Ashley Shade, Ph.D. - Publications

2010 University of Wisconsin, Madison, Madison, WI 
Microbiology Biology, Ecology Biology, Limnology Biology

36 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Thompson LR, Sanders JG, McDonald D, Amir A, Ladau J, Locey KJ, Prill RJ, Tripathi A, Gibbons SM, Ackermann G, Navas-Molina JA, Janssen S, Kopylova E, Vázquez-Baeza Y, González A, ... ... Shade A, et al. A communal catalogue reveals Earth's multiscale microbial diversity. Nature. PMID 29088705 DOI: 10.1038/Nature24621  0.48
2017 Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD. Erratum for Linz et al., "Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes". Msphere. 2. PMID 28744483 DOI: 10.1128/mSphere.00296-17  0.88
2017 Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD. Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes. Msphere. 2. PMID 28680968 DOI: 10.1128/mSphere.00169-17  0.88
2016 Zhang K, Shi Y, Jing X, He JS, Sun R, Yang Y, Shade A, Chu H. Effects of Short-Term Warming and Altered Precipitation on Soil Microbial Communities in Alpine Grassland of the Tibetan Plateau. Frontiers in Microbiology. 7: 1032. PMID 27446064 DOI: 10.3389/Fmicb.2016.01032  0.88
2016 Bendall ML, Stevens SL, Chan LK, Malfatti S, Schwientek P, Tremblay J, Schackwitz W, Martin J, Pati A, Bushnell B, Froula J, Kang D, Tringe SG, Bertilsson S, Moran MA, ... Shade A, et al. Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations. The Isme Journal. PMID 26744812 DOI: 10.1038/Ismej.2015.241  0.88
2015 Shade A, Teal TK. Computing Workflows for Biologists: A Roadmap. Plos Biology. 13: e1002303. PMID 26600012 DOI: 10.1371/Journal.Pbio.1002303  0.88
2015 Shade A, Gilbert JA. Temporal patterns of rarity provide a more complete view of microbial diversity. Trends in Microbiology. 23: 335-40. PMID 25667105 DOI: 10.1016/J.Tim.2015.01.007  0.32
2015 Shade A, Gilbert JA. Temporal patterns of rarity provide a more complete view of microbial diversity Trends in Microbiology. 23: 335-340. DOI: 10.1016/j.tim.2015.01.007  0.88
2014 Nemergut DR, Shade A, Violle C. When, where and how does microbial community composition matter? Frontiers in Microbiology. 5: 497. PMID 25309525 DOI: 10.3389/Fmicb.2014.00497  0.88
2014 Shade A, Jones SE, Caporaso JG, Handelsman J, Knight R, Fierer N, Gilbert JA. Conditionally rare taxa disproportionately contribute to temporal changes in microbial diversity. Mbio. 5: e01371-14. PMID 25028427 DOI: 10.1128/Mbio.01371-14  0.88
2014 Aleklett K, Hart M, Shade A. The microbial ecology of flowers: An emerging frontier in phyllosphere research1 Botany. 92: 253-266. DOI: 10.1139/Cjb-2013-0166  0.88
2013 de Vries FT, Shade A. Controls on soil microbial community stability under climate change. Frontiers in Microbiology. 4: 265. PMID 24032030 DOI: 10.3389/Fmicb.2013.00265  0.88
2013 Shade A, Klimowicz AK, Spear RN, Linske M, Donato JJ, Hogan CS, McManus PS, Handelsman J. Streptomycin application has no detectable effect on bacterial community structure in apple orchard soil. Applied and Environmental Microbiology. 79: 6617-25. PMID 23974143 DOI: 10.1128/Aem.02017-13  0.88
2013 Shade A, Caporaso JG, Handelsman J, Knight R, Fierer N. A meta-analysis of changes in bacterial and archaeal communities with time. The Isme Journal. 7: 1493-506. PMID 23575374 DOI: 10.1038/Ismej.2013.54  0.88
2013 Shade A, McManus PS, Handelsman J. Unexpected diversity during community succession in the apple flower microbiome. Mbio. 4. PMID 23443006 DOI: 10.1128/Mbio.00602-12  0.88
2013 Youngblut ND, Shade A, Read JS, McMahon KD, Whitaker RJ. Lineage-specific responses of microbial communities to environmental change. Applied and Environmental Microbiology. 79: 39-47. PMID 23064335 DOI: 10.1128/Aem.02226-12  0.88
2013 Bertilsson S, Burgin A, Carey CC, Fey SB, Grossart HP, Grubisic LM, Jones ID, Kirillin G, Lennon JT, Shade A, Smyth RL. The under-ice microbiome of seasonally frozen lakes Limnology and Oceanography. 58: 1998-2012. DOI: 10.4319/Lo.2013.58.6.1998  0.88
2012 Shade A, Peter H, Allison SD, Baho DL, Berga M, Bürgmann H, Huber DH, Langenheder S, Lennon JT, Martiny JB, Matulich KL, Schmidt TM, Handelsman J. Fundamentals of microbial community resistance and resilience. Frontiers in Microbiology. 3: 417. PMID 23267351 DOI: 10.3389/Fmicb.2012.00417  0.88
2012 Shade A, Hogan CS, Klimowicz AK, Linske M, McManus PS, Handelsman J. Culturing captures members of the soil rare biosphere. Environmental Microbiology. 14: 2247-52. PMID 22788977 DOI: 10.1111/J.1462-2920.2012.02817.X  0.88
2012 Shade A, Read JS, Youngblut ND, Fierer N, Knight R, Kratz TK, Lottig NR, Roden EE, Stanley EH, Stombaugh J, Whitaker RJ, Wu CH, McMahon KD. Lake microbial communities are resilient after a whole-ecosystem disturbance. The Isme Journal. 6: 2153-67. PMID 22739495 DOI: 10.1038/Ismej.2012.56  0.88
2012 Gonzalez A, King A, Robeson MS, Song S, Shade A, Metcalf JL, Knight R. Characterizing microbial communities through space and time. Current Opinion in Biotechnology. 23: 431-6. PMID 22154467 DOI: 10.1016/J.Copbio.2011.11.017  0.88
2012 Shade A, Handelsman J. Beyond the Venn diagram: the hunt for a core microbiome. Environmental Microbiology. 14: 4-12. PMID 22004523 DOI: 10.1111/J.1462-2920.2011.02585.X  0.88
2011 Shade A, Read JS, Welkie DG, Kratz TK, Wu CH, McMahon KD. Resistance, resilience and recovery: aquatic bacterial dynamics after water column disturbance. Environmental Microbiology. 13: 2752-67. PMID 21883795 DOI: 10.1111/J.1462-2920.2011.02546.X  0.88
2011 Gonzalez A, Clemente JC, Shade A, Metcalf JL, Song S, Prithiviraj B, Palmer BE, Knight R. Our microbial selves: what ecology can teach us. Embo Reports. 12: 775-84. PMID 21720391 DOI: 10.1038/Embor.2011.137  0.88
2011 Read JS, Shade A, Wu CH, Gorzalski A, McMahon KD. "Gradual entrainment lake inverter" (GELI): A novel device for experimental lake mixing Limnology and Oceanography: Methods. 9: 14-28. DOI: 10.4319/Lom.2011.9.14  0.88
2010 Gilbert JA, Meyer F, Antonopoulos D, Balaji P, Brown CT, Brown CT, Desai N, Eisen JA, Evers D, Field D, Feng W, Huson D, Jansson J, Knight R, Knight J, ... ... Shade A, et al. Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project. Standards in Genomic Sciences. 3: 243-8. PMID 21304727 DOI: 10.4056/Sigs.1433550  0.88
2010 Shade A, Chiu CY, McMahon KD. Differential bacterial dynamics promote emergent community robustness to lake mixing: an epilimnion to hypolimnion transplant experiment. Environmental Microbiology. 12: 455-66. PMID 19878266 DOI: 10.1111/J.1462-2920.2009.02087.X  0.88
2010 Shade A, Chiu CY, McMahon KD. Seasonal and episodic lake mixing stimulate differential planktonic bacterial dynamics. Microbial Ecology. 59: 546-54. PMID 19760448 DOI: 10.1007/S00248-009-9589-6  0.88
2009 Shade A, Carey CC, Kara E, Bertilsson S, McMahon KD, Smith MC. Can the black box be cracked? The augmentation of microbial ecology by high-resolution, automated sensing technologies. The Isme Journal. 3: 881-8. PMID 19458653 DOI: 10.1038/Ismej.2009.56  0.88
2009 Kara E, Shade A. Temporal dynamics of South End tidal creek (Sapelo Island, Georgia) bacterial communities. Applied and Environmental Microbiology. 75: 1058-64. PMID 19114517 DOI: 10.1128/Aem.01725-08  0.88
2008 Shade A, Jones SE, McMahon KD. The influence of habitat heterogeneity on freshwater bacterial community composition and dynamics. Environmental Microbiology. 10: 1057-67. PMID 18218031 DOI: 10.1111/J.1462-2920.2007.01527.X  0.88
2008 Jones SE, Chiu CY, Kratz TK, Wu JT, Shade A, McMahon KD. Typhoons initiate predictable change in aquatic bacterial communities Limnology and Oceanography. 53: 1319-1326.  0.88
2007 Jones SE, Shade AL, McMahon KD, Kent AD. Comparison of primer sets for use in automated ribosomal intergenic spacer analysis of aquatic bacterial communities: an ecological perspective. Applied and Environmental Microbiology. 73: 659-62. PMID 17122397 DOI: 10.1128/Aem.02130-06  0.88
2007 Shade A, Kent AD, Jones SE, Newton RJ, Triplett EW, McMahon KD. Interannual dynamics and phenology of bacterial communities in a eutrophic lake Limnology and Oceanography. 52: 487-494. DOI: 10.4319/Lo.2007.52.2.0487  0.88
2006 Balser TC, McMahon KD, Bart D, Bronson D, Coyle DR, Craig N, Flores-Mangual ML, Forshay K, Jones SE, Kent AE, Shade AL. Bridging the gap between micro - and macro-scale perspectives on the role of microbial communities in global change ecology Plant and Soil. 289: 59-70. DOI: 10.1007/S11104-006-9104-5  0.88
2005 Tobin-Janzen T, Shade A, Marshall L, Torres K, Beblo C, Janzen C, Lenig J, Mártinez A, Ressler D. Nitrogen changes and domain bacteria ribotype diversity in soils overlying the Centralia, Pennsylvania underground coal mine fire Soil Science. 170: 191-201. DOI: 10.1097/01.Ss.0000160384.45625.B8  0.88
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