| Year |
Citation |
Score |
| 2024 |
Jurburg SD, Blowes SA, Shade A, Eisenhauer N, Chase JM. Synthesis of recovery patterns in microbial communities across environments. Microbiome. 12: 79. PMID 38711157 DOI: 10.1186/s40168-024-01802-3 |
0.43 |
|
| 2024 |
Stehling EG, Rueda Furlan JP, Lopes R, Chodkowski J, Stopnisek N, Savazzi EA, Shade A. The relationship between water quality and the microbial virulome and resistome in urban streams in Brazil. Environmental Pollution (Barking, Essex : 1987). 123849. PMID 38522607 DOI: 10.1016/j.envpol.2024.123849 |
0.754 |
|
| 2024 |
Chodkowski JL, Shade A. Bioactive exometabolites drive maintenance competition in simple bacterial communities. Msystems. e0006424. PMID 38470039 DOI: 10.1128/msystems.00064-24 |
0.364 |
|
| 2024 |
Barnett SE, Shade A. Arrive and wait: Inactive bacterial taxa contribute to perceived soil microbiome resilience after a multidecadal press disturbance. Ecology Letters. 27: e14393. PMID 38430049 DOI: 10.1111/ele.14393 |
0.419 |
|
| 2023 |
Chou MY, Andersen TB, Mechan Llontop ME, Beculheimer N, Sow A, Moreno N, Shade A, Hamberger B, Bonito G. Terpenes modulate bacterial and fungal growth and sorghum rhizobiome communities. Microbiology Spectrum. 11: e0133223. PMID 37772854 DOI: 10.1128/spectrum.01332-23 |
0.354 |
|
| 2023 |
Howe A, Stopnisek N, Dooley SK, Yang F, Grady KL, Shade A. Seasonal activities of the phyllosphere microbiome of perennial crops. Nature Communications. 14: 1039. PMID 36823152 DOI: 10.1038/s41467-023-36515-y |
0.745 |
|
| 2023 |
Shade A. Microbiome rescue: directing resilience of environmental microbial communities. Current Opinion in Microbiology. 72: 102263. PMID 36657335 DOI: 10.1016/j.mib.2022.102263 |
0.393 |
|
| 2022 |
Shaffer JP, Nothias LF, Thompson LR, Sanders JG, Salido RA, Couvillion SP, Brejnrod AD, Lejzerowicz F, Haiminen N, Huang S, Lutz HL, Zhu Q, Martino C, Morton JT, Karthikeyan S, ... ... Shade A, et al. Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity. Nature Microbiology. PMID 36443458 DOI: 10.1038/s41564-022-01266-x |
0.457 |
|
| 2022 |
Colovas J, Bintarti AF, Mechan Llontop ME, Grady KL, Shade A. Do-it-Yourself Mock Community Standard for Multi-Step Assessment of Microbiome Protocols. Current Protocols. 2: e533. PMID 36066286 DOI: 10.1002/cpz1.533 |
0.389 |
|
| 2021 |
Stopnisek N, Shade A. Persistent microbiome members in the common bean rhizosphere: an integrated analysis of space, time, and plant genotype. The Isme Journal. PMID 33772106 DOI: 10.1038/s41396-021-00955-5 |
0.748 |
|
| 2020 |
Chesneau G, Torres-Cortes G, Briand M, Darrasse A, Preveaux A, Marais C, Jacques MA, Shade A, Barret M. Temporal dynamics of bacterial communities during seed development and maturation. Fems Microbiology Ecology. PMID 32966572 DOI: 10.1093/femsec/fiaa190 |
0.324 |
|
| 2020 |
Sorensen JW, Shade A. Dormancy dynamics and dispersal contribute to soil microbiome resilience. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 375: 20190255. PMID 32200738 DOI: 10.1098/Rstb.2019.0255 |
0.523 |
|
| 2020 |
Bowsher AW, Kearns PJ, Popovic D, Lowry DB, Shade A. Locally Adapted Mimulus Ecotypes Differentially Impact Rhizosphere Bacterial and Archaeal Communities in an Environment-Dependent Manner Phytobiomes Journal. 4: 53-63. DOI: 10.1094/pbiomes-05-19-0026-r |
0.436 |
|
| 2019 |
Shade A, Stopnisek N. Abundance-occupancy distributions to prioritize plant core microbiome membership. Current Opinion in Microbiology. 49: 50-58. PMID 31715441 DOI: 10.1016/J.Mib.2019.09.008 |
0.755 |
|
| 2019 |
Grady KL, Sorensen JW, Stopnisek N, Guittar J, Shade A. Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops. Nature Communications. 10: 4135. PMID 31515535 DOI: 10.1038/S41467-019-11974-4 |
0.754 |
|
| 2019 |
Dunivin TK, Yeh SY, Shade A. A global survey of arsenic-related genes in soil microbiomes. Bmc Biology. 17: 45. PMID 31146755 DOI: 10.1186/S12915-019-0661-5 |
0.377 |
|
| 2019 |
Bowsher AW, Kearns PJ, Shade A. 16S rRNA/rRNA Gene Ratios and Cell Activity Staining Reveal Consistent Patterns of Microbial Activity in Plant-Associated Soil. Msystems. 4. PMID 30944883 DOI: 10.1128/mSystems.00003-19 |
0.314 |
|
| 2019 |
Guittar J, Shade A, Litchman E. Trait-based community assembly and succession of the infant gut microbiome. Nature Communications. 10: 512. PMID 30710083 DOI: 10.1038/S41467-019-08377-W |
0.416 |
|
| 2019 |
Dunivin TK, Shade A. Community structure explains antibiotic resistance gene dynamics over a temperature gradient in soil. Fems Microbiology Ecology. 94. PMID 29401285 DOI: 10.1093/Femsec/Fiy016 |
0.4 |
|
| 2019 |
Bell TH, Hockett KL, Alcalá-Briseño RI, Barbercheck M, Beattie GA, Bruns MA, Carlson JE, Chung T, Collins A, Emmett B, Esker P, Garrett KA, Glenna L, Gugino BK, Jiménez-Gasco MdM, ... ... Shade A, et al. Manipulating Wild and Tamed Phytobiomes: Challenges and Opportunities Phytobiomes Journal. 3: 3-21. DOI: 10.1094/PBIOMES-01-19-0006-W |
0.701 |
|
| 2018 |
Sorensen JW, Dunivin TK, Tobin TC, Shade A. Ecological selection for small microbial genomes along a temperate-to-thermal soil gradient. Nature Microbiology. PMID 30397342 DOI: 10.1038/S41564-018-0276-6 |
0.387 |
|
| 2018 |
Shade A, Dunn RR, Blowes SA, Keil P, Bohannan BJM, Herrmann M, Küsel K, Lennon JT, Sanders NJ, Storch D, Chase J. Macroecology to Unite All Life, Large and Small. Trends in Ecology & Evolution. PMID 30209011 DOI: 10.1016/J.Tree.2018.08.005 |
0.351 |
|
| 2018 |
Kearns PJ, Shade A. Trait-based patterns of microbial dynamics in dormancy potential and heterotrophic strategy: case studies of resource-based and post-press succession. The Isme Journal. PMID 29959406 DOI: 10.1038/S41396-018-0194-X |
0.515 |
|
| 2018 |
Tobin TC, Shade A. A town on fire! Integrating 16S rRNA gene amplicon analyses into an undergraduate microbiology lecture class. Fems Microbiology Letters. PMID 29688343 DOI: 10.1093/Femsle/Fny104 |
0.399 |
|
| 2017 |
Chodkowski JL, Shade A. A Synthetic Community System for Probing Microbial Interactions Driven by Exometabolites. Msystems. 2. PMID 29152587 DOI: 10.1128/mSystems.00129-17 |
0.439 |
|
| 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 |
0.461 |
|
| 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 |
0.768 |
|
| 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 |
0.817 |
|
| 2017 |
Shade A, Jacques MA, Barret M. Ecological patterns of seed microbiome diversity, transmission, and assembly. Current Opinion in Microbiology. 37: 15-22. PMID 28437661 DOI: 10.1016/J.Mib.2017.03.010 |
0.334 |
|
| 2017 |
Zhang K, Shi Y, Jing X, He JS, Sun R, Yang Y, Shade A, Chu H. Corrigendum: Effects of Short-Term Warming and Altered Precipitation on Soil Microbial Communities in Alpine Grassland of the Tibetan Plateau. Frontiers in Microbiology. 8: 667. PMID 28428783 DOI: 10.3389/Fmicb.2017.00667 |
0.403 |
|
| 2017 |
Lee SH, Sorensen JW, Grady KL, Tobin TC, Shade A. Divergent extremes but convergent recovery of bacterial and archaeal soil communities to an ongoing subterranean coal mine fire. The Isme Journal. PMID 28282042 DOI: 10.1038/Ismej.2017.1 |
0.487 |
|
| 2017 |
Rezki S, Campion C, Simoneau P, Jacques M, Shade A, Barret M. Assembly of seed-associated microbial communities within and across successive plant generations Plant and Soil. 422: 67-79. DOI: 10.1007/S11104-017-3451-2 |
0.484 |
|
| 2016 |
Shade A. Diversity is the question, not the answer. The Isme Journal. PMID 27636395 DOI: 10.1038/Ismej.2016.118 |
0.523 |
|
| 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 |
0.494 |
|
| 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 |
0.738 |
|
| 2016 |
Newton R, Shade A. Lifestyles of rarity: understanding heterotrophic strategies to inform the ecology of the microbial rare biosphere Aquatic Microbial Ecology. 78: 51-63. DOI: 10.3354/Ame01801 |
0.583 |
|
| 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 |
0.541 |
|
| 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 |
0.503 |
|
| 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 |
0.699 |
|
| 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 |
0.518 |
|
| 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 |
0.522 |
|
| 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 |
0.47 |
|
| 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 |
0.577 |
|
| 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 |
0.56 |
|
| 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 |
0.71 |
|
| 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 |
0.353 |
|
| 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 |
0.531 |
|
| 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 |
0.47 |
|
| 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 |
0.715 |
|
| 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 |
0.468 |
|
| 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 |
0.444 |
|
| 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 |
0.693 |
|
| 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 |
0.482 |
|
| 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 |
0.547 |
|
| 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 |
0.339 |
|
| 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 |
0.699 |
|
| 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 |
0.724 |
|
| 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 |
0.749 |
|
| 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 |
0.792 |
|
| 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 |
0.774 |
|
| 2008 |
Jones SE, Chiu C, Kratz TK, Wu J, Shade A, McMahon KD. Typhoons initiate predictable change in aquatic bacterial communities Limnology and Oceanography. 53: 1319-1326. DOI: 10.4319/Lo.2008.53.4.1319 |
0.767 |
|
| 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. |
0.688 |
|
| 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 |
0.725 |
|
| 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 |
0.797 |
|
| 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 |
0.71 |
|
| 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 |
0.354 |
|
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