| Extended Bibliography: |
Show bibliography
| Ref #: |
22093 |
| Author(s): |
Xu,D.;Cote,J.C. |
| Journal: |
Int J Syst Evol Microbiol |
| Title: |
Phylogenetic relationships between Bacillus species and related genera inferred from comparison of 3' end 16S rDNA and 5' end 16S-23S ITS nucleotide sequences |
| Volume: |
53 |
| Page(s): |
695-704 |
| Year: |
2003 |
| Keyword(s): |
GENBANK/AF478062
GENBANK/AF478063
GENBANK/AF478064
GENBANK/AF478065
GENBANK/AF478066
GENBANK/AF478067
GENBANK/AF478068
GENBANK/AF478069
GENBANK/AF478070
GENBANK/AF478071
GENBANK/AF478072
GENBANK/AF478073
GENBANK/AF478074
GENBANK/AF478075
GENBANK/AF478076
GENBANK/AF478077
GENBANK/AF478078
GENBANK/AF478079
GENBANK/AF478080
GENBANK/AF478081
GENBANK/AF478082
GENBANK/AF478083
GENBANK/AF478084
GENBANK/AF478085
GENBANK/AF478086
GENBANK/AF478087
GENBANK/AF478088
GENBANK/AF478089
GENBANK/AF478090
GENBANK/AF478091
GENBANK/AF478092
GENBANK/AF478093
GENBANK/AF478094
GENBANK/AF478095
GENBANK/AF478096
GENBANK/AF478097
GENBANK/AF478098
GENBANK/AF478099
GENBANK/AF478100
GENBANK/AF478101
GENBANK/AF478102
GENBANK/AF478103
GENBANK/AF478104
GENBANK/AF478105
GENBANK/AF478106
GENBANK/AF478107
GENBANK/AF478108
GENBANK/AF478109
GENBANK/AF478110
GENBANK/AF478111
3' Untranslated Regions/*genetics
5' Untranslated Regions/*genetics
Bacillus/*classification/genetics
DNA, Ribosomal/analysis
DNA, Ribosomal Spacer/*analysis
Genes, rRNA
Molecular Sequence Data
*Phylogeny
RNA, Ribosomal, 16S/*genetics
RNA, Ribosomal, 23S/genetics
*Sequence Analysis, DNA
Species Specificity
|
| Remarks: |
The nucleotide sequences of the 3' end of the 16S rDNA and the 16S-23S internal transcribed spacer (ITS) of 40 Bacillaceae species were determined. These included 21 Bacillus, 9 Paenibacillus, 6 Brevibacillus, 2 Geobacillus, 1 Marinibacillus and 1 Virgibacillus species. Comparative sequence analysis of a 220 bp region covering a highly conserved 150 bp sequence located at the 3' end of the 16S rRNA coding region and a conserved 70 bp sequence located at the 5' end of the 16S-23S ITS of the 40 species and six sequences available in GenBank were used to infer the phylogenetic relationships between all 46 taxa. When a maximal distance (D(max), where D refers to the number of nucleotide substitutions per site) of 0.31 was introduced as a threshold to determine groupings, 10 phylogenetically distinct clusters were revealed. Twenty-six Bacillus species were separated in seven groups (I, II, III, IV, V, VI and X), but Bacillus circulans remained ungrouped. All six Brevibacillus species under study were in Group VII. The nine Paenibacillus species fell into two distinct groups (VIII and IX). Species with D(max) values within 0.05 were considered to be very closely related. These were Bacillus psychrophilus and Bacillus psychrosaccharolyticus in Group II; 'Bacillus maroccanus' and Bacillus simplex in Group II; Bacillus amyloliquefaciens, Bacillus atrophaeus, Bacillus mojavensis and Bacillus subtilis in Group VI; Bacillus fusiformis and Bacillus sphaericus in Group VI; Brevibacillus brevis and Brevibacillus formosus in Group VII; Paenibacillus gordonae and Paenibacillus validus in Group VIII; and Bacillus anthracis, Bacillus cereus, Bacillus mycoides and Bacillus thuringiensis in Group X. The phylogenetic classification presented here is, in general, in agreement with current classifications based on phenotypic and molecular data. Our findings suggest, however, that in some cases, further divisions or, conversely, further groupings might be warranted. Should current classifications be re-examined in the light of our results, D(max) values of 0.31 and 0.05, as exemplified here, may prove useful threshold values for the grouping of Bacillaceae into taxa akin to genera and species, respectively. These D(max) thresholds may also reveal, in a different way, bacterial species for which further characterization might be warranted for proper classification and/or reassignment. |
| URL: |
12807189 |
|
| Ref #: |
22940 |
| Author(s): |
Patel,M.A.;Ou,M.S.;Harbrucker,R.;Aldrich,H.C.;Buszko,M.L.;Ingram,L.O.;Shanmugam,K.T. |
| Journal: |
Appl Environ Microbiol |
| Title: |
Isolation and characterization of acid-tolerant, thermophilic bacteria for effective fermentation of biomass-derived sugars to lactic acid |
| Volume: |
72 |
| Page(s): |
3228-35 |
| Year: |
2006 |
| Keyword(s): |
GENBANK/DQ297925
GENBANK/DQ297926
GENBANK/DQ297927
GENBANK/DQ297928
Bacillus/*classification/genetics/*isolation & purification/metabolism
*Biomass
DNA, Ribosomal/analysis
Fatty Acids/analysis
Fermentation
Glucose/*metabolism
Heat
Hydrogen-Ion Concentration
Lactic Acid/*metabolism
Molecular Sequence Data
Phylogeny
RNA, Ribosomal, 16S/genetics
Sequence Analysis, DNA
Xylose/*metabolism
|
| Remarks: |
Biomass-derived sugars, such as glucose, xylose, and other minor sugars, can be readily fermented to fuel ethanol and commodity chemicals by the appropriate microbes. Due to the differences in the optimum conditions for the activity of the fungal cellulases that are required for depolymerization of cellulose to fermentable sugars and the growth and fermentation characteristics of the current industrial microbes, simultaneous saccharification and fermentation (SSF) of cellulose is envisioned at conditions that are not optimal for the fungal cellulase activity, leading to a higher-than-required cost of cellulase in SSF. We have isolated bacterial strains that grew and fermented both glucose and xylose, major components of cellulose and hemicellulose, respectively, to l(+)-lactic acid at 50 degrees C and pH 5.0, conditions that are also optimal for fungal cellulase activity. Xylose was metabolized by these new isolates through the pentose-phosphate pathway. As expected for the metabolism of xylose by the pentose-phosphate pathway, [(13)C]lactate accounted for more than 90% of the total (13)C-labeled products from [(13)C]xylose. Based on fatty acid profile and 16S rRNA sequence, these isolates cluster with Bacillus coagulans, although the B. coagulans type strain, ATCC 7050, failed to utilize xylose as a carbon source. These new B. coagulans isolates have the potential to reduce the cost of SSF by minimizing the amount of fungal cellulases, a significant cost component in the use of biomass as a renewable resource, for the production of fuels and chemicals. |
| URL: |
16672461 |
|
| Ref #: |
1026 |
| Author(s): |
Hammer,B.W. |
| Journal: |
Res. Bull. Iowa Agric. Exp. Stn. |
| Title: |
Bacteriological studies on the coagulation of evaporated milk. |
| Volume: |
19 |
| Page(s): |
119-131 |
| Year: |
1915 |
|
| Ref #: |
1300 |
| Author(s): |
Skerman,V.B.D.;McGowan,V.;Sneath,P.H.A.(ed) |
| Journal: |
Int. J. Syst. Bacteriol. |
| Title: |
Approved Lists of Bacterial Names. |
| Volume: |
30 |
| Page(s): |
225-420 |
| Year: |
1980 |
|
| Ref #: |
2277 |
| Author(s): |
Frommer,W.etal. |
| Title: |
Inhibitors, obtained from bacilli, for glycoside hydrolases. |
|
| Ref #: |
3394 |
| Author(s): |
Blumenstock,I. |
| Title: |
Bacillus coagulans Hammer 1915 und andere thermophile oder mesophile, säuretolerante Bacillus-Arten- eine taxonomische Untersuchung. Doctoral thesis. |
| Year: |
1984 |
|
| Ref #: |
3396 |
| Author(s): |
Nakamura,L.K.;Blumenstock,I.;Claus,D. |
| Journal: |
Int. J. Syst. Bacteriol. |
| Title: |
Taxonomic study of Bacillus coagulans Hammer 1915 with a proposal for Bacillus smithii sp. nov. |
| Volume: |
38 |
| Page(s): |
63-73 |
| Year: |
1988 |
|
| Ref #: |
3768 |
| Author(s): |
Fahmy,F.;Flossdorf,J.;Claus,D. |
| Journal: |
System. Appl. Microbiol. |
| Title: |
The DNA base composition of the type strains of the genus Bacillus. |
| Volume: |
6 |
| Page(s): |
60-65 |
| Year: |
1985 |
|
| Ref #: |
6519 |
| Author(s): |
Watanabe,K.;Kitamura,K.;Suzuki,Y. |
| Journal: |
Appl. Environ. Microbiol. |
| Title: |
Analysis of the critical sites for protein thermostabilization by proline substitution in oligo-1,6-glucosidase from Bacillus coagulans ATCC 7050 and the evolutionary consideration of proline residues. |
| Volume: |
62 |
| Page(s): |
2066-2073 |
| Year: |
1996 |
|
| Ref #: |
7652 |
| Author(s): |
Wittich,R.-M.;Strömpl,C.;Moore,E.R.B.;Blasco,R.;Timmis,K.N. |
| Journal: |
J. Ind. Microbiol. Biotechnol. |
| Title: |
Interaction of Sphingomonas and Pseudomonas strains in the degradation of chlorinated dibenzofurans. |
| Volume: |
23 |
| Page(s): |
353-358 |
| Year: |
1999 |
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