Siv Ge Andersson

Summary

Affiliation: Uppsala University
Country: Sweden

Publications

  1. pmc A phylometagenomic exploration of oceanic alphaproteobacteria reveals mitochondrial relatives unrelated to the SAR11 clade
    Björn Brindefalk
    Department of Molecular Evolution, Evolutionary Biology Center, Science for Life Laboratory, Uppsala, Sweden
    PLoS ONE 6:e24457. 2011
  2. pmc Visualization of pseudogenes in intracellular bacteria reveals the different tracks to gene destruction
    Hans Henrik Fuxelius
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, S 752 36 Uppsala, Sweden
    Genome Biol 9:R42. 2008
  3. pmc Genome dynamics of Bartonella grahamii in micro-populations of woodland rodents
    Eva C Berglund
    Department of Moleculcar Evolution, Norbyvagen 18C, S 75236 Uppsala, Sweden
    BMC Genomics 11:152. 2010
  4. ncbi request reprint Host cell modulation by human, animal and plant pathogens
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    Int J Med Microbiol 293:463-70. 2004
  5. ncbi request reprint Rickettsia prowazekii and Bartonella henselae: differences in the intracellular life styles revisited
    S G Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Sweden
    Int J Med Microbiol 290:135-41. 2000
  6. ncbi request reprint Genetics. The bacterial world gets smaller
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Science 314:259-60. 2006
  7. pmc On the origin of mitochondria: a genomics perspective
    Siv G E Andersson
    Department of Molecular Evolution, University of Uppsala, Uppsala S 75124, Sweden
    Philos Trans R Soc Lond B Biol Sci 358:165-77; discussion 177-9. 2003
  8. ncbi request reprint Comparative genomics of microbial pathogens and symbionts
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, University of Uppsala, Sweden
    Bioinformatics 18:S17. 2002
  9. pmc Computational inference of scenarios for alpha-proteobacterial genome evolution
    Bastien Boussau
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, S 752 36 Uppsala, Sweden
    Proc Natl Acad Sci U S A 101:9722-7. 2004
  10. ncbi request reprint Strong asymmetric mutation bias in endosymbiont genomes coincide with loss of genes for replication restart pathways
    Lisa Klasson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    Mol Biol Evol 23:1031-9. 2006

Collaborators

Detail Information

Publications49

  1. pmc A phylometagenomic exploration of oceanic alphaproteobacteria reveals mitochondrial relatives unrelated to the SAR11 clade
    Björn Brindefalk
    Department of Molecular Evolution, Evolutionary Biology Center, Science for Life Laboratory, Uppsala, Sweden
    PLoS ONE 6:e24457. 2011
    ..The availability of ocean metagenome data substantially increases the sampling of Alphaproteobacteria inhabiting the oxygen-containing waters of the oceans that likely resemble the originating environment of mitochondria...
  2. pmc Visualization of pseudogenes in intracellular bacteria reveals the different tracks to gene destruction
    Hans Henrik Fuxelius
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, S 752 36 Uppsala, Sweden
    Genome Biol 9:R42. 2008
    ..carry substantial fractions of pseudogenes. Until recently, horizontal gene transfers were considered to be rare events in obligate host-associated bacteria...
  3. pmc Genome dynamics of Bartonella grahamii in micro-populations of woodland rodents
    Eva C Berglund
    Department of Moleculcar Evolution, Norbyvagen 18C, S 75236 Uppsala, Sweden
    BMC Genomics 11:152. 2010
    ..The sequence variability within the global B. grahamii population was recently investigated by multi locus sequence typing, but no study on the variability of putative host-cell interaction systems has been performed...
  4. ncbi request reprint Host cell modulation by human, animal and plant pathogens
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    Int J Med Microbiol 293:463-70. 2004
    ..Here, we review some of these similarities, with a focus on strategies for modulation of the host target cell...
  5. ncbi request reprint Rickettsia prowazekii and Bartonella henselae: differences in the intracellular life styles revisited
    S G Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Sweden
    Int J Med Microbiol 290:135-41. 2000
    ..prowazekii is more specialised to growth in an intracellular environment. Functional genomics will provide the potential to further resolve the genetic basis for successful human infections by these important parasites...
  6. ncbi request reprint Genetics. The bacterial world gets smaller
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Science 314:259-60. 2006
  7. pmc On the origin of mitochondria: a genomics perspective
    Siv G E Andersson
    Department of Molecular Evolution, University of Uppsala, Uppsala S 75124, Sweden
    Philos Trans R Soc Lond B Biol Sci 358:165-77; discussion 177-9. 2003
    ....
  8. ncbi request reprint Comparative genomics of microbial pathogens and symbionts
    Siv G E Andersson
    Department of Molecular Evolution, Evolutionary Biology Center, University of Uppsala, Sweden
    Bioinformatics 18:S17. 2002
    ..Taken together, the results suggest that genomic stability correlate with the content of repeated sequences and mobile genetic elements, and thereby indirectly with bacterial lifestyles...
  9. pmc Computational inference of scenarios for alpha-proteobacterial genome evolution
    Bastien Boussau
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, S 752 36 Uppsala, Sweden
    Proc Natl Acad Sci U S A 101:9722-7. 2004
    ..These genes that never made it into the eukaryotes but are widely distributed in bacteria may represent bacterial drug targets and should be prime candidates for future functional characterization...
  10. ncbi request reprint Strong asymmetric mutation bias in endosymbiont genomes coincide with loss of genes for replication restart pathways
    Lisa Klasson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    Mol Biol Evol 23:1031-9. 2006
    ..We hypothesize that cytosine deaminations accumulate during single-strand exposure at arrested replication forks and that inefficient restart mechanisms may lead to high DNA strand asymmetry in bacterial genomes...
  11. pmc Endosymbiont gene functions impaired and rescued by polymerase infidelity at poly(A) tracts
    Ivica Tamas
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, SE 752 36 Uppsala, Sweden
    Proc Natl Acad Sci U S A 105:14934-9. 2008
    ..These features of homopolymeric tracts could be exploited to manipulate gene expression in small synthetic genomes...
  12. ncbi request reprint Evolution of minimal-gene-sets in host-dependent bacteria
    Lisa Klasson
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Trends Microbiol 12:37-43. 2004
    ....
  13. ncbi request reprint 50 million years of genomic stasis in endosymbiotic bacteria
    Ivica Tamas
    Department of Molecular Evolution, Evolutionary Biology Center, University of Uppsala, Uppsala, Sweden
    Science 296:2376-9. 2002
    ..The genomic stasis of B. aphidicola, likely attributable to the loss of phages, repeated sequences, and recA, indicates that B. aphidicola is no longer a source of ecological innovation for its hosts...
  14. ncbi request reprint A phylogenomic study of endosymbiotic bacteria
    Bjorn Canback
    Department of Molecular Evolution, Evolutionary Biology Center, University of Uppsala, Uppsala, Sweden
    Mol Biol Evol 21:1110-22. 2004
    ..The conclusion is that host-level selection has retarded both the loss of genes and the acceleration of sequence evolution in endocellular symbionts...
  15. ncbi request reprint Intracellular pathogens go extreme: genome evolution in the Rickettsiales
    Alistair C Darby
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, S 752 36 Uppsala, Sweden
    Trends Genet 23:511-20. 2007
    ..Here, we explore the genomic differences between members of the Rickettsiales and ask what are the changes that enable infectious agents to emerge from seemingly harmless bacteria...
  16. doi request reprint Rapid diversification by recombination in Bartonella grahamii from wild rodents in Asia contrasts with low levels of genomic divergence in Northern Europe and America
    Eva C Berglund
    Department of Molecular Evolution, Uppsala University, Uppsala, Sweden
    Mol Ecol 19:2241-55. 2010
    ..We discuss environmental and demographic factors that may underlie the observed differences...
  17. ncbi request reprint The genomic and metabolic diversity of Rickettsia
    Hans Henrik Fuxelius
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, S 752 36 Uppsala, Sweden
    Res Microbiol 158:745-53. 2007
    ..These contradictory evolutionary forces highlight the influence of chance, adaptation and host-cell exploitation during the evolution of intracellular bacteria...
  18. ncbi request reprint Microbial genome evolution: sources of variability
    Alex Mira
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Curr Opin Microbiol 5:506-12. 2002
    ..Genes with unknown functions present in a single species tend to be shorter than conserved, functional genes, indicating that the fraction of unique genes in microbial genomes has been overestimated...
  19. doi request reprint Comment on "A 3-hydroxypropionate/4-hydroxybutyrate autotrophic carbon dioxide assimilation pathway in Archaea"
    Thijs J G Ettema
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Uppsala, S 752 36 Sweden
    Science 321:342; author reply 342. 2008
    ..We question the validity of the latter claim...
  20. ncbi request reprint Deep origin of plastid/parasite ATP/ADP translocases
    Haleh Amiri
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    J Mol Evol 56:137-50. 2003
    ..A possible function of the two types of ATP/ADP translocases was to allow switches between glycolysis and aerobic respiration in the early eukaryotic cell and its endosymbiont...
  21. pmc genoPlotR: comparative gene and genome visualization in R
    Lionel Guy
    Department of Molecular Evolution, Uppsala University, Uppsala, Sweden
    Bioinformatics 26:2334-5. 2010
    ..Complementing existing software for comparison and exploration of genomics data, genoPlotR automatically creates publication-grade linear maps of gene and genomes, in a highly automatic, flexible and reproducible way...
  22. ncbi request reprint Reverse engineering of regulatory networks: simulation studies on a genetic algorithm approach for ranking hypotheses
    Dirk Repsilber
    Institute for Molecular Evolution, Evolutionary Biology Centre of the University of Uppsala, Norbyvagen 18C, Sweden
    Biosystems 66:31-41. 2002
    ..During the ranking, the number of fixed parameters increases with the number of environmental conditions, while some errors in the hypothetical network structure may pass undetected, due to a maintained dynamical behaviour...
  23. ncbi request reprint Proliferation and deterioration of Rickettsia palindromic elements
    Haleh Amiri
    Department of Molecular Evolution, University of Uppsala, Sweden
    Mol Biol Evol 19:1234-43. 2002
    ..Likewise, highly fragmented remnants of the RPE-fus sequence were identified in two species. This suggests that genome-specific differences in the content of RPEs are the result of recent loss rather than recent proliferation...
  24. pmc The louse-borne human pathogen Bartonella quintana is a genomic derivative of the zoonotic agent Bartonella henselae
    Cecilia M Alsmark
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, and Department of Medical Sciences, Uppsala University Hospital, Sweden
    Proc Natl Acad Sci U S A 101:9716-21. 2004
    ....
  25. ncbi request reprint Functional divergence and horizontal transfer of type IV secretion systems
    A Carolin Frank
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, 752 36, Sweden
    Mol Biol Evol 22:1325-36. 2005
    ..We suggest that it is the transfer between species that paved the way for the divergence of the TFSSs and discuss the general role of horizontal gene transfers for the evolution of novel gene functions...
  26. pmc Genome rearrangements, deletions, and amplifications in the natural population of Bartonella henselae
    Hillevi Lindroos
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, S 752 36 Uppsala, Sweden
    J Bacteriol 188:7426-39. 2006
    ..henselae population plays an important role in the establishment of long-term persistent infection in the natural host by promoting antigenic variation and escape from the host immune response...
  27. ncbi request reprint Genome reduction in the alpha-Proteobacteria
    Björn Sällström
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Curr Opin Microbiol 8:579-85. 2005
    ..Further research into the population biology of bacteria, arthropods and vertebrate hosts will help to refine the biology of host-pathogen interactions and will facilitate the design of vaccines and vector-control programs...
  28. ncbi request reprint Origin and evolution of the mitochondrial aminoacyl-tRNA synthetases
    Björn Brindefalk
    Department of Molecular Evolution, Evolutionary Biology Center, Uppsala University, Uppsala, Sweden
    Mol Biol Evol 24:743-56. 2007
    ....
  29. pmc The alpha-proteobacteria: the Darwin finches of the bacterial world
    Thijs J G Ettema
    Department of Molecular Evolution, Evolutionary Biology Center, 752 36 Uppsala, Sweden
    Biol Lett 5:429-32. 2009
    ....
  30. ncbi request reprint Measuring genome divergence in bacteria: a case study using chlamydian data
    Daniel A Dalevi
    Department of Molecular Evolution, University of Uppsala, Norbyvagen 18C, SE 751 36, Uppsala, Sweden
    J Mol Evol 55:24-36. 2002
    ..The frequencies of nucleotide substitutions at twofold and fourfold degenerate sites, deletions, inversions, and translocations were estimated to 1.42, 0.62, 0.18, 0.01, and 0.01 per site, respectively...
  31. pmc Run-off replication of host-adaptability genes is associated with gene transfer agents in the genome of mouse-infecting Bartonella grahamii
    Eva C Berglund
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
    PLoS Genet 5:e1000546. 2009
    ..We propose that the coupling of run-off replication with gene transfer agents promotes diversification and rapid spread of host-adaptability factors, facilitating host shifts in Bartonella...
  32. ncbi request reprint Protein evolutionary rates correlate with expression independently of synonymous substitutions in Helicobacter pylori
    Björn Sällström
    Program of Molecular Evolution, Department of Evolution, Genomics and Systematics, Evolutionary Biology Center, Uppsala University, 752 36 Uppsala, Sweden
    J Mol Evol 62:600-14. 2006
    ..pylori is independent of gene orientation. These results suggest a direct influence of expression levels on nonsynonymous substitution frequencies independent of codon bias and selective constraints on synonymous sites...
  33. ncbi request reprint Birth and death of orphan genes in Rickettsia
    Haleh Amiri
    Department of Molecular Evolution, University of Uppsala, Uppsala, Sweden
    Mol Biol Evol 20:1575-87. 2003
    ..Such reconstructions support the identification of lost protein functions and hint at important lifestyle changes...
  34. ncbi request reprint Mitochondrial gene history and mRNA localization: is there a correlation?
    E Olof L Karlberg
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Norbyvagen 18C, 752 36 Uppsala, Sweden
    Nat Rev Genet 4:391-7. 2003
    ..Understanding these newly discovered relationships promises insights into old questions about organelle origins and mRNA localization in the eukaryotic cell...
  35. pmc The mosaic genome structure of the Wolbachia wRi strain infecting Drosophila simulans
    Lisa Klasson
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, SE 752 36 Uppsala, Sweden
    Proc Natl Acad Sci U S A 106:5725-30. 2009
    ..simulans. These results suggest that the transmission dynamics of Wolbachia and the opportunity for coinfections have created a freely recombining intracellular bacterial community with mosaic genomes...
  36. pmc Characterization of the genome composition of Bartonella koehlerae by microarray comparative genomic hybridization profiling
    Hillevi L Lindroos
    Department of Molecular Evolution, Evolutionary Biology Center, Norbyvagen 18C, 752 36 Uppsala, Sweden
    J Bacteriol 187:6155-65. 2005
    ..Rather, the results underscore the instability of the genomic islands even within bacterial populations adapted to the same host-vector system, as in the case of B. henselae and B. koehlerae...
  37. doi request reprint Research on small genomes: implications for synthetic biology
    Lisa Klasson
    Department of Molecular Evolution, Uppsala University, Uppsala, Sweden
    Bioessays 32:288-95. 2010
    ..Synthetic genomics may also become the method of choice for functional analyses of genes and genomes from bacteria that cannot be cultivated in the laboratory...
  38. ncbi request reprint Genome deterioration: loss of repeated sequences and accumulation of junk DNA
    A Carolin Frank
    Department of Molecular Evolution, University of Uppsala, Sweden
    Genetica 115:1-12. 2002
    ..This process may lead to temporary increases in the genomic content of pseudogenes and 'junk' DNA. We discuss causes and long-term consequences of extreme genome size reductions in obligate intracellular bacteria...
  39. ncbi request reprint Diversifying selection and concerted evolution of a type IV secretion system in Bartonella
    Bjorn Nystedt
    Department of Molecular Evolution, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
    Mol Biol Evol 25:287-300. 2008
    ..We suggest that the pilus proteins have evolved by diversifying selection to match a divergent set of erythrocyte surface structures, consistent with the trench warfare coevolutionary model...
  40. ncbi request reprint The evolution of chronic infection strategies in the alpha-proteobacteria
    Jacques Batut
    Laboratory of Plant Microbe Interactions, CNRS INRA, BP27, 31326 Castanet Tolosan Cedex, France
    Nat Rev Microbiol 2:933-45. 2004
    ..In this review, we discuss alpha-proteobacterial genome evolution and highlight strategies and mechanisms used by these bacteria to infect and multiply in eukaryotic cells...
  41. pmc TFAM detects co-evolution of tRNA identity rules with lateral transfer of histidyl-tRNA synthetase
    David H Ardell
    Department of Molecular Evolution, Evolutionary Biology Center Norbyvägen 18C Uppsala University SE 752 36 Uppsala Sweden
    Nucleic Acids Res 34:893-904. 2006
    ..Our results demonstrate that TFAM is an effective tool for the bioinformatics, comparative genomics and evolutionary study of tRNA identity...
  42. ncbi request reprint Proteomic analysis of the sarcosine-insoluble outer membrane fraction of the bacterial pathogen Bartonella henselae
    Thomas A Rhomberg
    Division of Molecular Microbiology, Biozentrum of the University of Basel, Basel, Switzerland
    Proteomics 4:3021-33. 2004
    ..This study provides novel insights into the membrane biology and the associated putative virulence factors of this pathogen of increasing medical importance...
  43. pmc Bartonella adhesin a mediates a proangiogenic host cell response
    Tanja Riess
    Institut fur Medizinische Mikrobiologie und Hygiene, Eberhard Karls Universitat, Elfriede Aulhorn Strasse 6, 72076 Tubingen, Germany
    J Exp Med 200:1267-78. 2004
    ..Our results suggest that BadA, the largest characterized bacterial protein thus far, is a major pathogenicity factor of B. henselae with a potential role in the induction of vasculoproliferative disorders...
  44. ncbi request reprint The complete genome sequence of Francisella tularensis, the causative agent of tularemia
    Par Larsson
    Swedish Defence Research Agency, SE 901 82 Umea, Sweden
    Nat Genet 37:153-9. 2005
    ..tularensis is an obligate host-dependent bacterium in its natural life cycle. Our results have implications for our understanding of how highly virulent human pathogens evolve and will expedite strategies to combat them...
  45. pmc Five-member gene family of Bartonella quintana
    Michael F Minnick
    Division of Biological Sciences, The University of Montana, Missoula 59812, USA
    Infect Immun 71:814-21. 2003
    ....
  46. pmc The Orientia tsutsugamushi genome reveals massive proliferation of conjugative type IV secretion system and host-cell interaction genes
    Nam Hyuk Cho
    Department of Microbiology and Immunology, Seoul National University College of Medicine, 28 Yongon Dong, Chongno Gu, Seoul 110 799, Republic of Korea
    Proc Natl Acad Sci U S A 104:7981-6. 2007
    ..Diversifying selection on host-cell interaction genes along with repeated population bottlenecks may drive rare genome variants to fixation, thereby short-circuiting selection for low complexity in bacterial genomes...