Publikationen

 

2018


Graspeuntner, S., Bohlmann, M.K., Gillmann, K., Speer, R., Kuenzel, S., Mark, H., Hoellen, F., Lettau, R., Griesinger, G., König, I.R., Baines, J.F., and Rupp, J. (2018). Microbiota-based analysis reveals specific bacterial traits and a novel strategy for the diagnosis of infectious infertilityPLoS ONE. 13, p. e0191047.
 
Hirose, M., Schilf, P., Gupta, Y., Zarse, K., Künstner, A., Fähnrich, A., Busch, H., Yin, J., Wright, M.N., Ziegler, A., Vallier, M., Belheouane, M., Baines, J.F., Tautz, D., Johann, K., Oelkrug, R., Mittag, J., Lehnert, H., Othman, A., Jöhren, O., Schwaninger, M., Prehn, C., Adamski, J., Shima, K., Rupp, J., Häsler, R., Fuellen, G., Köhling, R., Ristow, M., and Ibrahim, S.M. (2018). Low-level mitochondrial heteroplasmy modulates DNA replication, glucose metabolism and lifespan in mice. Sci Rep. 8, 5872.
 
Pan, W.-H., Sommer, F., Falk-Paulsen, M., Ulas, T., Best, P., Fazio, A., Kachroo, P., Luzius, A., Jentzsch, M., Rehman, A., Müller, F., Lengauer, T., Walter, J., Künzel, S., Baines, J.F., Schreiber, S., Franke, A., Schultze, J.L., Bäckhed, F., and Rosenstiel, P. (2018). Exposure to the gut microbiota drives distinct methylome and transcriptome changes in intestinal epithelial cells during postnatal development. Genome Med. Vol. 10, No. 27.

Hadizadeh, F., Bonfiglio, F., Belheouane, M., Vallier, M., Sauer, S., Bang, C., Bujanda, L., Andreasson, A., Agreus, L., Engstrand, L., Talley N.J., Rafter J., Baines J.F., Walter S., Franke A., and D'Amato M. (2017). Faecal microbiota composition associates with abdominal pain in the general populationGut. Vol 67. No. 4. pp. 778-779.

 

 

2017


Rühlemann, M.C., Degenhardt, F., Thingholm, L.B., Wang, J., Skiecevičienė, J., Rausch, P., Hov, J.R., Lieb, W., Karlsen, T.H., Laudes, M., Baines J.F., Heinsen F.A., and Franke A. (2017). Application of the distance-based F test in an mGWAS investigating β diversity of intestinal microbiota identifies variants in SLC9A8 (NHE8) and 3 other lociGut Microbes. 1, 8.

Tronstad, R.R., Kummen, M., Holm, K., von Volkmann, H.L., Anmarkrud, J.A., Høivik, M.L., Moum, B., Gilja, O.H., Hausken, T., Baines, J., et al. (2017). Guanylate Cyclase C Activation Shapes the Intestinal Microbiota in Patients with Familial Diarrhea and Increased Susceptibility for Crohn’s DiseaseInflamm. Bowel Dis. Vol. 23. No. 10. pp. 1752–1761.

Vallier, M., Abou Chakra, M., Hindersin, L., Linnenbrink, M., Traulsen, A., and Baines, J.F. (2017). Evaluating the maintenance of disease-associated variation at the blood group-related gene B4galnt2 in house mice. BMC Evol. Biol. 17, 187.

Claussen, J.C., Skiecevičienė, J., Wang, J., Rausch, P., Karlsen, T.H., Lieb, W., Baines, J.F., Franke, A., and Hütt, M.T. (2017). Boolean analysis reveals systematic interactions among low-abundance species in the human gut microbiome.  PLOS Computational Biology. Vol. 13, No. 6. p. e1005361.

Rausch P, Künzel S, Suwandi A, Grassl GA, Rosenstiel P, Baines JF. (2017). Multigenerational Influences of the Fut2 Gene on the Dynamics of the Gut Microbiota in Mice. Frontiers in Microbiology. Vol. 8. Article 991.

Belheouane M, Gupta Y, Künzel S, Ibrahim S, Baines JF. Improved detection of gene-microbe interactions in the mouse skin microbiota using high-resolution QTL mapping of 16S rRNA transcripts. (2017) Microbiome. Vol 5. No. 1, p 59.

Jäckel S, Kiouptsi K, Lillich M, Hendrikx T, Khandagale A, Kollar B, Hörmann, N., Reiss, C., Subramaniam, S., Wilms, E., Ebner, K., von Brühl, M.L., Rausch, P., Baines, J.F., Haberichter, S., Lämmle, B., Binder, C.J., Jurk, K., Ruggeri, Z.M., Massberg, S., Walter, U., Ruf, W., Reinhardt, C.. (2017). Gut microbiota regulate hepatic von Willebrand Factor synthesis and arterial thrombus formation via Toll-like receptor-2
Blood. Vol. 130, No. 4, pp. 542-553.

Sommer, F., Rühlemann, M.C., Bang, C., Höppner, M., Rehman, A., Kaleta, C., Schmitt-Kopplin, P., Dempfle, A., Weidinger, S. Ellinghaus, E., Krauss-Etschmann, S., Schmidt-Arras, D., Aden, K., Schulte, D., Ellinghaus, D., Schreiber, S., Tholey, A., Rupp, J., Laudes, M., Baines, J.F., Rosenstiel, P., Franke, A. (2017). 
Microbiomarkers in inflammatory bowel diseases: caveats come with caviarGut. Vol. 66, No. 10, pp. 1734-1738. 

Hopfner, F., Künstner, A., Müller, S.H., Künzel, S., Zeuner, K.E., Margraf, N.G., Deuschl, G., Baines, J.F., and Kuhlenbäumer, G. (2017). Gut microbiota in Parkinson disease in a Northern German cohort. Brain Research, Vol, 1221, pp. 41-45.

Miodovnik, M., Künstner, A., Langan, E.A., Zillikens, D., Gläser, R., Sprecher, E., Baines, J.F., Schmidt, E., and Ibrahim, S.M. (2017).  
A distinct cutaneous microbiota profile in autoimmune bullous patients. Experimental Dermatology, [Epub 2017]

Schmidt, E., Spindler, V., Eming, R., Amagai, M., Antonicelli, F., Baines, J.F., Belheouane, M., Bernard, P., Borradori, L., Caproni, M., Di Zenzo, G., Grando, S., Harman, K., Jonkman, M.F., Koga, H., Ludwig, R.J., Kowalczyk, A.P., Müller, E.J., Nishie, W., Pas, H., Payne, A.S., Sadik, C.D., Seppänen, A., Setterfield, J., Shimizu, H., Sinha, A.A., Sprecher, E., Sticherling, M., Ujiie, H., Zillikens, D., Hertl, M., Waschke, J. (2017). Meeting Report of the Pathogenesis of Pemphigus and Pemphigoid Meeting in Munich, September 2016. Journal of Investigative Dermatology, Vol. 137, No. 6, pp. 1199-1203.

Herpertz-Dahlmann, B., Seitz, J. and Baines, J. (2017). Food matters: how the microbiome and gut-brain interaction might impact the development and course of anorexia nervosa. European Child and Adolescent Psychiatry, pp. 1-11.

Schrumpf, E., Kummen, M., Valestrand, L., Greiner, T.U., Holm, K., Arulampalam, V., Reims, H.M., Baines, J., Bäckhed, F., Karlsen, T.H., Blumberg, RS, Hov, JR and Melum, E. (2017). The gut microbiota contributes to a mouse model of spontaneous bile duct inflammation. Journal of Hepatology, Vol. 66, pp. 382–389.

 

 

2016


Henström M., Diekmann L., Bonfiglio F., Hadizadeh F., Kuech E.M., von Köckritz-Blickwede M., Thingholm L.B., Zheng T., Assadi G., Dierks C., Heine M., Philipp U., Distl O., Money M.E., Belheouane M., Heinsen F.A., Rafter J., Nardone G., Cuomo R., Usai-Satta P., Galeazzi F., Neri M., Walter S., Simrén M., Karling P., Ohlsson B., Schmidt P.T., Lindberg G., Dlugosz A., Agreus L., Andreasson A., Mayer E., Baines J.F., Engstrand .L, Portincasa P., Bellini M., Stanghellini V., Barbara G., Chang L., Camilleri M., Franke A., Naim H.Y., D'Amato M. (2016). Functional variants in the sucrase-isomaltase gene associate with increased risk of irritable bowel syndrome. Gut, Vol. 0, pp. 1-8. 

Lagkouvardos, I., Pukall, R., Abt, B., Foesel, B.U., Meier-Kolthoff, J.P., Kumar, N., Bresciani, A., Martínez, I., Just, S., Ziegler, C., Brugiroux, S., Garzetti, D., Wenning, M., Bui, T.P.N., Wang, J., Hugenholtz, F., Plugge, C.M., Peterson, D.A., Hornef, M.W., Baines, J.F., Smidt, H., Walter, J., Kristiansen, K., Nielsen, H.B., Haller, D., Overmann, J., Stecher, B. and Clavel, T. (2016). Corrigendum: The Mouse Intestinal Bacterial Collection (miBC) provides host-specific insight into cultured diversity and functional potential of the gut microbiota. Nature Microbiology, Vol. 1, p. 16219.

Wang, J., Thingholm, L.B., Skiecevičienė, J., Rausch, P., Kummen, M., Hov, J.R., Degenhardt, F., Heinsen, F.-A., Rühlemann, M.C., Szymczak, S., Holm, K., Esko, T., Sun, J., Pricop-Jeckstadt, M., Al-Dury, S., Bohov, P., Bethune, J., Sommer, F., Ellinghaus, D., Berge, R.K., Hübenthal, M., Koch, M., Schwarz, K., Rimbach, G., Hübbe, P., Pan, W.-H., Sheibani-Tezerji, R., Häsler, R., Rosenstiel, P., D’Amato, M., Cloppenborg-Schmidt, K., Künzel, S., Laudes, M., Marschall, H.-U., Lieb, W., Nöthlings, U., Karlsen, T.H., Baines, J.F. and Franke, A. (2016). Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota. Nature GeneticsVol. 48, No. 11, pp. 1396-1406.

Hadizadeh, F., Walter, S., Belheouane, M., Bonfiglio, F., Andreasson, A., Agreus, L., Engstrand, L., Baines, J.F., Rafter, J., Franke, A. and D'Amato, M. (2016). Stool frequency associated with gut microbiota composition. Gut, pii: gutjnl-2016-311935.

Moschen, A.R., Gerner, R.R., Wang, J., Klepsch, V., Adolph, T.E., Reider, S., Hackl, H., Orth-Höller, D., Moser, P.L., Pfister, A., Swidsinski, A., Kempster, S.L., Kaser, A., Baines, J.F., and Tilg, H. (2016). Lipocalin 2 protects from colonic inflammation and tumorigenesis through its microbiota modulating properties. Cell Host Microbe, Vol. 19 No. 4, pp. 455-469.

Peuker, K., Muff, S., Wang, J., Künzel, S., Bosse, E., Zeissig, Y., Luzzi, G., Basic, M., Strigli, A., Ulbricht, A., Kasser, A., Arlt, A., Chavakis, T., van den Brink, G.R., Schafmayer, C., Egberts, J.H., Becker, T., Bianchi, M.E., Bleich, A., Röcken, C., Hampe, J., Schreiber, S., Baines, J.F., Blumberg, R.S., Zeissig, S. (2016). Epithelial calcineurin controls microbiota-dependent intestinal tumor developmentNature Medicine, Vol. 22, pp.506–515.

Ellebrecht, C.T., Srinivas, G., Bieber, K., Banczyk, D., Kalies, K., Künzel, S., Hammers, C.M., Baines, J.F., Zillikens, D., Ludwig, R.J. and Westermann, J. (2016). Skin microbiota-associated inflammation precedes autoantibody induced tissue damage in experimental epidermolysis bullosa acquisitaJournal of Autoimmunity, Vol. 68, pp. 14-22.

Rausch, P., Basic, M., Batra, A., Bischoff, S.C., Blaut, M., Clavel, T., Gläsner, J., Gopalakrishnan, S., Grassl, G.A., Günther, C., Haller, D., Hirose, M., Ibrahim, S., Loh, G., Mattner, J., Nagel, S., Pabst, O., Schmidt, F., Siegmund, B., Strowig, T., Volynets, V., Wirtz, S., Zeissig, S., Zeissig, Y., Bleich, A., and Baines, JF. (2016). Analysis of factors contributing to variation in the C57BL/6J fecal microbiota across German animal facilitiesInternational Journal of Medical MicrobiologyVol. 306 No.5, pp.343-355.

Hiergeist, A., Reischl, U., Gessner, A., and Priority Program 1656 Intestinal Microbiota Consortium*. (2016). Multicenter quality assessment of 16S ribosomal DNA-sequencing for microbiome analyses reveals high inter-center variabilityInternational Journal of Medical Microbiology, Vol. 306 No. 5, pp. 334-342. *Baines, J.F. and Vallier, M. are contributing members. 

Theis, K.R., Dheilly, N.M.M., Klassen, J.L., Brucker, R.M., Baines, J.F., Bosch, T.C.G., Cryan, J.F., Gilbert, S.F., Goodnight, C.J., Lloyd, E.A., Sapp, J., Vandenkoornhuyse, P., Zilber-Rosenberg, I., Rosenberg, E., and Bordenstein, S.R. (2016). Getting the hologenome concept right: An eco-evolutionary framework for hosts and their microbiomesmSystems, Vol. 1 No. 2, e00028-16.

Lokmer, A., Goedknegt, M.A., Thieltges, D.W., Fiorentino, D., Kuenzel, S., Baines, J.F., and Wegner, K.M. (2016). Spatial and Temporal Dynamics of Pacific Oyster Hemolymph Microbiota across Multiple Scales
Front Microbiology, Vol. 7, p. 1367.

Lokmer, A., Kuenzel, S., Baines, J., Wegner, KM.
(2016). The role of tissue-specific microbiota in initial establishment success of pacific oystersEnvironmental Microbiology, Vol. 18 No. 3, pp. 970-87.

Gupta, Y., Möller, S., Witte, M., Belheouane, M., Sezin, T., Hirose, M., Vorobyev, A., Niesar, F., Bischof, J., Ludwig, R.J., Zillikens, D., Sadik, C.D., Restle, T., Häsler, R., Baines, J.F., and Ibrahim, S.M. (2016). Dissecting genetics of cutaneous miRNA in a mouse model of an autoimmune blistering diseaseBMC GenomicsVol. 17 No. 112.

Rehman, A.*, Rausch, P.*, Wang, J., Skieceviciene, J., Kiudelis, G., Bhagalia, K., Amarapurkar, D., Kupcinskas, L., Schreiber, S., Rosenstiel, P.*, Baines, J.F.* and Ott, S.* (2016). Geographical patterns of the standing and active human gut microbiome in health and IBDGut, Vol. 65 No. 2, pp. 238-48. *Equal author contribution

 

 

2015


Rausch, P.*, Steck, N.*, Suwandi, A., Seidel, J.A., Künzel, S., Bhullar, K., Basic, M., Bleich, A., Johnsen, J.M., Vallance, B.A., Baines, J.F.* and Grassl G.A.* (2015). Expression of the Blood-Group-Related Gene B4galnt2 Alters Susceptibility to Salmonella InfectionPLoS Pathogens, Vol. 11 No. 7, p. e1005008. *Equal author contribution

Kalyan, S., Wang, J., Quabius, E.S., Huck, J., Wiltfang, J., Baines, J.F. and Kabelitz, D. (2015). Systemic immunity shapes the oral microbiome and susceptibility to bisphosphonate-associated osteonecrosis of the jawJournal of Translational Medicine, Vol. 13 No. 1, p. 212. doi:10.1186/s12967-015-0568-z.
 

Weiland-Bräuer, N., Neulinger, S.C., Pinnow, N., Künzel, S., Baines, J.F. and Schmitz, R.A. (2015). Composition of Bacterial Communities Associated with Aurelia aurita Changes with Compartment, Life Stage, and Population. (Schloss, P.D.,Ed.) Applied and Environmental Microbiology, Vol. 81 No. 17, pp. 6038–6052.
 
Vences, M., Granzow, S., Künzel, S., Tebbe, C.C., Baines, J.F. and Dohrmann, A.B. (2015). Composition and variation of the skin microbiota in sympatric species of European newts (Salamandridae)Amphibia-Reptilia, Vol. 36 No. 1, pp. 5–12. 
 
Wang, J., Kalyan, S., Steck, N., Turner, L.M., Harr, B., Künzel, S., Vallier, M., Häsler, R., Franke, A., Oberg, H.H., Ibrahim, S.M., Grassl, G.A., Kabelitz, D. and Baines, J.F. (2015), “Analysis of intestinal microbiota in hybrid house mice reveals evolutionary divergence in a vertebrate hologenome”, Nature Communications, Vol. 6 No. 6440. doi:10.1038/ncomms7440.
 
Huebbe, P., Dose, J., Schloesser, A., Campbell, G., Glüer, C.-C., Gupta, Y., Ibrahim, S., Minihane, A.M., Baines, J.F., Nebel, A. and Rimbach, G. (2015), “Apolipoprotein E (APOE) genotype regulates body weight and fatty acid utilization-Studies in gene-targeted replacement mice”, Molecular Nutrition & Food Research, Vol. 59 No. 2, pp. 334–343. doi: 10.1002/mnfr.201400636.

 

 

2014


Tschurtschenthaler, M., Wang, J., Fricke, C., Fritz, T.M.J., Niederreiter, L., Adolph, T.E., Sarcevic, E., Künzel, S., Offner, F.A., Kalinke, U., Baines, J.F., Tilg, H. and Kaser, A. (2014). Type I interferon signalling in the intestinal epithelium affects Paneth cells, microbial ecology and epithelial regenerationGut, Vol. 63 No. 12, pp. 1921–1931.
 
Wang, J., Linnenbrink, M., Künzel, S., Fernandes, R., Nadeau, M.-J., Rosenstiel, P. and Baines, J.F. (2014). 
Dietary history contributes to enterotype-like clustering and functional metagenomic content in the intestinal microbiome of wild miceProceedings of the National Academy of Sciences of the United States of America, Vol. 111 No. 26, pp. e2703–2710.
 
Yun, Y., Srinivas, G., Kuenzel, S., Linnenbrink, M., Alnahas, S., Bruce, K.D., Steinhoff, U., Baines, J.F. and Schaible, U.E. (2014). Environmentally determined differences in the murine lung microbiota and their relation to alveolar architecturePloS ONE, Vol. 9 No. 12, p. e113466.
 
Wang, J., Kuenzel, S. and Baines, J.F. (2014). Draft Genome Sequences of 11 Staphylococcus epidermidis Strains Isolated from Wild Mouse SpeciesGenome Announcements, Vol. 2 No. 1, pp. e01148-13.
 
Langfeldt, D., Neulinger, S.C., Heuer, W., Staufenbiel, I., Künzel, S., Baines, J.F., Eberhard, J. and Schmitz, R.A. (2014), Composition of microbial oral biofilms during maturation in young healthy adultsPloS ONE, Vol. 9 No. 2, p. e87449. 

 

 

2013


Fink, C., Staubach, F., Kuenzel, S., Baines, J.F. and Roeder, T. (2013), “Noninvasive analysis of microbiome dynamics in the fruit fly Drosophila melanogaster”, Applied and Environmental Microbiology, Vol. 79 No. 22, pp. 6984–6988. doi:10.1128/AEM.01903-13. 
 
Franzenburg, S., Walter, J., Künzel, S., Wang, J., Baines, J.F., Bosch, T.C.G. and Fraune, S. (2013), “Distinct antimicrobial peptide expression determines host species-specific bacterial associations”, Proceedings of the National Academy of Sciences of the United States of America, Vol. 110 No. 39, pp. e3730–3738. doi:10.1073/pnas.1304960110. 
 
Srinivas, G., Möller, S., Wang, J., Künzel, S., Zillikens, D., Baines, J.F.* and Ibrahim, S.M.* (2013), “Genome-wide mapping of gene–microbiota interactions in susceptibility to autoimmune skin blistering”, Nature Communications, Vol. 4 No. 2462, doi:10.1038/ncomms3462. *Equal author contribution
 
Staubach, F., Baines, J.F., Künzel, S., Bik, E.M. and Petrov, D.A. (2013), “Host Species and Environmental Effects on Bacterial Communities Associated with Drosophila in the Laboratory and in the Natural Environment”, (Quince, C.,Ed.) PLoS ONE, Vol. 8 No. 8, p. e70749. doi:10.1371/journal.pone.0070749. 
 
Lachnit, T., Fischer, M., Künzel, S., Baines, J.F. and Harder, T. (2013), “Compounds associated with algal surfaces mediate epiphytic colonization of the marine macroalga Fucus vesiculosus”, FEMS Microbiology Ecology, Vol. 84 No. 2, pp. 411–420. doi:10.1111/1574-6941.12071. 
 
Linnenbrink, M., Wang, J., Hardouin, E.A., Künzel, S., Metzler, D. and Baines, J.F. (2013), “The role of biogeography in shaping diversity of the intestinal microbiota in house mice”, Molecular Ecology, Vol. 22 No. 7, pp. 1904–1916. doi:10.1111/mec.12206. 
 
Franzenburg, S., Fraune, S., Altrock, P.M., Künzel, S., Baines, J.F., Traulsen, A. and Bosch, T.C.G. (2013), “Bacterial colonization of Hydra hatchlings follows a robust temporal pattern”, The ISME Journal, Vol. 7 No. 4, pp. 781–790. doi: 10.1038/ismej.2012.156.

 

 

2012


Franzenburg, S., Fraune, S., Künzel, S., Baines, J.F., Domazet-Loso, T. and Bosch, T.C.G. (2012), “MyD88-deficient Hydra reveal an ancient function of TLR signaling in sensing bacterial colonizers”, Proceedings of the National Academy of Sciences of the United States of America, Vol. 109 No. 47, pp. 19374–19379. doi:10.1073/pnas.1213110109.
 
Folseraas, T., Melum, E., Rausch, P., Juran, B.D., Ellinghaus, E., Shiryaev, A., Laerdahl, J.K., Ellinghaus, D., Schramm, C., Weismüller, T.J., Gotthardt, D.N., Hov, J.R., Clausen, O.P., Weersma, R.K., Janse, M., Boberg, K.M., Björnsson, E., Marschall, H.U., Cleyen, I., Rosenstiel, P., Holm, K., Teufel, A., Rust, C., Gieger, C., Wichmann, H.E., Bergquist, A., Ryu, E., Ponsioen, C.Y., Runz, H., Sterneck, M., Vermeire, S., Beuers, U., Wijmenga, C., Schrumpf, E., Manns, M.P., Lazaridis, K.N., Schreiber, S., Baines, J.F., Franke, A. and Karlsen, T.H. (2012), “Extended analysis of a genome-wide association study in primary sclerosing cholangitis detects multiple novel risk loci”, Journal of Hepatology, Vol. 57 No. 2, pp. 366–375. doi:10.1016/j.jhep.2012.03.031.
 
Staubach, F., Künzel, S., Baines, A.C., Yee, A., McGee, B.M., Bäckhed, F., Baines, J.F.* and Johnsen, J.M.* (2012), “Expression of the blood-group-related glycosyltransferase B4galnt2 influences the intestinal microbiota in mice”, The ISME Journal, Vol. 6 No. 7, pp. 1345–1355. doi: 10.1038/ismej.2011.204. *Equal author contribution

 

 

2011


Rausch, P., Rehman, A., Künzel, S., Häsler, R., Ott, S.J., Schreiber, S., Rosenstiel, P., Franke, A. and Baines, J.F. (2011), “Colonic mucosa-associated microbiota is influenced by an interaction of Crohn disease and FUT2 (Secretor) genotype”, Proceedings of the National Academy of Sciences of the United States of America, Vol. 108 No. 47, pp. 19030–19035. doi:10.1073/pnas.1106408108.
 
Linnenbrink, M., Johnsen, J.M., Montero, I., Brzezinski, C.R., Harr, B. and Baines, J.F. (2011), “Long-term balancing selection at the blood group-related gene B4galnt2 in the genus Mus (Rodentia; Muridae)”, Molecular Biology and Evolution, Vol. 28 No. 11, pp. 2999–3003. doi:10.1093/molbev/msr150.
 
Rehman, A., Sina, C., Gavrilova, O., Häsler, R., Ott, S., Baines, J.F., Schreiber, S. and Rosenstiel, P. (2011), “Nod2 is essential for temporal development of intestinal microbial communities”, Gut, Vol. 60 No. 10, pp. 1354–1362. doi:10.1136/gut.2010.216259. 

 

 

2009 and earlier


Parsch, J., Zhang, Z. and Baines, J.F. (2009), “The influence of demography and weak selection on the McDonald-Kreitman test: an empirical study in Drosophila”, Molecular Biology and Evolution, Vol. 26 No. 3, pp. 691–698. doi:10.1093/molbev/msn297. 
 
Johnsen, J.M., Teschke, M., Pavlidis, P., McGee, B.M., Tautz, D., Ginsburg, D. and Baines, J.F. (2009), “Selection on cis-regulatory variation at B4galnt2 and its influence on von Willebrand factor in house mice”, Molecular Biology and Evolution, Vol. 26 No. 3, pp. 567–578. doi:10.1093/molbev/msn284.
 
Grath, S., Baines, J.F. and Parsch, J. (2009), “Molecular evolution of sex-biased genes in the Drosophila ananassae subgroup”, BMC Evolutionary Biology, Vol. 9, p. 291. doi:0.1186/1471-2148-9-291. 
 
Carpenter, J., Hutter, S., Baines, J.F., Roller, J., Saminadin-Peter, S.S., Parsch, J. and Jiggins, F.M. (2009), “The transcriptional response of Drosophila melanogaster to infection with the sigma virus (Rhabdoviridae)”, PloS ONE, Vol. 4 No. 8, p. e6838. doi:10.1371/journal.pone.0006838. 
 
Baines, J.F., Sawyer, S.A., Hartl, D.L. and Parsch, J. (2008), “Effects of X-linkage and sex-biased gene expression on the rate of adaptive protein evolution in Drosophila”, Molecular Biology and Evolution, Vol. 25 No. 8, pp. 1639–1650. doi:10.1534/genetics.106.069419. 
 
Schug, M.D., Baines, J.F., Killon-Atwood, A., Mohanty, S., Das, A., Grath, S., Smith, S.G., Zargham, S., McEvey, S.F. and Stephan, W. (2008), “Evolution of mating isolation between populations of Drosophila ananassae”, Molecular Ecology, Vol. 17 No. 11, pp. 2706–2721.
doi:10.1111/j.1365-294X.2008.03770.x. 
 
Hense, W., Baines, J.F. and Parsch, J. (2007), “X chromosome inactivation during Drosophila spermatogenesis”, PLoS Biology, Vol. 5 No. 10, p. e273. doi:10.1371/journal.pbio.0050273. 
 
Baines, J.F. and Harr, B. (2007), “Reduced X-linked diversity in derived populations of house mice”, Genetics, Vol. 175 No. 4, pp. 1911–1921. doi: 10.1534/genetics.106.069419. 

Beye, M., Gattermeier, I., Hasselmann, M., Gempe, T., Schioett, M., Baines, J.F., Schlipalius, D., Mougel, F., Emore, C., Rueppell, O., Sirviö, A., Guzmán-Novoa, E., Hunt, G., Solignac, M. and Page, R.E. (2006), “Exceptionally high levels of recombination across the honey bee genome”, Genome Research, Vol. 16 No. 11, pp. 1339–1344. doi:10.1101/gr.5680406. 
 
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