| # | Title | Journal | Year | Citations |
|---|
| 1 | QIIME allows analysis of high-throughput community sequencing data | Nature Methods | 2010 | 31,818 |
| 2 | Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample | Proceedings of the National Academy of Sciences of the United States of America | 2011 | 7,425 |
| 3 | Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns | Proceedings of the National Academy of Sciences of the United States of America | 2010 | 3,738 |
| 4 | TOWARD AN ECOLOGICAL CLASSIFICATION OF SOIL BACTERIA | Ecology | 2007 | 3,728 |
| 5 | Habitat fragmentation and its lasting impact on Earth’s ecosystems | Science Advances | 2015 | 2,541 |
| 6 | Embracing the unknown: disentangling the complexities of the soil microbiome | Nature Reviews Microbiology | 2017 | 2,087 |
| 7 | A communal catalogue reveals Earth’s multiscale microbial diversity | Nature | 2017 | 1,942 |
| 8 | Navigating the multiple meanings of β diversity: a roadmap for the practicing ecologist | Ecology Letters | 2011 | 1,899 |
| 9 | Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients | ISME Journal | 2012 | 1,405 |
| 10 | Cross-biome metagenomic analyses of soil microbial communities and their functional attributes | Proceedings of the National Academy of Sciences of the United States of America | 2012 | 1,260 |
| 11 | The minimum information about a genome sequence (MIGS) specification | Nature Biotechnology | 2008 | 1,069 |
| 12 | Environmental and stoichiometric controls on microbial carbon‐use efficiency in soils | New Phytologist | 2012 | 1,046 |
| 13 | Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe | Proceedings of the National Academy of Sciences of the United States of America | 2015 | 1,023 |
| 14 | A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses | ISME Journal | 2009 | 984 |
| 15 | The influence of sex, handedness, and washing on the diversity of hand surface bacteria | Proceedings of the National Academy of Sciences of the United States of America | 2008 | 980 |
| 16 | Global patterns in belowground communities | Ecology Letters | 2009 | 957 |
| 17 | Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes | Global Change Biology | 2012 | 936 |
| 18 | Cohabiting family members share microbiota with one another and with their dogs | ELife | 2013 | 801 |
| 19 | MICROBIAL NITROGEN LIMITATION INCREASES DECOMPOSITION | Ecology | 2007 | 765 |
| 20 | Photoprotection in an ecological context: the remarkable complexity of thermal energy dissipation | New Phytologist | 2006 | 724 |
| 21 | A temporal approach to linking aboveground and belowground ecology | Trends in Ecology and Evolution | 2005 | 706 |
| 22 | Herbivores and nutrients control grassland plant diversity via light limitation | Nature | 2014 | 669 |
| 23 | Testing the functional significance of microbial community composition | Ecology | 2009 | 635 |
| 24 | Disentangling the Drivers of β Diversity Along Latitudinal and Elevational Gradients | Science | 2011 | 617 |
| 25 | Digging deeper to find unique microbial communities: The strong effect of depth on the structure of bacterial and archaeal communities in soil | Soil Biology and Biochemistry | 2012 | 614 |
| 26 | Plant diversity predicts beta but not alpha diversity of soil microbes across grasslands worldwide | Ecology Letters | 2015 | 612 |
| 27 | Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications | Nature Biotechnology | 2011 | 608 |
| 28 | Seasonal Dynamics of Previously Unknown Fungal Lineages in Tundra Soils | Science | 2003 | 586 |
| 29 | The ecology of the phyllosphere: geographic and phylogenetic variability in the distribution of bacteria on tree leaves | Environmental Microbiology | 2010 | 574 |
| 30 | A guide to phylogenetic metrics for conservation, community ecology and macroecology | Biological Reviews | 2017 | 570 |
| 31 | Integrative modelling reveals mechanisms linking productivity and plant species richness | Nature | 2016 | 564 |
| 32 | Advancing Our Understanding of the Human Microbiome Using QIIME | Methods in Enzymology | 2013 | 553 |
| 33 | Observed increase in local cooling effect of deforestation at higher latitudes | Nature | 2011 | 543 |
| 34 | Forensic identification using skin bacterial communities | Proceedings of the National Academy of Sciences of the United States of America | 2010 | 507 |
| 35 | Managing uncertainty in soil carbon feedbacks to climate change | Nature Climate Change | 2016 | 491 |
| 36 | Metagenomic and Small-Subunit rRNA Analyses Reveal the Genetic Diversity of Bacteria, Archaea, Fungi, and Viruses in Soil | Applied and Environmental Microbiology | 2007 | 480 |
| 37 | Reconstructing the Microbial Diversity and Function of Pre-Agricultural Tallgrass Prairie Soils in the United States | Science | 2013 | 480 |
| 38 | Functional Ecology of Free-Living Nitrogen Fixation: A Contemporary Perspective | Annual Review of Ecology, Evolution, and Systematics | 2011 | 479 |
| 39 | Consistent effects of nitrogen fertilization on soil bacterial communities in contrasting systems | Ecology | 2010 | 475 |
| 40 | Winter forest soil respiration controlled by climate and microbial community composition | Nature | 2006 | 468 |
| 41 | Productivity Is a Poor Predictor of Plant Species Richness | Science | 2011 | 463 |
| 42 | Plant functional trait change across a warming tundra biome | Nature | 2018 | 451 |
| 43 | Locating Pleistocene Refugia: Comparing Phylogeographic and Ecological Niche Model Predictions | PLoS ONE | 2007 | 444 |
| 44 | Extinction risk depends strongly on factors contributing to stochasticity | Nature | 2008 | 443 |
| 45 | Shifts in bacterial community structure associated with inputs of low molecular weight carbon compounds to soil | Soil Biology and Biochemistry | 2010 | 436 |
| 46 | Rationale for Control of Anthropogenic Nitrogen and Phosphorus to Reduce Eutrophication of Inland Waters | Environmental Science & Technology | 2011 | 429 |
| 47 | Eutrophication weakens stabilizing effects of diversity in natural grasslands | Nature | 2014 | 409 |
| 48 | Grassland productivity limited by multiple nutrients | Nature Plants | 2015 | 403 |
| 49 | Spatial variability in airborne bacterial communities across land-use types and their relationship to the bacterial communities of potential source environments | ISME Journal | 2011 | 385 |
| 50 | Vertebrate pigmentation: from underlying genes to adaptive function | Trends in Genetics | 2010 | 383 |
