Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant.
<h4>Background</h4>Despite the decades-long use of Bacillus atrophaeus var. globigii (BG) as a simulant for biological warfare (BW) agents, knowledge of its genome composition is limited. Furthermore, the ability to differentiate signatures of deliberate adaptation and selection from nat...
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2011
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oai:doaj.org-article:7456dc990b564d8c95e462b76cd168992021-11-18T06:56:45ZGenomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant.1932-620310.1371/journal.pone.0017836https://doaj.org/article/7456dc990b564d8c95e462b76cd168992011-03-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21464989/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Despite the decades-long use of Bacillus atrophaeus var. globigii (BG) as a simulant for biological warfare (BW) agents, knowledge of its genome composition is limited. Furthermore, the ability to differentiate signatures of deliberate adaptation and selection from natural variation is lacking for most bacterial agents. We characterized a lineage of BGwith a long history of use as a simulant for BW operations, focusing on classical bacteriological markers, metabolic profiling and whole-genome shotgun sequencing (WGS).<h4>Results</h4>Archival strains and two "present day" type strains were compared to simulant strains on different laboratory media. Several of the samples produced multiple colony morphotypes that differed from that of an archival isolate. To trace the microevolutionary history of these isolates, we obtained WGS data for several archival and present-day strains and morphotypes. Bacillus-wide phylogenetic analysis identified B. subtilis as the nearest neighbor to B. atrophaeus. The genome of B. atrophaeus is, on average, 86% identical to B. subtilis on the nucleotide level. WGS of variants revealed that several strains were mixed but highly related populations and uncovered a progressive accumulation of mutations among the "military" isolates. Metabolic profiling and microscopic examination of bacterial cultures revealed enhanced growth of "military" isolates on lactate-containing media, and showed that the "military" strains exhibited a hypersporulating phenotype.<h4>Conclusions</h4>Our analysis revealed the genomic and phenotypic signatures of strain adaptation and deliberate selection for traits that were desirable in a simulant organism. Together, these results demonstrate the power of whole-genome and modern systems-level approaches to characterize microbial lineages to develop and validate forensic markers for strain discrimination and reveal signatures of deliberate adaptation.Henry S GibbonsStacey M BroomallLauren A McNewHajnalka DaligaultCarol ChapmanDavid BruceMark KaravisMichael KreppsPaul A McGregorCharles HongKyong H ParkArya AkmalAndrew FeldmanJeffrey S LinWenling E ChangBrandon W HiggsPlamen DemirevJohn LindquistAlvin LiemEd FochlerTimothy D ReadRoxanne TapiaShannon JohnsonKimberly A Bishop-LillyChris DetterCliff HanShanmuga SozhamannanC Nicole RosenzweigEvan W SkowronskiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 3, p e17836 (2011) |
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Medicine R Science Q Henry S Gibbons Stacey M Broomall Lauren A McNew Hajnalka Daligault Carol Chapman David Bruce Mark Karavis Michael Krepps Paul A McGregor Charles Hong Kyong H Park Arya Akmal Andrew Feldman Jeffrey S Lin Wenling E Chang Brandon W Higgs Plamen Demirev John Lindquist Alvin Liem Ed Fochler Timothy D Read Roxanne Tapia Shannon Johnson Kimberly A Bishop-Lilly Chris Detter Cliff Han Shanmuga Sozhamannan C Nicole Rosenzweig Evan W Skowronski Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| description |
<h4>Background</h4>Despite the decades-long use of Bacillus atrophaeus var. globigii (BG) as a simulant for biological warfare (BW) agents, knowledge of its genome composition is limited. Furthermore, the ability to differentiate signatures of deliberate adaptation and selection from natural variation is lacking for most bacterial agents. We characterized a lineage of BGwith a long history of use as a simulant for BW operations, focusing on classical bacteriological markers, metabolic profiling and whole-genome shotgun sequencing (WGS).<h4>Results</h4>Archival strains and two "present day" type strains were compared to simulant strains on different laboratory media. Several of the samples produced multiple colony morphotypes that differed from that of an archival isolate. To trace the microevolutionary history of these isolates, we obtained WGS data for several archival and present-day strains and morphotypes. Bacillus-wide phylogenetic analysis identified B. subtilis as the nearest neighbor to B. atrophaeus. The genome of B. atrophaeus is, on average, 86% identical to B. subtilis on the nucleotide level. WGS of variants revealed that several strains were mixed but highly related populations and uncovered a progressive accumulation of mutations among the "military" isolates. Metabolic profiling and microscopic examination of bacterial cultures revealed enhanced growth of "military" isolates on lactate-containing media, and showed that the "military" strains exhibited a hypersporulating phenotype.<h4>Conclusions</h4>Our analysis revealed the genomic and phenotypic signatures of strain adaptation and deliberate selection for traits that were desirable in a simulant organism. Together, these results demonstrate the power of whole-genome and modern systems-level approaches to characterize microbial lineages to develop and validate forensic markers for strain discrimination and reveal signatures of deliberate adaptation. |
| format |
article |
| author |
Henry S Gibbons Stacey M Broomall Lauren A McNew Hajnalka Daligault Carol Chapman David Bruce Mark Karavis Michael Krepps Paul A McGregor Charles Hong Kyong H Park Arya Akmal Andrew Feldman Jeffrey S Lin Wenling E Chang Brandon W Higgs Plamen Demirev John Lindquist Alvin Liem Ed Fochler Timothy D Read Roxanne Tapia Shannon Johnson Kimberly A Bishop-Lilly Chris Detter Cliff Han Shanmuga Sozhamannan C Nicole Rosenzweig Evan W Skowronski |
| author_facet |
Henry S Gibbons Stacey M Broomall Lauren A McNew Hajnalka Daligault Carol Chapman David Bruce Mark Karavis Michael Krepps Paul A McGregor Charles Hong Kyong H Park Arya Akmal Andrew Feldman Jeffrey S Lin Wenling E Chang Brandon W Higgs Plamen Demirev John Lindquist Alvin Liem Ed Fochler Timothy D Read Roxanne Tapia Shannon Johnson Kimberly A Bishop-Lilly Chris Detter Cliff Han Shanmuga Sozhamannan C Nicole Rosenzweig Evan W Skowronski |
| author_sort |
Henry S Gibbons |
| title |
Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| title_short |
Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| title_full |
Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| title_fullStr |
Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| title_full_unstemmed |
Genomic signatures of strain selection and enhancement in Bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| title_sort |
genomic signatures of strain selection and enhancement in bacillus atrophaeus var. globigii, a historical biowarfare simulant. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2011 |
| url |
https://doaj.org/article/7456dc990b564d8c95e462b76cd16899 |
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