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Dive into the research topics where George Dimitrov is active.

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Featured researches published by George Dimitrov.


PLOS Biology | 2004

Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)

Naomi L. Ward; Øivind Larsen; James Sakwa; Live J. Bruseth; Hoda Khouri; A. Scott Durkin; George Dimitrov; Lingxia Jiang; David Scanlan; Katherine H. Kang; Matthew Lewis; Karen E. Nelson; Barbara A. Methé; Martin Wu; John F. Heidelberg; Ian T. Paulsen; Derrick E. Fouts; Jacques Ravel; Hervé Tettelin; Qinghu Ren; Timothy D. Read; Robert T. DeBoy; Rekha Seshadri; Harald B. Jensen; Nils-Kåre Birkeland; William C. Nelson; Robert J. Dodson; Svenn Helge Grindhaug; Ingeborg Holt; Ingvar Eidhammer

Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular, substantially reducing emissions of biologically generated methane to the atmosphere. Despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. We report the first complete genome sequence to our knowledge from an obligate methanotroph, Methylococcus capsulatus (Bath), obtained by the shotgun sequencing approach. Analysis revealed a 3.3-Mb genome highly specialized for a methanotrophic lifestyle, including redundant pathways predicted to be involved in methanotrophy and duplicated genes for essential enzymes such as the methane monooxygenases. We used phylogenomic analysis, gene order information, and comparative analysis with the partially sequenced methylotroph Methylobacterium extorquens to detect genes of unknown function likely to be involved in methanotrophy and methylotrophy. Genome analysis suggests the ability of M. capsulatus to scavenge copper (including a previously unreported nonribosomal peptide synthetase) and to use copper in regulation of methanotrophy, but the exact regulatory mechanisms remain unclear. One of the most surprising outcomes of the project is evidence suggesting the existence of previously unsuspected metabolic flexibility in M. capsulatus, including an ability to grow on sugars, oxidize chemolithotrophic hydrogen and sulfur, and live under reduced oxygen tension, all of which have implications for methanotroph ecology. The availability of the complete genome of M. capsulatus (Bath) deepens our understanding of methanotroph biology and its relationship to global carbon cycles. We have gained evidence for greater metabolic flexibility than was previously known, and for genetic components that may have biotechnological potential.


Journal of Bacteriology | 2011

Two New Complete Genome Sequences Offer Insight into Host and Tissue Specificity of Plant Pathogenic Xanthomonas spp.

Adam J. Bogdanove; Ralf Koebnik; Hong Lu; Ayako Furutani; Samuel V. Angiuoli; Prabhu B. Patil; Marie-Anne Van Sluys; Robert P. Ryan; Damien Meyer; Sang-Wook Han; Gudlur Aparna; Misha Rajaram; Arthur L. Delcher; Adam M. Phillippy; Daniela Puiu; Michael C. Schatz; Martin Shumway; Daniel D. Sommer; Cole Trapnell; Faiza Benahmed; George Dimitrov; Ramana Madupu; Diana Radune; Steven A. Sullivan; Gopaljee Jha; Hiromichi Ishihara; Sang Won Lee; Alok K. Pandey; Vikas Sharma; Malinee Sriariyanun

Xanthomonas is a large genus of bacteria that collectively cause disease on more than 300 plant species. The broad host range of the genus contrasts with stringent host and tissue specificity for individual species and pathovars. Whole-genome sequences of Xanthomonas campestris pv. raphani strain 756C and X. oryzae pv. oryzicola strain BLS256, pathogens that infect the mesophyll tissue of the leading models for plant biology, Arabidopsis thaliana and rice, respectively, were determined and provided insight into the genetic determinants of host and tissue specificity. Comparisons were made with genomes of closely related strains that infect the vascular tissue of the same hosts and across a larger collection of complete Xanthomonas genomes. The results suggest a model in which complex sets of adaptations at the level of gene content account for host specificity and subtler adaptations at the level of amino acid or noncoding regulatory nucleotide sequence determine tissue specificity.


PLOS ONE | 2012

Genome Stability of Lyme Disease Spirochetes: Comparative Genomics of Borrelia burgdorferi Plasmids

Sherwood R. Casjens; Emmanuel F. Mongodin; Wei-Gang Qiu; Benjamin J. Luft; Steven E. Schutzer; Eddie B. Gilcrease; Wai Mun Huang; Marija Vujadinovic; John Aron; Levy C. Vargas; Sam Freeman; Diana Radune; Janice Weidman; George Dimitrov; Hoda Khouri; Julia Sosa; Rebecca A. Halpin; John J. Dunn; Claire M. Fraser

Lyme disease is the most common tick-borne human illness in North America. In order to understand the molecular pathogenesis, natural diversity, population structure and epizootic spread of the North American Lyme agent, Borrelia burgdorferi sensu stricto, a much better understanding of the natural diversity of its genome will be required. Towards this end we present a comparative analysis of the nucleotide sequences of the numerous plasmids of B. burgdorferi isolates B31, N40, JD1 and 297. These strains were chosen because they include the three most commonly studied laboratory strains, and because they represent different major genetic lineages and so are informative regarding the genetic diversity and evolution of this organism. A unique feature of Borrelia genomes is that they carry a large number of linear and circular plasmids, and this work shows that strains N40, JD1, 297 and B31 carry related but non-identical sets of 16, 20, 19 and 21 plasmids, respectively, that comprise 33–40% of their genomes. We deduce that there are at least 28 plasmid compatibility types among the four strains. The B. burgdorferi ∼900 Kbp linear chromosomes are evolutionarily exceptionally stable, except for a short ≤20 Kbp plasmid-like section at the right end. A few of the plasmids, including the linear lp54 and circular cp26, are also very stable. We show here that the other plasmids, especially the linear ones, are considerably more variable. Nearly all of the linear plasmids have undergone one or more substantial inter-plasmid rearrangements since their last common ancestor. In spite of these rearrangements and differences in plasmid contents, the overall gene complement of the different isolates has remained relatively constant.


PLOS ONE | 2009

Genome Degradation in Brucella ovis Corresponds with Narrowing of Its Host Range and Tissue Tropism

Renée M. Tsolis; Rekha Seshadri; Renato L. Santos; Félix J. Sangari; Juan M. García Lobo; Maarten F. de Jong; Qinghu Ren; Garry Myers; Lauren M. Brinkac; William C. Nelson; Robert T. DeBoy; Samuel V. Angiuoli; Hoda Khouri; George Dimitrov; Jeffrey Robinson; Stephanie Mulligan; Richard L. Walker; Philip E. Elzer; Karl A. Hassan; Ian T. Paulsen

Brucella ovis is a veterinary pathogen associated with epididymitis in sheep. Despite its genetic similarity to the zoonotic pathogens B. abortus, B. melitensis and B. suis, B. ovis does not cause zoonotic disease. Genomic analysis of the type strain ATCC25840 revealed a high percentage of pseudogenes and increased numbers of transposable elements compared to the zoonotic Brucella species, suggesting that genome degradation has occurred concomitant with narrowing of the host range of B. ovis. The absence of genomic island 2, encoding functions required for lipopolysaccharide biosynthesis, as well as inactivation of genes encoding urease, nutrient uptake and utilization, and outer membrane proteins may be factors contributing to the avirulence of B. ovis for humans. A 26.5 kb region of B. ovis ATCC25840 Chromosome II was absent from all the sequenced human pathogenic Brucella genomes, but was present in all of 17 B. ovis isolates tested and in three B. ceti isolates, suggesting that this DNA region may be of use for differentiating B. ovis from other Brucella spp. This is the first genomic analysis of a non-zoonotic Brucella species. The results suggest that inactivation of genes involved in nutrient acquisition and utilization, cell envelope structure and urease may have played a role in narrowing of the tissue tropism and host range of B. ovis.


Proceedings of the National Academy of Sciences of the United States of America | 2005

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".

Hervé Tettelin; Vega Masignani; Michael J. Cieslewicz; Claudio Donati; Duccio Medini; Naomi L. Ward; Samuel V. Angiuoli; Jonathan Crabtree; Amanda L. Jones; A. Scott Durkin; Robert T. DeBoy; Tanja Davidsen; Marirosa Mora; Maria Scarselli; Immaculada Margarit Y Ros; Jeremy Peterson; Christopher R. Hauser; Jaideep Sundaram; William C. Nelson; Ramana Madupu; Lauren M. Brinkac; Robert J. Dodson; M. J. Rosovitz; Steven A. Sullivan; Sean C. Daugherty; Daniel H. Haft; Jeremy D. Selengut; Michelle L. Gwinn; Liwei Zhou; Nikhat Zafar


Nature Biotechnology | 2004

The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough

John F. Heidelberg; Rekha Seshadri; Shelley A. Haveman; Christopher L. Hemme; Ian T. Paulsen; James F. Kolonay; Jonathan A. Eisen; Naomi L. Ward; Barbara A. Methé; Lauren M. Brinkac; Sean C. Daugherty; Robert T. DeBoy; Robert J. Dodson; A. Scott Durkin; Ramana Madupu; William C. Nelson; Steven A. Sullivan; Derrick E. Fouts; Daniel H. Haft; Jeremy D. Selengut; Jeremy Peterson; Tanja Davidsen; Nikhat Zafar; Liwei Zhou; Diana Radune; George Dimitrov; Mark Hance; Kevin Tran; Hoda Khouri; John Gill


Proceedings of the National Academy of Sciences of the United States of America | 2004

Structural flexibility in the Burkholderia mallei genome

William C. Nierman; David DeShazer; H. Stanley Kim; Hervé Tettelin; Karen E. Nelson; Tamara Feldblyum; Ricky L. Ulrich; Catherine M. Ronning; Lauren M. Brinkac; Sean C. Daugherty; Tanja D. Davidsen; Robert T. DeBoy; George Dimitrov; Robert J. Dodson; A. Scott Durkin; Michelle L. Gwinn; Daniel H. Haft; Hoda Khouri; James F. Kolonay; Ramana Madupu; Yasmin Mohammoud; William C. Nelson; Diana Radune; Claudia M. Romero; Saul Sarria; Jeremy D. Selengut; Christine Shamblin; Steven A. Sullivan; Owen White; Yan Yu


Genome Research | 2006

Skewed genomic variability in strains of the toxigenic bacterial pathogen, Clostridium perfringens

Garry Myers; David A. Rasko; Jackie K. Cheung; Jacques Ravel; Rekha Seshadri; Robert T. DeBoy; Qinghu Ren; John Varga; Milena M. Awad; Lauren M. Brinkac; Sean C. Daugherty; Daniel H. Haft; Robert J. Dodson; Ramana Madupu; William C. Nelson; M. J. Rosovitz; Steven A. Sullivan; Hoda Khouri; George Dimitrov; Kisha Watkins; Stephanie Mulligan; Jonathan L. Benton; Diana Radune; Derek J. Fisher; Helen S. Atkins; Tom Hiscox; B. Helen Jost; Stephen J. Billington; J. Glenn Songer; Bruce A. McClane


Genome Research | 2001

Mouse BAC Ends Quality Assessment and Sequence Analyses

Shaying Zhao; Sofiya Shatsman; Bola Ayodeji; Keita Geer; Getahun Tsegaye; Margaret Krol; Elizabeth Gebregeorgis; Alla Shvartsbeyn; Daniel Russell; Larry Overton; Lingxia Jiang; George Dimitrov; Kevin Tran; Jyoti Shetty; Joel A. Malek; Tamara Feldblyum; William C. Nierman; Claire M. Fraser


Archive | 2011

Xanthomonas spp. Specificity of Plant Pathogenic Offer Insight into Host and Tissue Two New Complete Genome Sequences

Jan E. Leach; Frank F. White; V. Sonti; Seiji Tsuge; Volker Brendel; Pamela C. Ronald; Valérie Verdier; J. Maxwell Dow; Boris Szurek; Casiana M. VeraCruz; Alok K. Pandey; Vikas Sharma; Steven A. Sullivan; Gopaljee Jha; Hiromichi Ishihara; George Dimitrov; Ramana Madupu; Daniel D. Sommer; Cole Trapnell; M. Phillippy; Daniela Puiu; Michael C. Schatz; Misha Rajaram; Arthur L. Delcher; Van Sluys; Robert P. Ryan; Damien Meyer; Samuel V. Angiuoli; Prabhu B. Patil; Adam J. Bogdanove

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Hoda Khouri

J. Craig Venter Institute

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Robert T. DeBoy

J. Craig Venter Institute

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William C. Nelson

Pacific Northwest National Laboratory

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Diana Radune

J. Craig Venter Institute

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Ramana Madupu

Australian Research Council

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A. Scott Durkin

J. Craig Venter Institute

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Daniel H. Haft

J. Craig Venter Institute

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