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Population Genetic Divergence and Environment Influence the Gut Microbiome in Oregon Threespine Stickleback.

Steury RA, Currey MC, Cresko WA, Bohannan BJM.

Genes (Basel). 2019 Jun 26;10(7). pii: E484. doi: 10.3390/genes10070484.


Experimental bacterial adaptation to the zebrafish gut reveals a primary role for immigration.

Robinson CD, Klein HS, Murphy KD, Parthasarathy R, Guillemin K, Bohannan BJM.

PLoS Biol. 2018 Dec 10;16(12):e2006893. doi: 10.1371/journal.pbio.2006893. eCollection 2018 Dec.


Deforestation impacts network co-occurrence patterns of microbial communities in Amazon soils.

Khan MAW, Bohannan BJM, Nüsslein K, Tiedje JM, Tringe SG, Parlade E, Barberán A, Rodrigues JLM.

FEMS Microbiol Ecol. 2019 Feb 1;95(2). doi: 10.1093/femsec/fiy230.


Microbiomes as Metacommunities: Understanding Host-Associated Microbes through Metacommunity Ecology.

Miller ET, Svanbäck R, Bohannan BJM.

Trends Ecol Evol. 2018 Dec;33(12):926-935. doi: 10.1016/j.tree.2018.09.002. Epub 2018 Sep 25.


Macroecology to Unite All Life, Large and Small.

Shade A, Dunn RR, Blowes SA, Keil P, Bohannan BJM, Herrmann M, Küsel K, Lennon JT, Sanders NJ, Storch D, Chase J.

Trends Ecol Evol. 2018 Oct;33(10):731-744. doi: 10.1016/j.tree.2018.08.005. Epub 2018 Sep 9.


New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes.

Kroeger ME, Delmont TO, Eren AM, Meyer KM, Guo J, Khan K, Rodrigues JLM, Bohannan BJM, Tringe SG, Borges CD, Tiedje JM, Tsai SM, Nüsslein K.

Front Microbiol. 2018 Jul 23;9:1635. doi: 10.3389/fmicb.2018.01635. eCollection 2018.


Environmental Controls on Soil Microbial Communities in a Seasonally Dry Tropical Forest.

Pajares S, Campo J, Bohannan BJM, Etchevers JD.

Appl Environ Microbiol. 2018 Aug 17;84(17). pii: e00342-18. doi: 10.1128/AEM.00342-18. Print 2018 Sep 1.


A Mosaic of Geothermal and Marine Features Shapes Microbial Community Structure on Deception Island Volcano, Antarctica.

Bendia AG, Signori CN, Franco DC, Duarte RTD, Bohannan BJM, Pellizari VH.

Front Microbiol. 2018 May 7;9:899. doi: 10.3389/fmicb.2018.00899. eCollection 2018.


Why do microbes exhibit weak biogeographic patterns?

Meyer KM, Memiaghe H, Korte L, Kenfack D, Alonso A, Bohannan BJM.

ISME J. 2018 Jun;12(6):1404-1413. doi: 10.1038/s41396-018-0103-3. Epub 2018 Apr 16.


Market Integration Predicts Human Gut Microbiome Attributes across a Gradient of Economic Development.

Stagaman K, Cepon-Robins TJ, Liebert MA, Gildner TE, Urlacher SS, Madimenos FC, Guillemin K, Snodgrass JJ, Sugiyama LS, Bohannan BJM.

mSystems. 2018 Feb 27;3(1). pii: e00122-17. doi: 10.1128/mSystems.00122-17. eCollection 2018 Jan-Feb.


Interhost dispersal alters microbiome assembly and can overwhelm host innate immunity in an experimental zebrafish model.

Burns AR, Miller E, Agarwal M, Rolig AS, Milligan-Myhre K, Seredick S, Guillemin K, Bohannan BJM.

Proc Natl Acad Sci U S A. 2017 Oct 17;114(42):11181-11186. doi: 10.1073/pnas.1702511114. Epub 2017 Oct 2.


The role of adaptive immunity as an ecological filter on the gut microbiota in zebrafish.

Stagaman K, Burns AR, Guillemin K, Bohannan BJ.

ISME J. 2017 Jul;11(7):1630-1639. doi: 10.1038/ismej.2017.28. Epub 2017 Mar 17.


Conversion of Amazon rainforest to agriculture alters community traits of methane-cycling organisms.

Meyer KM, Klein AM, Rodrigues JL, Nüsslein K, Tringe SG, Mirza BS, Tiedje JM, Bohannan BJ.

Mol Ecol. 2017 Mar;26(6):1547-1556. doi: 10.1111/mec.14011. Epub 2017 Feb 10.


Naturalistic Experimental Designs as Tools for Understanding the Role of Genes and the Environment in Prevention Research.

Leve LD, Neiderhiser JM, Harold GT, Natsuaki MN, Bohannan BJM, Cresko WA.

Prev Sci. 2018 Jan;19(1):68-78. doi: 10.1007/s11121-017-0746-8.


Editorial: The Role of Microbial Communities in Tropical Ecosystems.

Pajares S, Bohannan BJ, Souza V.

Front Microbiol. 2016 Nov 11;7:1805. eCollection 2016. No abstract available.


Ecology of Nitrogen Fixing, Nitrifying, and Denitrifying Microorganisms in Tropical Forest Soils.

Pajares S, Bohannan BJ.

Front Microbiol. 2016 Jul 5;7:1045. doi: 10.3389/fmicb.2016.01045. eCollection 2016. Review.


Molecular Evidence for Metabolically Active Bacteria in the Atmosphere.

Klein AM, Bohannan BJ, Jaffe DA, Levin DA, Green JL.

Front Microbiol. 2016 May 24;7:772. doi: 10.3389/fmicb.2016.00772. eCollection 2016.


Differential Response of Acidobacteria Subgroups to Forest-to-Pasture Conversion and Their Biogeographic Patterns in the Western Brazilian Amazon.

Navarrete AA, Venturini AM, Meyer KM, Klein AM, Tiedje JM, Bohannan BJ, Nüsslein K, Tsai SM, Rodrigues JL.

Front Microbiol. 2015 Dec 22;6:1443. doi: 10.3389/fmicb.2015.01443. eCollection 2015.


Individual Members of the Microbiota Disproportionately Modulate Host Innate Immune Responses.

Rolig AS, Parthasarathy R, Burns AR, Bohannan BJ, Guillemin K.

Cell Host Microbe. 2015 Nov 11;18(5):613-20. doi: 10.1016/j.chom.2015.10.009.


Identification of Population Bottlenecks and Colonization Factors during Assembly of Bacterial Communities within the Zebrafish Intestine.

Stephens WZ, Wiles TJ, Martinez ES, Jemielita M, Burns AR, Parthasarathy R, Bohannan BJ, Guillemin K.

MBio. 2015 Oct 27;6(6):e01163-15. doi: 10.1128/mBio.01163-15.


Ontogenetic Differences in Dietary Fat Influence Microbiota Assembly in the Zebrafish Gut.

Wong S, Stephens WZ, Burns AR, Stagaman K, David LA, Bohannan BJ, Guillemin K, Rawls JF.

MBio. 2015 Sep 29;6(5):e00687-15. doi: 10.1128/mBio.00687-15.


Humans differ in their personal microbial cloud.

Meadow JF, Altrichter AE, Bateman AC, Stenson J, Brown GZ, Green JL, Bohannan BJ.

PeerJ. 2015 Sep 22;3:e1258. doi: 10.7717/peerj.1258. eCollection 2015.


The composition of the zebrafish intestinal microbial community varies across development.

Stephens WZ, Burns AR, Stagaman K, Wong S, Rawls JF, Guillemin K, Bohannan BJ.

ISME J. 2016 Mar;10(3):644-54. doi: 10.1038/ismej.2015.140. Epub 2015 Sep 4.


Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development.

Burns AR, Stephens WZ, Stagaman K, Wong S, Rawls JF, Guillemin K, Bohannan BJ.

ISME J. 2016 Mar;10(3):655-64. doi: 10.1038/ismej.2015.142. Epub 2015 Aug 21.


Forest-to-pasture conversion increases the diversity of the phylum Verrucomicrobia in Amazon rainforest soils.

Ranjan K, Paula FS, Mueller RC, Jesus Eda C, Cenciani K, Bohannan BJ, Nüsslein K, Rodrigues JL.

Front Microbiol. 2015 Jul 30;6:779. doi: 10.3389/fmicb.2015.00779. eCollection 2015.


The Molecular and Genetic Basis of Repeatable Coevolution between Escherichia coli and Bacteriophage T3 in a Laboratory Microcosm.

Perry EB, Barrick JE, Bohannan BJ.

PLoS One. 2015 Jun 26;10(6):e0130639. doi: 10.1371/journal.pone.0130639. eCollection 2015.


The Biogeography of Putative Microbial Antibiotic Production.

Morlon H, O'Connor TK, Bryant JA, Charkoudian LK, Docherty KM, Jones E, Kembel SW, Green JL, Bohannan BJ.

PLoS One. 2015 Jun 23;10(6):e0130659. doi: 10.1371/journal.pone.0130659. eCollection 2015.


Shifts in the phylogenetic structure of arbuscular mycorrhizal fungi in response to experimental nitrogen and carbon dioxide additions.

Mueller RC, Bohannan BJ.

Oecologia. 2015 Sep;179(1):175-85. doi: 10.1007/s00442-015-3337-z. Epub 2015 May 20.


Identifying personal microbiomes using metagenomic codes.

Franzosa EA, Huang K, Meadow JF, Gevers D, Lemon KP, Bohannan BJ, Huttenhower C.

Proc Natl Acad Sci U S A. 2015 Jun 2;112(22):E2930-8. doi: 10.1073/pnas.1423854112. Epub 2015 May 11.


Local domestication of lactic acid bacteria via cassava beer fermentation.

Colehour AM, Meadow JF, Liebert MA, Cepon-Robins TJ, Gildner TE, Urlacher SS, Bohannan BJ, Snodgrass JJ, Sugiyama LS.

PeerJ. 2014 Jul 8;2:e479. doi: 10.7717/peerj.479. eCollection 2014.


Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities.

Paula FS, Rodrigues JL, Zhou J, Wu L, Mueller RC, Mirza BS, Bohannan BJ, Nüsslein K, Deng Y, Tiedje JM, Pellizari VH.

Mol Ecol. 2014 Jun;23(12):2988-99. doi: 10.1111/mec.12786. Epub 2014 Jun 6.


Bacterial communities on classroom surfaces vary with human contact.

Meadow JF, Altrichter AE, Kembel SW, Moriyama M, O'Connor TK, Womack AM, Brown GZ, Green JL, Bohannan BJ.

Microbiome. 2014 Mar 7;2(1):7. doi: 10.1186/2049-2618-2-7.


Architectural design drives the biogeography of indoor bacterial communities.

Kembel SW, Meadow JF, O'Connor TK, Mhuireach G, Northcutt D, Kline J, Moriyama M, Brown GZ, Bohannan BJ, Green JL.

PLoS One. 2014 Jan 29;9(1):e87093. doi: 10.1371/journal.pone.0087093. eCollection 2014.


Links between plant and fungal communities across a deforestation chronosequence in the Amazon rainforest.

Mueller RC, Paula FS, Mirza BS, Rodrigues JL, Nüsslein K, Bohannan BJ.

ISME J. 2014 Jul;8(7):1548-50. doi: 10.1038/ismej.2013.253. Epub 2014 Jan 23. Erratum in: ISME J. 2014 Jul;8(7):1551.


Response of free-living nitrogen-fixing microorganisms to land use change in the Amazon rainforest.

Mirza BS, Potisap C, Nüsslein K, Bohannan BJ, Rodrigues JL.

Appl Environ Microbiol. 2014 Jan;80(1):281-8. doi: 10.1128/AEM.02362-13. Epub 2013 Oct 25.


Indoor airborne bacterial communities are influenced by ventilation, occupancy, and outdoor air source.

Meadow JF, Altrichter AE, Kembel SW, Kline J, Mhuireach G, Moriyama M, Northcutt D, O'Connor TK, Womack AM, Brown GZ, Green JL, Bohannan BJ.

Indoor Air. 2014 Feb;24(1):41-8. doi: 10.1111/ina.12047. Epub 2013 May 24.


Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities.

Rodrigues JL, Pellizari VH, Mueller R, Baek K, Jesus Eda C, Paula FS, Mirza B, Hamaoui GS Jr, Tsai SM, Feigl B, Tiedje JM, Bohannan BJ, Nüsslein K.

Proc Natl Acad Sci U S A. 2013 Jan 15;110(3):988-93. doi: 10.1073/pnas.1220608110. Epub 2012 Dec 27.


The application of ecological theory toward an understanding of the human microbiome.

Costello EK, Stagaman K, Dethlefsen L, Bohannan BJ, Relman DA.

Science. 2012 Jun 8;336(6086):1255-62. doi: 10.1126/science.1224203. Epub 2012 Jun 6. Review.


Architectural design influences the diversity and structure of the built environment microbiome.

Kembel SW, Jones E, Kline J, Northcutt D, Stenson J, Womack AM, Bohannan BJ, Brown GZ, Green JL.

ISME J. 2012 Aug;6(8):1469-79. doi: 10.1038/ismej.2011.211. Epub 2012 Jan 26.


Exploration of community traits as ecological markers in microbial metagenomes.

Barberán A, Fernández-Guerra A, Bohannan BJ, Casamayor EO.

Mol Ecol. 2012 Apr;21(8):1909-17. doi: 10.1111/j.1365-294X.2011.05383.x. Epub 2011 Nov 28.


Spatial patterns of phylogenetic diversity.

Morlon H, Schwilk DW, Bryant JA, Marquet PA, Rebelo AG, Tauss C, Bohannan BJ, Green JL.

Ecol Lett. 2011 Feb;14(2):141-9. doi: 10.1111/j.1461-0248.2010.01563.x. Epub 2010 Dec 20.


Biodiversity and biogeography of the atmosphere.

Womack AM, Bohannan BJ, Green JL.

Philos Trans R Soc Lond B Biol Sci. 2010 Nov 27;365(1558):3645-53. doi: 10.1098/rstb.2010.0283. Review.


From structure to function: the ecology of host-associated microbial communities.

Robinson CJ, Bohannan BJ, Young VB.

Microbiol Mol Biol Rev. 2010 Sep;74(3):453-76. doi: 10.1128/MMBR.00014-10. Review.


Relationship between cystic fibrosis respiratory tract bacterial communities and age, genotype, antibiotics and Pseudomonas aeruginosa.

Klepac-Ceraj V, Lemon KP, Martin TR, Allgaier M, Kembel SW, Knapp AA, Lory S, Brodie EL, Lynch SV, Bohannan BJ, Green JL, Maurer BA, Kolter R.

Environ Microbiol. 2010 May;12(5):1293-303. doi: 10.1111/j.1462-2920.2010.02173.x. Epub 2010 Feb 23.


The shape of an ecological trade-off varies with environment.

Jessup CM, Bohannan BJ.

Ecol Lett. 2008 Sep;11(9):947-59. doi: 10.1111/j.1461-0248.2008.01205.x. Epub 2008 Jun 13.


Microbial biogeography: from taxonomy to traits.

Green JL, Bohannan BJ, Whitaker RJ.

Science. 2008 May 23;320(5879):1039-43. doi: 10.1126/science.1153475. Review.


Coevolution drives temporal changes in fitness and diversity across environments in a bacteria-bacteriophage interaction.

Forde SE, Thompson JN, Holt RD, Bohannan BJ.

Evolution. 2008 Aug;62(8):1830-9. doi: 10.1111/j.1558-5646.2008.00411.x. Epub 2008 Apr 29.


Cryptic population dynamics: rapid evolution masks trophic interactions.

Yoshida T, Ellner SP, Jones LE, Bohannan BJ, Lenski RE, Hairston NG Jr.

PLoS Biol. 2007 Sep;5(9):e235.


A comparison of taxon co-occurrence patterns for macro- and microorganisms.

Horner-Devine MC, Silver JM, Leibold MA, Bohannan BJ, Colwell RK, Fuhrman JA, Green JL, Kuske CR, Martiny JB, Muyzer G, Ovreås L, Reysenbach AL, Smith VH.

Ecology. 2007 Jun;88(6):1345-53.


Gene flow reverses an adaptive cline in a coevolving host-parasitoid interaction.

Forde SE, Thompson JN, Bohannan BJ.

Am Nat. 2007 Jun;169(6):794-801. Epub 2007 Apr 4.


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