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Rhodoluna limnophila sp. nov., a bacterium with 1.4 Mbp genome size isolated from freshwater habitats located in Salzburg, Austria.

Pitt A, Schmidt J, Koll U, Hahn MW.

Int J Syst Evol Microbiol. 2019 Sep 19. doi: 10.1099/ijsem.0.003720. [Epub ahead of print]


Spatial insurance in multi-trophic metacommunities.

Limberger R, Pitt A, Hahn MW, Wickham SA.

Ecol Lett. 2019 Nov;22(11):1828-1837. doi: 10.1111/ele.13365. Epub 2019 Aug 8.


A three-sample test for introgression.

Hahn MW, Hibbins MS.

Mol Biol Evol. 2019 Aug 2. pii: msz178. doi: 10.1093/molbev/msz178. [Epub ahead of print]


Interaction-Specific Changes in the Transcriptome of Polynucleobacter asymbioticus Caused by Varying Protistan Communities.

Beisser D, Bock C, Hahn MW, Vos M, Sures B, Rahmann S, Boenigk J.

Front Microbiol. 2019 Jul 9;10:1498. doi: 10.3389/fmicb.2019.01498. eCollection 2019.


Aquirufa antheringensis gen. nov., sp. nov. and Aquirufa nivalisilvae sp. nov., representing a new genus of widespread freshwater bacteria.

Pitt A, Schmidt J, Koll U, Hahn MW.

Int J Syst Evol Microbiol. 2019 Sep;69(9):2739-2749. doi: 10.1099/ijsem.0.003554.


The perils of intralocus recombination for inferences of molecular convergence.

Mendes FK, Livera AP, Hahn MW.

Philos Trans R Soc Lond B Biol Sci. 2019 Jul 22;374(1777):20180244. doi: 10.1098/rstb.2018.0244. Epub 2019 Jun 3.


Referee: Reference Assembly Quality Scores.

Thomas GWC, Hahn MW.

Genome Biol Evol. 2019 May 1;11(5):1483-1486. doi: 10.1093/gbe/evz088.


The comparative genomics and complex population history of Papio baboons.

Rogers J, Raveendran M, Harris RA, Mailund T, Leppälä K, Athanasiadis G, Schierup MH, Cheng J, Munch K, Walker JA, Konkel MK, Jordan V, Steely CJ, Beckstrom TO, Bergey C, Burrell A, Schrempf D, Noll A, Kothe M, Kopp GH, Liu Y, Murali S, Billis K, Martin FJ, Muffato M, Cox L, Else J, Disotell T, Muzny DM, Phillips-Conroy J, Aken B, Eichler EE, Marques-Bonet T, Kosiol C, Batzer MA, Hahn MW, Tung J, Zinner D, Roos C, Jolly CJ, Gibbs RA, Worley KC; Baboon Genome Analysis Consortium.

Sci Adv. 2019 Jan 30;5(1):eaau6947. doi: 10.1126/sciadv.aau6947. eCollection 2019 Jan.


Light Modulates the Physiology of Nonphototrophic Actinobacteria.

Maresca JA, Keffer JL, Hempel PP, Polson SW, Shevchenko O, Bhavsar J, Powell D, Miller KJ, Singh A, Hahn MW.

J Bacteriol. 2019 Apr 24;201(10). pii: e00740-18. doi: 10.1128/JB.00740-18. Print 2019 May 15.


The Timing and Direction of Introgression Under the Multispecies Network Coalescent.

Hibbins MS, Hahn MW.

Genetics. 2019 Mar;211(3):1059-1073. doi: 10.1534/genetics.118.301831. Epub 2019 Jan 22.


The sequencing and interpretation of the genome obtained from a Serbian individual.

Mohammed Ismail W, Pagel KA, Pejaver V, Zhang SV, Casasa S, Mort M, Cooper DN, Hahn MW, Radivojac P.

PLoS One. 2018 Dec 19;13(12):e0208901. doi: 10.1371/journal.pone.0208901. eCollection 2018.


Patterns of transposable element variation and clinality in Drosophila.

Adrion JR, Begun DJ, Hahn MW.

Mol Ecol. 2019 Mar;28(6):1523-1536. doi: 10.1111/mec.14961. Epub 2019 Jan 11.


Quantifying the risk of hemiplasy in phylogenetic inference.

Guerrero RF, Hahn MW.

Proc Natl Acad Sci U S A. 2018 Dec 11;115(50):12787-12792. doi: 10.1073/pnas.1811268115. Epub 2018 Nov 27.


Polynucleobacter paneuropaeus sp. nov., characterized by six strains isolated from freshwater lakes located along a 3000 km north-south cross-section across Europe.

Hoetzinger M, Schmidt J, Pitt A, Koll U, Lang E, Hahn MW.

Int J Syst Evol Microbiol. 2019 Jan;69(1):203-213. doi: 10.1099/ijsem.0.003130. Epub 2018 Nov 22.


Three New Genome Assemblies Support a Rapid Radiation in Musa acuminata (Wild Banana).

Rouard M, Droc G, Martin G, Sardos J, Hueber Y, Guignon V, Cenci A, Geigle B, Hibbins MS, Yahiaoui N, Baurens FC, Berry V, Hahn MW, D'Hont A, Roux N.

Genome Biol Evol. 2018 Dec 1;10(12):3129-3140. doi: 10.1093/gbe/evy227.


Speciation genes are more likely to have discordant gene trees.

Wang RJ, Hahn MW.

Evol Lett. 2018 Aug 8;2(4):281-296. doi: 10.1002/evl3.77. eCollection 2018 Aug.


Reproductive Longevity Predicts Mutation Rates in Primates.

Thomas GWC, Wang RJ, Puri A, Harris RA, Raveendran M, Hughes DST, Murali SC, Williams LE, Doddapaneni H, Muzny DM, Gibbs RA, Abee CR, Galinski MR, Worley KC, Rogers J, Radivojac P, Hahn MW.

Curr Biol. 2018 Oct 8;28(19):3193-3197.e5. doi: 10.1016/j.cub.2018.08.050. Epub 2018 Sep 27.


Association mapping desiccation resistance within chromosomal inversions in the African malaria vector Anopheles gambiae.

Ayala D, Zhang S, Chateau M, Fouet C, Morlais I, Costantini C, Hahn MW, Besansky NJ.

Mol Ecol. 2019 Mar;28(6):1333-1342. doi: 10.1111/mec.14880. Epub 2018 Oct 22.


Systems genetic analysis of inversion polymorphisms in the malaria mosquito Anopheles gambiae.

Cheng C, Tan JC, Hahn MW, Besansky NJ.

Proc Natl Acad Sci U S A. 2018 Jul 24;115(30):E7005-E7014. doi: 10.1073/pnas.1806760115. Epub 2018 Jul 9.


A multispecies coalescent model for quantitative traits.

Mendes FK, Fuentes-González JA, Schraiber JG, Hahn MW.

Elife. 2018 Aug 14;7. pii: e36482. doi: 10.7554/eLife.36482.


Multinucleotide mutations cause false inferences of lineage-specific positive selection.

Venkat A, Hahn MW, Thornton JW.

Nat Ecol Evol. 2018 Aug;2(8):1280-1288. doi: 10.1038/s41559-018-0584-5. Epub 2018 Jul 2.


Dissecting the basis of novel trait evolution in a radiation with widespread phylogenetic discordance.

Wu M, Kostyun JL, Hahn MW, Moyle LC.

Mol Ecol. 2018 Jun 28. doi: 10.1111/mec.14780. [Epub ahead of print]


Polynucleobacter hirudinilacicola sp. nov. and Polynucleobacter campilacus sp. nov., both isolated from freshwater systems.

Hahn MW, Koll U, Schmidt J, Huymann LR, Karbon G, Lang E.

Int J Syst Evol Microbiol. 2018 Aug;68(8):2593-2601. doi: 10.1099/ijsem.0.002880. Epub 2018 Jun 25.


The Neutral Theory in Light of Natural Selection.

Kern AD, Hahn MW.

Mol Biol Evol. 2018 Jun 1;35(6):1366-1371. doi: 10.1093/molbev/msy092.


Polynucleobacter meluiroseus sp. nov., a bacterium isolated from a lake located in the mountains of the Mediterranean island of Corsica.

Pitt A, Schmidt J, Lang E, Whitman WB, Woyke T, Hahn MW.

Int J Syst Evol Microbiol. 2018 Jun;68(6):1975-1985. doi: 10.1099/ijsem.0.002777. Epub 2018 Apr 24.


Clonal polymorphism and high heterozygosity in the celibate genome of the Amazon molly.

Warren WC, García-Pérez R, Xu S, Lampert KP, Chalopin D, Stöck M, Loewe L, Lu Y, Kuderna L, Minx P, Montague MJ, Tomlinson C, Hillier LW, Murphy DN, Wang J, Wang Z, Garcia CM, Thomas GCW, Volff JN, Farias F, Aken B, Walter RB, Pruitt KD, Marques-Bonet T, Hahn MW, Kneitz S, Lynch M, Schartl M.

Nat Ecol Evol. 2018 Apr;2(4):669-679. doi: 10.1038/s41559-018-0473-y. Epub 2018 Feb 12.


Sooty mangabey genome sequence provides insight into AIDS resistance in a natural SIV host.

Palesch D, Bosinger SE, Tharp GK, Vanderford TH, Paiardini M, Chahroudi A, Johnson ZP, Kirchhoff F, Hahn BH, Norgren RB, Patel NB, Sodora DL, Dawoud RA, Stewart CB, Seepo SM, Harris RA, Liu Y, Raveendran M, Han Y, English A, Thomas GWC, Hahn MW, Pipes L, Mason CE, Muzny DM, Gibbs RA, Sauter D, Worley K, Rogers J, Silvestri G.

Nature. 2018 Jan 3;553(7686):77-81. doi: 10.1038/nature25140.


Evaluating methods to visualize patterns of genetic differentiation on a landscape.

House GL, Hahn MW.

Mol Ecol Resour. 2018 May;18(3):448-460. doi: 10.1111/1755-0998.12747. Epub 2018 Jan 18.


Reclassification of a Polynucleobacter cosmopolitanus strain isolated from tropical Lake Victoria as Polynucleobacter victoriensis sp. nov.

Hahn MW, Schmidt J, Asiyo GS, Kyrpides NC, Woyke T, Whitman WB.

Int J Syst Evol Microbiol. 2017 Dec;67(12):5087-5093. doi: 10.1099/ijsem.0.002421. Epub 2017 Oct 25.


Genomic divergence and cohesion in a species of pelagic freshwater bacteria.

Hoetzinger M, Hahn MW.

BMC Genomics. 2017 Oct 16;18(1):794. doi: 10.1186/s12864-017-4199-z.


Polynucleobacter aenigmaticus sp. nov. isolated from the permanently anoxic monimolimnion of a temperate meromictic lake.

Hahn MW, Koll U, Karbon G, Schmidt J, Lang E.

Int J Syst Evol Microbiol. 2017 Nov;67(11):4646-4654. doi: 10.1099/ijsem.0.002347. Epub 2017 Oct 12.


Why Concatenation Fails Near the Anomaly Zone.

Mendes FK, Hahn MW.

Syst Biol. 2018 Jan 1;67(1):158-169. doi: 10.1093/sysbio/syx063.


Polynucleobacter sphagniphilus sp. nov. a planktonic freshwater bacterium isolated from an acidic and humic freshwater habitat.

Hahn MW, Karbon G, Koll U, Schmidt J, Lang E.

Int J Syst Evol Microbiol. 2017 Sep;67(9):3261-3267. doi: 10.1099/ijsem.0.002096. Epub 2017 Aug 22.


Speciation as a sieve for ancestral polymorphism.

Guerrero RF, Hahn MW.

Mol Ecol. 2017 Oct;26(20):5362-5368. doi: 10.1111/mec.14290. Epub 2017 Sep 8.


Transcriptomic analysis links gene expression to unilateral pollen-pistil reproductive barriers.

Broz AK, Guerrero RF, Randle AM, Baek YS, Hahn MW, Bedinger PA.

BMC Plant Biol. 2017 Apr 24;17(1):81. doi: 10.1186/s12870-017-1032-4.


Gene-Tree Reconciliation with MUL-Trees to Resolve Polyploidy Events.

Gregg WCT, Ather SH, Hahn MW.

Syst Biol. 2017 Nov 1;66(6):1007-1018. doi: 10.1093/sysbio/syx044.


Genome-Wide Estimates of Transposable Element Insertion and Deletion Rates in Drosophila Melanogaster.

Adrion JR, Song MJ, Schrider DR, Hahn MW, Schaack S.

Genome Biol Evol. 2017 May 1;9(5):1329-1340. doi: 10.1093/gbe/evx050.


Genomic evidence of gene flow during reinforcement in Texas Phlox.

Roda F, Mendes FK, Hahn MW, Hopkins R.

Mol Ecol. 2017 Apr;26(8):2317-2330. doi: 10.1111/mec.14041. Epub 2017 Mar 6.


The Effects of Increasing the Number of Taxa on Inferences of Molecular Convergence.

Thomas GW, Hahn MW, Hahn Y.

Genome Biol Evol. 2017 Jan 1;9(1):213-221. doi: 10.1093/gbe/evw306.


Polynucleobacter wuianus sp. nov., a free-living freshwater bacterium affiliated with the cryptic species complex PnecC.

Hahn MW, Huymann LR, Koll U, Schmidt J, Lang E, Hoetzinger M.

Int J Syst Evol Microbiol. 2017 Feb;67(2):379-385. doi: 10.1099/ijsem.0.001637. Epub 2017 Mar 16.



Bromberg Y, Hahn MW, Radivojac P.

Pac Symp Biocomput. 2017;22:1-2. doi: 10.1142/9789813207813_0001.


Microdiversification of a Pelagic Polynucleobacter Species Is Mainly Driven by Acquisition of Genomic Islands from a Partially Interspecific Gene Pool.

Hoetzinger M, Schmidt J, Jezberová J, Koll U, Hahn MW.

Appl Environ Microbiol. 2017 Jan 17;83(3). pii: e02266-16. doi: 10.1128/AEM.02266-16. Print 2017 Feb 1.


Photochemical characterization of actinorhodopsin and its functional existence in the natural host.

Nakamura S, Kikukawa T, Tamogami J, Kamiya M, Aizawa T, Hahn MW, Ihara K, Kamo N, Demura M.

Biochim Biophys Acta. 2016 Dec;1857(12):1900-1908. doi: 10.1016/j.bbabio.2016.09.006. Epub 2016 Sep 20.


Gene Tree Discordance Can Generate Patterns of Diminishing Convergence over Time.

Mendes FK, Hahn Y, Hahn MW.

Mol Biol Evol. 2016 Dec;33(12):3299-3307. Epub 2016 Sep 15.


AGOUTI: improving genome assembly and annotation using transcriptome data.

Zhang SV, Zhuo L, Hahn MW.

Gigascience. 2016 Jul 19;5(1):31. doi: 10.1186/s13742-016-0136-3.


Molecular mechanisms of postmating prezygotic reproductive isolation uncovered by transcriptome analysis.

Pease JB, Guerrero RF, Sherman NA, Hahn MW, Moyle LC.

Mol Ecol. 2016 Jun;25(11):2592-608. doi: 10.1111/mec.13679. Epub 2016 May 30.


Radical remodeling of the Y chromosome in a recent radiation of malaria mosquitoes.

Hall AB, Papathanos PA, Sharma A, Cheng C, Akbari OS, Assour L, Bergman NH, Cagnetti A, Crisanti A, Dottorini T, Fiorentini E, Galizi R, Hnath J, Jiang X, Koren S, Nolan T, Radune D, Sharakhova MV, Steele A, Timoshevskiy VA, Windbichler N, Zhang S, Hahn MW, Phillippy AM, Emrich SJ, Sharakhov IV, Tu ZJ, Besansky NJ.

Proc Natl Acad Sci U S A. 2016 Apr 12;113(15):E2114-23. doi: 10.1073/pnas.1525164113. Epub 2016 Mar 29.


Powerful methods for detecting introgressed regions from population genomic data.

Rosenzweig BK, Pease JB, Besansky NJ, Hahn MW.

Mol Ecol. 2016 Jun;25(11):2387-97. doi: 10.1111/mec.13610. Epub 2016 Mar 31.

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