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Genome Evolution of Bartonellaceae Symbionts of Ants at the Opposite Ends of the Trophic Scale.

Bisch G, Neuvonen MM, Pierce NE, Russell JA, Koga R, Sanders JG, Lukasik P, Andersson SGE.

Genome Biol Evol. 2018 Jul 1;10(7):1687-1704. doi: 10.1093/gbe/evy126.


Specificity in Arabidopsis thaliana recruitment of root fungal communities from soil and rhizosphere.

Urbina H, Breed MF, Zhao W, Lakshmi Gurrala K, Andersson SGE, Ågren J, Baldauf S, Rosling A.

Fungal Biol. 2018 Apr;122(4):231-240. doi: 10.1016/j.funbio.2017.12.013. Epub 2018 Jan 10.


The challenges of integrating two genomes in one cell.

Hagström E, Andersson SG.

Curr Opin Microbiol. 2018 Feb;41:89-94. doi: 10.1016/j.mib.2017.12.003. Epub 2017 Dec 23. Review.


Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations.

Garcia SL, Stevens SLR, Crary B, Martinez-Garcia M, Stepanauskas R, Woyke T, Tringe SG, Andersson SGE, Bertilsson S, Malmstrom RR, McMahon KD.

ISME J. 2018 Mar;12(3):742-755. doi: 10.1038/s41396-017-0001-0. Epub 2017 Dec 8.


Origin and Evolution of the Bartonella Gene Transfer Agent.

Tamarit D, Neuvonen MM, Engel P, Guy L, Andersson SGE.

Mol Biol Evol. 2018 Feb 1;35(2):451-464. doi: 10.1093/molbev/msx299.


Tuwongella immobilis gen. nov., sp. nov., a novel non-motile bacterium within the phylum Planctomycetes.

Seeger C, Butler MK, Yee B, Mahajan M, Fuerst JA, Andersson SGE.

Int J Syst Evol Microbiol. 2017 Dec;67(12):4923-4929. doi: 10.1099/ijsem.0.002271. Epub 2017 Oct 31.


The genome of Rhizobiales bacteria in predatory ants reveals urease gene functions but no genes for nitrogen fixation.

Neuvonen MM, Tamarit D, Näslund K, Liebig J, Feldhaar H, Moran NA, Guy L, Andersson SG.

Sci Rep. 2016 Dec 15;6:39197. doi: 10.1038/srep39197.


Why mitochondria need a genome revisited.

Björkholm P, Ernst AM, Hagström E, Andersson SG.

FEBS Lett. 2017 Jan;591(1):65-75. doi: 10.1002/1873-3468.12510. Epub 2016 Dec 20.


Switches in Genomic GC Content Drive Shifts of Optimal Codons under Sustained Selection on Synonymous Sites.

Sun Y, Tamarit D, Andersson SGE.

Genome Biol Evol. 2017 Oct 1;9(10):2560-2579. doi: 10.1093/gbe/evw201.


Stress management strategies in single bacterial cells.

Andersson SG.

Proc Natl Acad Sci U S A. 2016 Apr 12;113(15):3921-3. doi: 10.1073/pnas.1603151113. Epub 2016 Mar 31. No abstract available.


Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria.

Eiler A, Mondav R, Sinclair L, Fernandez-Vidal L, Scofield DG, Schwientek P, Martinez-Garcia M, Torrents D, McMahon KD, Andersson SG, Stepanauskas R, Woyke T, Bertilsson S.

ISME J. 2016 Aug;10(8):1902-14. doi: 10.1038/ismej.2015.260. Epub 2016 Jan 19.


Mitochondrial genomes are retained by selective constraints on protein targeting.

Björkholm P, Harish A, Hagström E, Ernst AM, Andersson SG.

Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):10154-61. doi: 10.1073/pnas.1421372112. Epub 2015 Jul 20.


Functionally Structured Genomes in Lactobacillus kunkeei Colonizing the Honey Crop and Food Products of Honeybees and Stingless Bees.

Tamarit D, Ellegaard KM, Wikander J, Olofsson T, Vásquez A, Andersson SG.

Genome Biol Evol. 2015 May 6;7(6):1455-73. doi: 10.1093/gbe/evv079.


Extensive intra-phylotype diversity in lactobacilli and bifidobacteria from the honeybee gut.

Ellegaard KM, Tamarit D, Javelind E, Olofsson TC, Andersson SG, Vásquez A.

BMC Genomics. 2015 Apr 11;16:284. doi: 10.1186/s12864-015-1476-6.


Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution.

Martijn J, Schulz F, Zaremba-Niedzwiedzka K, Viklund J, Stepanauskas R, Andersson SG, Horn M, Guy L, Ettema TJ.

ISME J. 2015 Nov;9(11):2373-85. doi: 10.1038/ismej.2015.46. Epub 2015 Apr 7.


Extensive duplication of the Wolbachia DNA in chromosome four of Drosophila ananassae.

Klasson L, Kumar N, Bromley R, Sieber K, Flowers M, Ott SH, Tallon LJ, Andersson SG, Dunning Hotopp JC.

BMC Genomics. 2014 Dec 12;15:1097. doi: 10.1186/1471-2164-15-1097.


Missing genes, multiple ORFs, and C-to-U type RNA editing in Acrasis kona (Heterolobosea, Excavata) mitochondrial DNA.

Fu CJ, Sheikh S, Miao W, Andersson SG, Baldauf SL.

Genome Biol Evol. 2014 Aug 21;6(9):2240-57. doi: 10.1093/gbe/evu180.


Single cell genomics of deep ocean bacteria.

Zhao W, Andersson SG.

Trends Microbiol. 2014 May;22(5):233-4. doi: 10.1016/j.tim.2014.03.002. Epub 2014 Mar 27.


Testing the reproducibility of multiple displacement amplification on genomes of clonal endosymbiont populations.

Ellegaard KM, Klasson L, Andersson SG.

PLoS One. 2013 Nov 27;8(11):e82319. doi: 10.1371/journal.pone.0082319. eCollection 2013.


Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade.

Zaremba-Niedzwiedzka K, Viklund J, Zhao W, Ast J, Sczyrba A, Woyke T, McMahon K, Bertilsson S, Stepanauskas R, Andersson SG.

Genome Biol. 2013 Nov 28;14(11):R130. doi: 10.1186/gb-2013-14-11-r130.


Comparative and phylogenomic evidence that the alphaproteobacterium HIMB59 is not a member of the oceanic SAR11 clade.

Viklund J, Martijn J, Ettema TJ, Andersson SG.

PLoS One. 2013 Nov 1;8(11):e78858. doi: 10.1371/journal.pone.0078858. eCollection 2013.


Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics.

Eiler A, Zaremba-Niedzwiedzka K, Martínez-García M, McMahon KD, Stepanauskas R, Andersson SG, Bertilsson S.

Environ Microbiol. 2014 Sep;16(9):2682-98. doi: 10.1111/1462-2920.12301. Epub 2013 Nov 12.


Adaptive mutations and replacements of virulence traits in the Escherichia coli O104:H4 outbreak population.

Guy L, Jernberg C, Arvén Norling J, Ivarsson S, Hedenström I, Melefors Ö, Liljedahl U, Engstrand L, Andersson SG.

PLoS One. 2013 May 10;8(5):e63027. doi: 10.1371/journal.pone.0063027. Print 2013.


No ancient DNA damage in Actinobacteria from the Neanderthal bone.

Zaremba-Niedźwiedzka K, Andersson SG.

PLoS One. 2013 May 3;8(5):e62799. doi: 10.1371/journal.pone.0062799. Print 2013.


Comparative genomics of Wolbachia and the bacterial species concept.

Ellegaard KM, Klasson L, Näslund K, Bourtzis K, Andersson SG.

PLoS Genet. 2013 Apr;9(4):e1003381. doi: 10.1371/journal.pgen.1003381. Epub 2013 Apr 4.


A gene transfer agent and a dynamic repertoire of secretion systems hold the keys to the explosive radiation of the emerging pathogen Bartonella.

Guy L, Nystedt B, Toft C, Zaremba-Niedzwiedzka K, Berglund EC, Granberg F, Näslund K, Eriksson AS, Andersson SG.

PLoS Genet. 2013 Mar;9(3):e1003393. doi: 10.1371/journal.pgen.1003393. Epub 2013 Mar 28.


The diversity and evolution of Wolbachia ankyrin repeat domain genes.

Siozios S, Ioannidis P, Klasson L, Andersson SG, Braig HR, Bourtzis K.

PLoS One. 2013;8(2):e55390. doi: 10.1371/journal.pone.0055390. Epub 2013 Feb 4.


Genomic diversity of the 2011 European outbreaks of Escherichia coli O104:H4.

Guy L, Jernberg C, Ivarsson S, Hedenström I, Engstrand L, Andersson SG.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):E3627-8. doi: 10.1073/pnas.1206246110. Epub 2012 Dec 17. No abstract available.


Bacterial genomes: next generation sequencing technologies for studies of bacterial ecosystems.

Andersson SG, Goodman AL.

Curr Opin Microbiol. 2012 Oct;15(5):603-4. doi: 10.1016/j.mib.2012.10.001. Epub 2012 Oct 17. No abstract available.


Large-scale introgression shapes the evolution of the mating-type chromosomes of the filamentous ascomycete Neurospora tetrasperma.

Sun Y, Corcoran P, Menkis A, Whittle CA, Andersson SG, Johannesson H.

PLoS Genet. 2012;8(7):e1002820. doi: 10.1371/journal.pgen.1002820. Epub 2012 Jul 26.


A genome-wide study of recombination rate variation in Bartonella henselae.

Guy L, Nystedt B, Sun Y, Näslund K, Berglund EC, Andersson SG.

BMC Evol Biol. 2012 May 11;12:65. doi: 10.1186/1471-2148-12-65.


A phylometagenomic exploration of oceanic alphaproteobacteria reveals mitochondrial relatives unrelated to the SAR11 clade.

Brindefalk B, Ettema TJ, Viklund J, Thollesson M, Andersson SG.

PLoS One. 2011;6(9):e24457. doi: 10.1371/journal.pone.0024457. Epub 2011 Sep 14.


Independent genome reduction and phylogenetic reclassification of the oceanic SAR11 clade.

Viklund J, Ettema TJ, Andersson SG.

Mol Biol Evol. 2012 Feb;29(2):599-615. doi: 10.1093/molbev/msr203. Epub 2011 Sep 7.


genoPlotR: comparative gene and genome visualization in R.

Guy L, Kultima JR, Andersson SG.

Bioinformatics. 2010 Sep 15;26(18):2334-5. doi: 10.1093/bioinformatics/btq413. Epub 2010 Jul 11.


The ecological coherence of high bacterial taxonomic ranks.

Philippot L, Andersson SG, Battin TJ, Prosser JI, Schimel JP, Whitman WB, Hallin S.

Nat Rev Microbiol. 2010 Jul;8(7):523-9. doi: 10.1038/nrmicro2367. Review.


Evolutionary microbial genomics: insights into bacterial host adaptation.

Toft C, Andersson SG.

Nat Rev Genet. 2010 Jul;11(7):465-75. doi: 10.1038/nrg2798. Review.


Rapid diversification by recombination in Bartonella grahamii from wild rodents in Asia contrasts with low levels of genomic divergence in Northern Europe and America.

Berglund EC, Ellegaard K, Granberg F, Xie Z, Maruyama S, Kosoy MY, Birtles RJ, Andersson SG.

Mol Ecol. 2010 Jun;19(11):2241-55. doi: 10.1111/j.1365-294X.2010.04646.x. Epub 2010 May 6.


The BatR/BatS two-component regulatory system controls the adaptive response of Bartonella henselae during human endothelial cell infection.

Quebatte M, Dehio M, Tropel D, Basler A, Toller I, Raddatz G, Engel P, Huser S, Schein H, Lindroos HL, Andersson SG, Dehio C.

J Bacteriol. 2010 Jul;192(13):3352-67. doi: 10.1128/JB.01676-09. Epub 2010 Apr 23.


Research on small genomes: implications for synthetic biology.

Klasson L, Andersson SG.

Bioessays. 2010 Apr;32(4):288-95. doi: 10.1002/bies.200900165. Review.


Genome dynamics of Bartonella grahamii in micro-populations of woodland rodents.

Berglund EC, Ehrenborg C, Vinnere Pettersson O, Granberg F, Näslund K, Holmberg M, Andersson SG.

BMC Genomics. 2010 Mar 4;11:152. doi: 10.1186/1471-2164-11-152.


Computational resources in infectious disease: limitations and challenges.

Berglund EC, Nystedt B, Andersson SG.

PLoS Comput Biol. 2009 Oct;5(10):e1000481. doi: 10.1371/journal.pcbi.1000481. Epub 2009 Oct 26. Review. No abstract available.


Run-off replication of host-adaptability genes is associated with gene transfer agents in the genome of mouse-infecting Bartonella grahamii.

Berglund EC, Frank AC, Calteau A, Vinnere Pettersson O, Granberg F, Eriksson AS, Näslund K, Holmberg M, Lindroos H, Andersson SG.

PLoS Genet. 2009 Jul;5(7):e1000546. doi: 10.1371/journal.pgen.1000546. Epub 2009 Jul 3.


The alpha-proteobacteria: the Darwin finches of the bacterial world.

Ettema TJ, Andersson SG.

Biol Lett. 2009 Jun 23;5(3):429-32. doi: 10.1098/rsbl.2008.0793. Epub 2009 Mar 11.


The mosaic genome structure of the Wolbachia wRi strain infecting Drosophila simulans.

Klasson L, Westberg J, Sapountzis P, Näslund K, Lutnaes Y, Darby AC, Veneti Z, Chen L, Braig HR, Garrett R, Bourtzis K, Andersson SG.

Proc Natl Acad Sci U S A. 2009 Apr 7;106(14):5725-30. doi: 10.1073/pnas.0810753106. Epub 2009 Mar 23.


Endosymbiont gene functions impaired and rescued by polymerase infidelity at poly(A) tracts.

Tamas I, Wernegreen JJ, Nystedt B, Kauppinen SN, Darby AC, Gomez-Valero L, Lundin D, Poole AM, Andersson SG.

Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):14934-9. doi: 10.1073/pnas.0806554105. Epub 2008 Sep 24.


Comment on "A 3-hydroxypropionate/4-hydroxybutyrate autotrophic carbon dioxide assimilation pathway in Archaea".

Ettema TJ, Andersson SG.

Science. 2008 Jul 18;321(5887):342; author reply 342. doi: 10.1126/science.1158766.


The Journey to smORFland.

Davids W, Fuxelius HH, Andersson SG.

Comp Funct Genomics. 2003;4(5):537-41. doi: 10.1002/cfg.325.


Visualization of pseudogenes in intracellular bacteria reveals the different tracks to gene destruction.

Fuxelius HH, Darby AC, Cho NH, Andersson SG.

Genome Biol. 2008;9(2):R42. doi: 10.1186/gb-2008-9-2-r42. Epub 2008 Feb 26.


Diversifying selection and concerted evolution of a type IV secretion system in Bartonella.

Nystedt B, Frank AC, Thollesson M, Andersson SG.

Mol Biol Evol. 2008 Feb;25(2):287-300. Epub 2007 Dec 7.


The genomic and metabolic diversity of Rickettsia.

Fuxelius HH, Darby A, Min CK, Cho NH, Andersson SG.

Res Microbiol. 2007 Dec;158(10):745-53. Epub 2007 Oct 4.


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