLOGENY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; SSPE GENE;

BACILLALES; BACTERIAL PROTEINS; CONSERVED SEQUENCE; DNA-BINDING PROTEINS; EVOLUTION, MOLECULAR; PHOSPHORIC MONOESTER HYDROLASES; PHYLOGENY; POLYMORPHISM, GENETIC; REPRESSOR PROTEINS; SIGMA FACTOR; SPORES, BACTERIAL;

ALICYCLOBACILLUS ACIDOCALDARIUS; BACILLALES; BACILLUS TUSCIAE; BACTERIA (MICROORGANISMS); CLOSTRIDIALES; PAENIBACILLUS;

EID: 79955382952     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.00018-11     Document Type: Article

References (39)

1. Akaike, H. 1974. A new look at the statistical model identification. IEEE Trans. Automat. Contr. 19:716-723.
2. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
3. Anderson, J. M., et al. 1999. Phylogenetic analysis of Pasteuria penetrans by 16S rRNA gene cloning and sequencing. J. Nematol. 31:319-325.
4. Ash, C., F. G. Priest, and M. D. Collins. 1993. Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks and Collins) using a PCR probe test. Proposal for the creation of a new genus Paenibacillus. Antonie Van Leeuwenhoek 64:253-260.
5. Bagyan, I., M. Noback, S. Bron, M. Paidhungat, and P. Setlow. 1998. Characterization of yhcN, a new forespore-specific gene of Bacillus subtilis. Gene 212:179-188.
6. Blum, J. S., A. B. Bindi, J. Buzzelli, J. F. Stolz, and R. S. Oremland. 1998. Bacillus arsenicoselenatis, sp. nov., and Bacillus selenitireducens, sp. nov.: two haloalkaliphiles from Mono Lake, California that respire oxyanions of selenium and arsenic. Arch. Microbiol. 171:19-30.
7. Cabrera-Martinez, R., J. M. Mason, B. Setlow, W. M. Waites, and P. Setlow. 1989. Purification and amino acid sequence of two small, acid-soluble proteins from Clostridium bifermentans spores. FEMS Microbiol. Lett. 52:139-143.
8. Cabrera-Martinez, R. M., and P. Setlow. 1991. Cloning and nucleotide sequence of three genes coding for small, acid-soluble proteins of Clostridium perfringens spores. FEMS Microbiol. Lett. 61:127-131.
9. Charles, L., et al. 2005. Phylogenetic analysis of Pasteuria penetrans by use of multiple genetic loci. J. Bacteriol. 187:5700-5708.
10. Darland, G., and T. D. Brock. 1971. Bacillus acidocaldarius sp. nov., an acidophilic thermophilic spore-forming bacterium. J. Gen. Microbiol. 67:9-15.
11. Fulton, D. L., Y. Y. Li, D. J. Arenillas, A. T. Kwon, and W. W. Wasserman. 2006. Improving the specificity of high-throughput ortholog prediction. BMC Bioinformatics 7:270.
12. Hackett, R. H., and P. Setlow. 1988. Properties of spores of Bacillus subtilis strains which lack the major small, acid-soluble protein. J. Bacteriol. 170: 1403-1404.
13. Hasegawa, M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160-174.
14. Huo, Z., et al. 2010. Investigation of factors influencing spore germination of Paenibacillus polymyxa ACCC10252 and SQR-21. Appl. Microbiol. Biotechnol. 87:527-536.
15. Kochiwa, H., M. Tomita, and A. Kanai. 2007. Evolution of ribonuclease H genes in prokaryotes to avoid inheritance of redundant genes. BMC Evol. Biol. 7:128.
16. Lee, K. S., D. Bumbaca, J. Kosman, P. Setlow, and M. J. Jedrzejas. 2008. Structure of a protein-DNA complex essential for DNA protection in spores of Bacillus species. Proc. Natl. Acad. Sci. U. S. A. 105:2806-2811.
17. Leighton, T., and R. Murch. 2010. Biorepositories and their foundations-microbial forensic considerations, p. 581-601. In B. Budowle, S. E. Schutzer, R. G. Breeze, P. S. Keim, and S. A. Morse (ed.), Microbial forensics, 2nd ed. Academic Press, Maryland Heights, MO.
18. Loshon, C. A., et al. 1998. Nucleotide sequence of the sspE genes coding for γ-type small, acid-soluble spore proteins from the round-spore-forming bacteria Bacillus aminovorans, Sporosarcina halophila and S. ureae. Biochim. Biophys. Acta 1396:148-152.
19. Loshon, C. A., E. R. Fliss, B. Setlow, H. F. Foerster, and P. Setlow. 1986. Cloning and nucleotide sequencing of genes for small, acid-soluble spore proteins of Bacillus cereus, Bacillus stearothermophilus, and "Thermoactinomyces thalpophilus." J. Bacteriol. 167:168-173.
20. Magill, N. G., C. A. Loshon, and P. Setlow. 1990. Small, acid-soluble, spore proteins and their genes from two species of Sporosarcina. FEMS Microbiol. Lett. 60:293-297.
21. Mauchline, T. H., et al. 2010. A method for release and multiple strand amplification of small quantities of DNA from endospores of the fastidious bacterium Pasteuria penetrans. Lett. Appl. Microbiol. 50:515-521.
22. G-containing RNA polymerase from sporulating cells of Bacillus subtilis: identification of a group of forespore-specific promoters. J. Bacteriol. 171: 2708-2718.
23. Nicholson, W. L., and P. Setlow. 1990. Sporulation, germination and outgrowth, p. 391-450. In C. R. Harwood and S. M. Cutting (ed.), Molecular biological methods for Bacillus. John Wiley and Sons, Chichester, United Kingdom.
24. Paredes-Sabja, D., P. Setlow, and M. R. Sarker. 2011. Germination of spores of Bacillales and Clostridiales species: mechanisms and proteins involved. Trends Microbiol. 19:85-94.
25. Quirk, P. G. 1993. A gene encoding a small, acid-soluble spore protein from alkaliphilic Bacillus firmus OF4. Gene 125:81-83.
26. Ramírez-Flandes, S., and O. Ulloa. 2008. Bosque: integrated phylogenetic analysis software. Bioinformatics 24:2539-2541.
27. Sayers, E. W., et al. 2010. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 38:D5-D16.
28. Setlow, B., A. E. Cowan, and P. Setlow. 2003. Germination of spores of Bacillus subtilis with dodecylamine. J. Appl. Microbiol. 95:637-648.
29. Setlow, P. 1978. Purification and characterization of additional low-molecular weight basic proteins degraded during germination of Bacillus megaterium spores. J. Bacteriol. 136:331-340.
30. Setlow, P. 1988. Small acid-soluble, spore proteins of Bacillus species: structure, synthesis, genetics, function and degradation. Annu. Rev. Microbiol. 42:319-338.
31. Setlow, P. 2006. Spores of Bacillus subtilis: their resistance to radiation, heat and chemicals. J. Appl. Microbiol. 101:514-525.
32. Setlow, P. 2007. I will survive: DNA protection in bacterial spores. Trends Microbiol. 15:172-180.
33. Shida, O., H. Takagi, K. Kawadaki, and K. Komagata. 1996. Proposal for two new genera, Brevibacillus gen. nov. and Aneurinibacillus gen. nov. Int. J. Syst. Bacteriol. 46:939-946.
34. Sun, D., and P. Setlow. 1987. Cloning and nucleotide sequencing of genes for the second type of small, acid-soluble spore proteins of Bacillus cereus, Bacillus stearothermophilus, and "Thermoactinomyces thalpophilus." J. Bacteriol. 169:3088-3093.
35. Vyas, J., et al. 2009. A proposed syntax for Minimotif Semantics, version 1. BMC Genomics 10:360.
36. Wang, S. T., et al. 2006. The forespore line of gene expression in Bacillus subtilis. J. Mol. Biol. 358:16-37.
37. Yoon, J.-H., I.-G. Kim, Y.-K. Shin, and Y.-H. Park. 2005. Proposal of the genus Thermoactinomyces sensu stricto and three new genera, Laceyalla, Thermoflavimicrobium and Seinonella, on the basis of phenotypic, phylogenetic and chemotaxonomic analyses. Int. J. Syst. Evol. Microbiol. 55:395-400.
38. Yoon, J.-H., and Y. H. Park. 2000. Phylogenetic analysis of the genus Thermoactinomyces based on 16S rDNA sequences. Int. J. Syst. Evol. Microbiol. 50:1081-1086.
39. Yuan, K., W. C. Johnson, D. J. Tipper, and P. Setlow. 1981. Comparison of various properties of low-molecular weight proteins from dormant spores of various Bacillus species. J. Bacteriol. 146:965-971.