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<front>
<journal-meta>
<journal-id journal-id-type="publisher-id">Front. Ecol. Evol.</journal-id>
<journal-title>Frontiers in Ecology and Evolution</journal-title>
<abbrev-journal-title abbrev-type="pubmed">Front. Ecol. Evol.</abbrev-journal-title>
<issn pub-type="epub">2296-701X</issn>
<publisher>
<publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="doi">10.3389/fevo.2019.00359</article-id>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Ecology and Evolution</subject>
<subj-group>
<subject>Perspective</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group>
<article-title>The Roles of Invertebrates in the Urban Soil Microbiome</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name><surname>Bray</surname> <given-names>Natalie</given-names></name>
<uri xlink:href="http://loop.frontiersin.org/people/607549/overview"/>
</contrib>
<contrib contrib-type="author" corresp="yes">
<name><surname>Wickings</surname> <given-names>Kyle</given-names></name>
<xref ref-type="corresp" rid="c001"><sup>&#x0002A;</sup></xref>
<uri xlink:href="http://loop.frontiersin.org/people/499373/overview"/>
</contrib>
</contrib-group>
<aff><institution>Department of Entomology, Cornell Agritech, Cornell University</institution>, <addr-line>Geneva, NY</addr-line>, <country>United States</country></aff>
<author-notes>
<fn fn-type="edited-by"><p>Edited by: Peter Groffman, The Graduate Center, City University of New York, United States</p></fn>
<fn fn-type="edited-by"><p>Reviewed by: Loren B. Byrne, Roger Williams University, United States; Katalin Szlavecz, Johns Hopkins University, United States</p></fn>
<corresp id="c001">&#x0002A;Correspondence: Kyle Wickings <email>kgw37&#x00040;cornell.edu</email></corresp>
<fn fn-type="other" id="fn001"><p>This article was submitted to Urban Ecology, a section of the journal Frontiers in Ecology and Evolution</p></fn></author-notes>
<pub-date pub-type="epub">
<day>25</day>
<month>09</month>
<year>2019</year>
</pub-date>
<pub-date pub-type="collection">
<year>2019</year>
</pub-date>
<volume>7</volume>
<elocation-id>359</elocation-id>
<history>
<date date-type="received">
<day>05</day>
<month>02</month>
<year>2019</year>
</date>
<date date-type="accepted">
<day>09</day>
<month>09</month>
<year>2019</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright &#x000A9; 2019 Bray and Wickings.</copyright-statement>
<copyright-year>2019</copyright-year>
<copyright-holder>Bray and Wickings</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</p></license>
</permissions>
<abstract><p>Urban soils differ from those in other managed ecosystems in many ways, including their heterogeneity, unique organic matter inputs and exposure to past and present anthropogenic activities. Soil processes in urban systems are influenced by the microbiome, specifically bacterial and fungal communities that are currently recognized as the primary drivers of soil organic matter dynamics. However, our understanding of biotic controls on microbial communities is incomplete, particularly in regard to the roles of invertebrates. We aim to highlight how invertebrates and their interactions with microbial communities may shape ecosystem processes in urban systems. We discuss three primary pathways through which invertebrates are known to influence the soil microbiome: dispersal of microorganisms throughout soils, grazing on microbial biomass, and mixing of organic inputs within soils and subsequently altering microbial resource accessibility. These invertebrate-mediated pathways may be particularly important because of their influence on soil microbiomes of urban systems. We also propose future research directions aimed at quantifying the influence of invertebrates on soil microbial processes to gain a more comprehensive understanding of urban microbiome function. Understanding the impact of invertebrates on the microbiome of urban systems can potentially lead to better management of microbiomes and enhance microbe-driven ecosystem services.</p></abstract>
<kwd-group>
<kwd>urban</kwd>
<kwd>soil</kwd>
<kwd>invertebrates</kwd>
<kwd>microbial communities</kwd>
<kwd>soil microbiome</kwd>
</kwd-group>
<counts>
<fig-count count="1"/>
<table-count count="1"/>
<equation-count count="0"/>
<ref-count count="101"/>
<page-count count="9"/>
<word-count count="6709"/>
</counts>
</article-meta> 
</front>
<body>
<sec id="s1">
<title>The Urban Soil Microbiome</title>
<p>Urban soils are typically defined first by the simple fact that they occur in urban areas. Beyond that, soils within urban areas are highly heterogeneous in their physical structure, chemical composition, temperature and moisture regimes, and land use among other characteristics (Lehmann and Stahr, <xref ref-type="bibr" rid="B48">2007</xref>). Thus, urban soils can be defined in different ways and these definitions take into account the diverse impacts of human activities including physical disturbance and redistribution of the soil matrix, and chemical modification of soil by contaminants and other inputs (e.g., Lehmann and Stahr, <xref ref-type="bibr" rid="B48">2007</xref>; Pouyat et al., <xref ref-type="bibr" rid="B67">2009</xref>; Food Agriculture Organization of the United Nations, <xref ref-type="bibr" rid="B25">2015</xref>; Morel et al., <xref ref-type="bibr" rid="B57">2015</xref>). Despite the challenges this variability creates in defining an urban soil, urban soils are an important natural resource within urban ecosystems, supporting a wide variety of biotic communities and many ecosystem services (McIntyre, <xref ref-type="bibr" rid="B55">2000</xref>; Tratalos et al., <xref ref-type="bibr" rid="B89">2007</xref>; Gardiner et al., <xref ref-type="bibr" rid="B31">2014</xref>; Ramirez et al., <xref ref-type="bibr" rid="B72">2014</xref>; Set&#x000E4;l&#x000E4; et al., <xref ref-type="bibr" rid="B82">2014</xref>; Morel et al., <xref ref-type="bibr" rid="B57">2015</xref>; Ossola et al., <xref ref-type="bibr" rid="B62">2016</xref>; Herrmann et al., <xref ref-type="bibr" rid="B38">2017</xref>; Pavao-Zuckerman and Pouyat, <xref ref-type="bibr" rid="B63">2017</xref>; Anne et al., <xref ref-type="bibr" rid="B3">2018</xref>; da Silva et al., <xref ref-type="bibr" rid="B20">2018</xref>; Szlavecz et al., <xref ref-type="bibr" rid="B87">2018</xref>).</p>
<p>As in other ecosystems, belowground processes in urban soils are heavily influenced by the communities of bacteria, fungi, and other microorganisms (i.e., the soil microbiome, Fierer, <xref ref-type="bibr" rid="B22">2017</xref>) inhabiting them. These processes and ecosystem services include the breakdown and mineralization of nutrients, the formation of soil organic matter, and carbon sequestration (Van Der Heijden et al., <xref ref-type="bibr" rid="B92">2008</xref>; Bradford et al., <xref ref-type="bibr" rid="B8">2013</xref>; Cotrufo et al., <xref ref-type="bibr" rid="B15">2013</xref>; Kallenbach et al., <xref ref-type="bibr" rid="B45">2015</xref>, <xref ref-type="bibr" rid="B44">2016</xref>). Such ecosystem services in urban soils are also critical for aboveground services of importance to human quality of life within cities, such as the maintenance of urban greenspaces. For example, soils in New York and Los Angeles, the United States&#x00027; first and second largest cities by population, support roughly of one quarter and one third greenspace (parks and gardens), respectively (New York City Department of Planning, <xref ref-type="bibr" rid="B59">2010</xref>; Los Angeles Department of Parks Recreation, <xref ref-type="bibr" rid="B52">2016</xref>). Additionally, cities along the U.S. Rustbelt have tens to hundreds of square kilometers of vacant lots that contain soils that support other ecosystem services such as habitat and resources for urban wildlife and water filtration (Uno et al., <xref ref-type="bibr" rid="B91">2010</xref>; Gardiner et al., <xref ref-type="bibr" rid="B30">2013</xref>; Green et al., <xref ref-type="bibr" rid="B34">2016</xref>; Herrmann et al., <xref ref-type="bibr" rid="B38">2017</xref>).</p>
<p>While there is growing awareness of the potential importance of the soil microbiome within urban soils for maintaining belowground ecosystem services, studies of the factors that govern the urban soil microbiome, and its performance remain limited. Studies of the urban soil microbiome have focused primarily on the diversity of these communities and have found that abiotic factors such as pH and soil type are important drivers of microbial diversity (e.g., McGuire et al., <xref ref-type="bibr" rid="B53">2013</xref>; Ramirez et al., <xref ref-type="bibr" rid="B72">2014</xref>; Schmidt et al., <xref ref-type="bibr" rid="B79">2017</xref>), as has been observed in non-urban systems (e.g., Fierer and Jackson, <xref ref-type="bibr" rid="B23">2006</xref>; Lauber et al., <xref ref-type="bibr" rid="B47">2009</xref>; Rousk et al., <xref ref-type="bibr" rid="B75">2010</xref>). With a growing interest in urban soil ecosystem services, particularly for urban agriculture and responses to disturbances and global change, we must develop a more comprehensive understanding of the biotic controls on the urban soil microbiome. Plant communities have been identified as an important biotic control on par with the abiotic factors that control microbiomes such as moisture and nutrient availability (Fierer, <xref ref-type="bibr" rid="B22">2017</xref>). However, our understanding of other biotic controls, especially the effects of soil-dwelling animals, is incomplete. Recent work has shown that the high variability observed in microbial community composition among different urban soil fragments (e.g., McGuire et al., <xref ref-type="bibr" rid="B53">2013</xref>) is partly driven by soil invertebrate functional diversity, where increased invertebrate functional diversity can lead to increased microbial diversity (Bray et al., <xref ref-type="bibr" rid="B9">2019</xref>). Yet, the actual mechanisms through which invertebrates affect microbial diversity and function have not been fully explored, especially in urban settings. In this perspective, we discuss how soil invertebrates have the potential to affect the diversity, biomass and activity of the microbiome and their influence on ecosystem services in urban soils.</p>
</sec>
<sec id="s2">
<title>Soil Invertebrate Community Composition and Function in Urban Soils</title>
<p>Invertebrate communities in urban soils can be taxonomically and functionally rich, containing detritivores, microbivores, predators and ecosystem engineers (e.g., Byrne and Bruns, <xref ref-type="bibr" rid="B10">2004</xref>; Rochefort et al., <xref ref-type="bibr" rid="B74">2006</xref>; Schrader and B&#x000F6;ning, <xref ref-type="bibr" rid="B80">2006</xref>; Byrne et al., <xref ref-type="bibr" rid="B11">2008</xref>; Joimel et al., <xref ref-type="bibr" rid="B41">2017</xref>). In some cases, urban soils even exhibit greater invertebrate abundances than in nearby natural systems (Philippot et al., <xref ref-type="bibr" rid="B66">2013</xref>). Urban soil invertebrate communities are shaped by not only the inherent physical and chemical characteristics of urban soils but also heavily by past and present land use and management practices (<xref ref-type="table" rid="T1">Table 1</xref>). Many studies have highlighted that soil invertebrates are sensitive to many human activities and resulting soil conditions such as physical disturbance, metal contamination, pesticide inputs, site age and land use history (McIntyre, <xref ref-type="bibr" rid="B55">2000</xref>; Pavao-Zuckerman, <xref ref-type="bibr" rid="B64">2008</xref>; Pouyat et al., <xref ref-type="bibr" rid="B68">2010</xref>; Jones and Leather, <xref ref-type="bibr" rid="B42">2013</xref>; Table 1). While many anthropogenic activities have been shown to suppress the abundance and diversity of soil invertebrates, the direction and magnitude of the responses can also vary across different taxonomic groups. For instance, most invertebrates decrease in density in response to soil metal contamination (Nahmani and Lavelle, <xref ref-type="bibr" rid="B58">2002</xref>; Santorufo et al., <xref ref-type="bibr" rid="B77">2012</xref>; Pouyat et al., <xref ref-type="bibr" rid="B69">2015</xref>); however, one group of soil macroinvertebrates, the isopods, has exhibited a positive density response to metal contamination in urban soils (Pouyat et al., <xref ref-type="bibr" rid="B69">2015</xref>). Pesticides are also well-known to decrease microarthropod densities in urban soils; however, the effects can vary considerably with pesticide active ingredient, application rate, and frequency of use (Peck, <xref ref-type="bibr" rid="B65">2009</xref>; Gan and Wickings, <xref ref-type="bibr" rid="B27">2017</xref>). Other anthropogenic activities can have uniform positive effects on soil invertebrate communities. For example, the addition of organic matter is known to increase invertebrate densities across multiple taxonomic and functional groups in urban soils (Smith et al., <xref ref-type="bibr" rid="B84">2006</xref>; Smetak et al., <xref ref-type="bibr" rid="B83">2007</xref>; Byrne et al., <xref ref-type="bibr" rid="B11">2008</xref>; Joimel et al., <xref ref-type="bibr" rid="B40">2016</xref>, <xref ref-type="bibr" rid="B41">2017</xref>).</p>
<table-wrap position="float" id="T1">
<label>Table 1</label>
<caption><p>Select factors affecting invertebrates within urban soils; the response of the invertebrate community is either to an increase in the factor or to the addition of the factor.</p></caption>
<table frame="hsides" rules="groups">
<thead><tr>
<th valign="top" align="left"><bold>Factor</bold></th>
<th valign="top" align="left"><bold>Invertebrate</bold></th>
<th valign="top" align="left"><bold>Metric</bold></th>
<th valign="top" align="left"><bold>Response</bold></th>
<th valign="top" align="left"><bold>References</bold></th>
</tr>
</thead>
<tbody>
<tr>
<td valign="top" align="left">Site or soil age</td>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">None</td>
<td valign="top" align="left">Schrader and B&#x000F6;ning, <xref ref-type="bibr" rid="B80">2006</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Species<italic>Hypogastrura sahlbergiLepidocyrtus lignorumThalassaphorura encarpata</italic></td>
<td valign="top" align="left">Negative</td>
<td/>
</tr>
<tr>
<td/>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Species<italic>Folsomides parvulusLepidocyrtus cyaneusCryptopygus thermophilesCryptopygus bipunctatusMesaphorura krausbaueri</italic></td>
<td valign="top" align="left">Positive</td>
<td/>
</tr>
<tr>
<td/>
<td valign="top" align="left">Enchytraeids</td>
<td valign="top" align="left">Species<italic>Buchholzia appendiculata</italic></td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Amoss&#x000E9; et al., <xref ref-type="bibr" rid="B1">2016</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Smetak et al., <xref ref-type="bibr" rid="B83">2007</xref></td>
</tr>
<tr>
<td/>
<td/>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">None</td>
<td valign="top" align="left">Amoss&#x000E9; et al., <xref ref-type="bibr" rid="B1">2016</xref></td>
</tr>
<tr>
<td/>
<td/>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Vergnes et al., <xref ref-type="bibr" rid="B96">2017</xref></td>
</tr>
<tr>
<td valign="top" align="left">Percent urbanized area</td>
<td valign="top" align="left">Isopods</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Philippot et al., <xref ref-type="bibr" rid="B66">2013</xref></td>
</tr>
<tr>
<td valign="top" align="left">Plant input chemistry (C:N)</td>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Vauramo and Set&#x000E4;l&#x000E4;, <xref ref-type="bibr" rid="B94">2010</xref></td>
</tr>
<tr>
<td/>
<td/>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Vauramo and Set&#x000E4;l&#x000E4;, <xref ref-type="bibr" rid="B95">2011</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Nematodes</td>
<td valign="top" align="left">Bacteriovores, plant-parasitic</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Vauramo and Set&#x000E4;l&#x000E4;, <xref ref-type="bibr" rid="B94">2010</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Nematodes</td>
<td valign="top" align="left">Fungal feeders</td>
<td valign="top" align="left">None</td>
<td valign="top" align="left">Vauramo and Set&#x000E4;l&#x000E4;, <xref ref-type="bibr" rid="B94">2010</xref></td>
</tr>
<tr>
<td valign="top" align="left">Soil bulk density</td>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Smetak et al., <xref ref-type="bibr" rid="B83">2007</xref></td>
</tr>
<tr>
<td valign="top" align="left">Soil pH</td>
<td valign="top" align="left">Macro-invertebrates</td>
<td valign="top" align="left">Total Lumbricidae, Chilopoda, Diplopoda, Isopoda, Formicidae</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Smith et al., <xref ref-type="bibr" rid="B84">2006</xref></td>
</tr>
<tr>
<td valign="top" align="left">Soil temperature</td>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total density and diversity</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Rumble and Gange, <xref ref-type="bibr" rid="B76">2013</xref></td>
</tr>
<tr>
<td valign="top" align="left">Soil moisture</td>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Rumble and Gange, <xref ref-type="bibr" rid="B76">2013</xref></td>
</tr>
<tr>
<td valign="top" align="left">Management intensity</td>
<td valign="top" align="left">Nematodes</td>
<td valign="top" align="left">Total, free-living, plant-parasitic, number of genera</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Grewal et al., <xref ref-type="bibr" rid="B36">2011</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Nematodes</td>
<td valign="top" align="left">Total, free-living, plant-parasitic, number of genera</td>
<td valign="top" align="left">None</td>
<td valign="top" align="left">Grewal et al., <xref ref-type="bibr" rid="B36">2011</xref></td>
</tr>
<tr>
<td valign="top" align="left">Metal contamination</td>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Pouyat et al., <xref ref-type="bibr" rid="B69">2015</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Species <italic>Aporrectodea caliginosa</italic></td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Nahmani and Lavelle, <xref ref-type="bibr" rid="B58">2002</xref></td>
</tr>
<tr>
<td valign="top" align="left">Addition of organic matter</td>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Total number</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Byrne et al., <xref ref-type="bibr" rid="B11">2008</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Earthworms</td>
<td valign="top" align="left">Total density</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Smetak et al., <xref ref-type="bibr" rid="B83">2007</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Macro-invertebrates</td>
<td valign="top" align="left">Total Lumbricidae, Chilopoda, Diplopoda, Isopoda, Formicidae</td>
<td valign="top" align="left">Positive</td>
<td valign="top" align="left">Smith et al., <xref ref-type="bibr" rid="B84">2006</xref></td>
</tr>
<tr>
<td valign="top" align="left">Addition of pesticides</td>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Gan and Wickings, <xref ref-type="bibr" rid="B27">2017</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Mites</td>
<td valign="top" align="left">Total oribatid abundance</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Gan and Wickings, <xref ref-type="bibr" rid="B27">2017</xref></td>
</tr>
<tr>
<td/>
<td valign="top" align="left">Springtails</td>
<td valign="top" align="left">Total abundance</td>
<td valign="top" align="left">Negative</td>
<td valign="top" align="left">Peck, <xref ref-type="bibr" rid="B65">2009</xref></td>
</tr>
</tbody>
</table>
</table-wrap>
<p>Anthropogenic influence, a defining feature of urban soils, is not always uniform, creating distinct pressures on invertebrate communities and site-specific variation across urban soil habitats and patches. If anthropogenic influences shaping invertebrate communities are in fact site-specific in urban soils, then their ecological function across different urban soils may be site-specific and therefore their effects on microbiomes may also be site-specific. It is unknown how altered invertebrate communities act as a biotic control on urban soil microbiomes and affect microbial community structure and function. Their importance may be high under some circumstances but may also vary considerably both within and among different urban areas such as lawns, gardens, vacant lots, and green roofs. This presents a challenge for assessing and predicting ecosystem services that are linked to soil invertebrates and the ecosystem services provided by soil microorganisms because of the multiple pathways through which invertebrates influence microbial community composition and function. Invertebrate effects on microbial function therefore require targeted investigations to fully gauge their impacts on the urban soil microbiome and the ecosystem services it provides.</p>
<p>To explore the roles of invertebrates in the urban soil microbiome, we selected the invertebrates classified as microbivores and/or detritivores given their potential to alter microbial communities. Furthermore, we identified three pathways through which invertebrates affect microbial processes: (1) microorganism dispersal, (2) grazing on microorganisms, and (3) fragmentation and mixing of organic matter resulting in altered resource accessbility for microorganisms (<xref ref-type="fig" rid="F1">Figure 1</xref>). Through these direct and indirect pathways, invertebrates have been shown to exert strong controls on microbiome composition, activity and biomass, suggesting that invertebrates have the potential to influence microbial processes (Grandy et al., <xref ref-type="bibr" rid="B33">2016</xref>). In the following sections, we highlight important future research directions to clarify the roles of invertebrates on microbial community composition and microbe-driven ecosystem services in the unique context of urban soil ecosystem.</p>
<fig id="F1" position="float">
<label>Figure 1</label>
<caption><p>Three proposed invertebrate pathways that alter microbial communities in urban soils; invertebrates either have positive (&#x0002B;) and/or negative (&#x02212;) effects on the different microbial response metrics and interactions between the different invertebrate pathways and the microbial metric affect distinct soil processes.</p></caption>
<graphic xlink:href="fevo-07-00359-g0001.tif"/>
</fig>
</sec>
<sec id="s3">
<title>The Role of Invertebrates in Microbial Dispersal and in Shaping Urban Soil Microbiome Structure</title>
<p>The physical dispersal of microorganisms through soil may be a particularly important mechanism by which invertebrates influence community assembly and composition of the urban soil microbiome. Despite the potentially high cumulative area of urban greenspace soils, soil habitats in urban systems can be patchy and not well connected. Examples of urban patchy habitats include urban gardens, parks, green roofs, and street planters. Elucidating the relationships between invertebrate and microbial dispersal in urban habitats will help to determine whether invertebrates facilitate connectivity for less mobile soil microorganisms.</p>
<p>Studies have shown that soil invertebrates can transport both free-living and plant symbiotic microorganisms through gut passage, fecal deposition, and passive transport on their exoskeletons (McIlveen and Cole, <xref ref-type="bibr" rid="B54">1976</xref>; Rabatin and Stinner, <xref ref-type="bibr" rid="B71">1985</xref>; Gange, <xref ref-type="bibr" rid="B28">1993</xref>; Moody et al., <xref ref-type="bibr" rid="B56">1996</xref>; Lilleskov and Bruns, <xref ref-type="bibr" rid="B50">2005</xref>). These studies were conducted in laboratory settings and non-urban soils; therefore, the roles of invertebrates in transporting microorganisms in urban soils and how this shapes microbial community composition in urban soils is an important future research direction. One key group of invertebrate-transported microorganisms are mycorrhizal fungi, which have positive effects on plant nutrient uptake, productivity and diversity (Van Der Heijden et al., <xref ref-type="bibr" rid="B93">1998</xref>) and consequently soil ecosystem processes. In urban soils, factors such as habitat fragmentation, and pollution have the potential to negatively affect fungal diversity (Newbound et al., <xref ref-type="bibr" rid="B60">2010</xref>). Therefore, exploring invertebrates as dispersal agents and promoters of these beneficial symbiotic relationships in urban soils may provide a unique ecosystem service, particularly in newly established soils. However, invertebrate transport of microorganism is not limited to beneficial symbiotic microorganisms. Invertebrates can transport other organisms such as seeds and plant pathogens (Thompson et al., <xref ref-type="bibr" rid="B88">1994</xref>; Friberg et al., <xref ref-type="bibr" rid="B26">2005</xref>; Eisenhauer et al., <xref ref-type="bibr" rid="B21">2009</xref>). Limited work on this in urban soils has shown that invertebrates can play important roles in seedling recruitment and plant diversity in urban ecosystems (e.g., Sperling and Lortie, <xref ref-type="bibr" rid="B85">2010</xref>) indicating potential for dispersal of weedy species. The net effects of plant-invertebrate-microbe interactions generally need to be further explored in urban soils, particularly if invertebrates are to be considered a tool for promoting microbial diversity.</p>
<p>Furthermore, to fully gauge the importance of this mechanism, a deeper understanding of invertebrate movement among urban soils is key to understanding their influence over soil microbiome formation and structure within urban soils and across urban soil fragments. While some work has shown that green spaces and corridors can help mobile invertebrates disperse across urban landscapes (Vergnes et al., <xref ref-type="bibr" rid="B97">2012</xref>; Braaker et al., <xref ref-type="bibr" rid="B7">2014</xref>), general principles regarding routes of colonization or constraints on soil invertebrate dispersal and population establishment within isolated urban soil fragments are lacking. This is relevant for not only the movement of native soil invertebrates but also for invasive soil fauna, such as the Asian jumping worms (<italic>Amynthas</italic> and <italic>Metaphire</italic> spp.), which disperse rapidly through urban habitats (Hale, <xref ref-type="bibr" rid="B37">2008</xref>; Greiner et al., <xref ref-type="bibr" rid="B35">2012</xref>; Qiu and Turner, <xref ref-type="bibr" rid="B70">2017</xref>) and are known to alter soil microbial communities (Chang et al., <xref ref-type="bibr" rid="B14">2018</xref>). Clarifying the relationships between invertebrate and microbial dispersal in urban habitats will help to determine whether invertebrates facilitate connectivity for less mobile soil microorganisms within urban soil habitats and across urban soil patches. This should be addressed by establishing long-term studies to characterize the colonization of newly established soils in urban ecosystems or re-colonization of defaunated soils of varying patch sizes and degrees of connectivity and identity surrounding source pools of potential colonizing invertebrates, both native and invasive, and assess changes in the soil microbiome.</p>
</sec>
<sec id="s4">
<title>The Effects of Invertebrate Grazing on the Size and Activity of the Urban Soil Microbiome</title>
<p>The size, or biomass, of the soil microbial community is a widely-used metric to assess the capacity of the microbiome to provision ecosystem services (Zak et al., <xref ref-type="bibr" rid="B101">2003</xref>; Jangid et al., <xref ref-type="bibr" rid="B39">2008</xref>; Van Der Heijden et al., <xref ref-type="bibr" rid="B92">2008</xref>; Fierer et al., <xref ref-type="bibr" rid="B24">2009</xref>; Rinkes et al., <xref ref-type="bibr" rid="B73">2013</xref>; Serna-Chavez et al., <xref ref-type="bibr" rid="B81">2013</xref>; Wagg et al., <xref ref-type="bibr" rid="B98">2014</xref>) and there is growing interest in using it as a soil health metric (Gonzalez-Qui&#x000F1;ones et al., <xref ref-type="bibr" rid="B32">2011</xref>). While microbial biomass is influenced by many abiotic factors, biotic factors such as soil invertebrate grazing on bacteria and fungi can also impact it. Microbial grazing (a.k.a. microbivory) has been identified as one of the main pathways through which soil invertebrates can affect not only the microbial community but also soil biogeochemical processes (Grandy et al., <xref ref-type="bibr" rid="B33">2016</xref>); however, its importance under field settings is unclear. We propose that investigating invertebrate effects on microbial biomass in urban soils under different invertebrate diversity and density scenarios will elucidate invertebrate controls on this important soil health metric and lead to better predictions of microbial biomass responses in recently disturbed or newly formed urban soils.</p>
<p>Previous studies have demonstrated that microbivory can either increase or decrease microbial biomass and activity and a review by Crowther et al. (<xref ref-type="bibr" rid="B19">2012</xref>) suggests that observed differences in the direction and magnitude of microbial responses to microbivory are linked to grazer identity and density. For example, the effects of microarthropods (e.g., springtails) stimulate fungal growth, whereas macroinvertebrates such as isopods decrease fungal growth (Crowther et al., <xref ref-type="bibr" rid="B18">2011</xref>; Crowther and A&#x00027;Bear, <xref ref-type="bibr" rid="B17">2012</xref>). Grazer density also determines the responses of microbial communities to microbivory with low-intensity grazing leading to higher microbial biomass and activity and high-intensity grazing leading to decreased microbial biomass and activity (Lenoir et al., <xref ref-type="bibr" rid="B49">2007</xref>; Crowther and A&#x00027;Bear, <xref ref-type="bibr" rid="B17">2012</xref>; Crowther et al., <xref ref-type="bibr" rid="B19">2012</xref>). This is not only true for free-living saprotrophic microorganisms, but also for root-symbiotic microorganisms such as mycorrhizal fungi (Klironomos and Kendrick, <xref ref-type="bibr" rid="B46">1996</xref>). Root-symbiotic microorganisms can be altered by the presence of invasive earthworms in urban soils leading to changes in organic matter in the rhizosphere and fine root growth (Baxter et al., <xref ref-type="bibr" rid="B4">1999</xref>). Despite the variability in invertebrate effects on microbial biomass, one of the primary consequences of invertebrate grazing on microbial biomass is an increase in nitrogen availability (Anderson, <xref ref-type="bibr" rid="B2">1988</xref>; Osler and Sommerkorn, <xref ref-type="bibr" rid="B61">2007</xref>), indicating that by grazing on microorganisms, soil invertebrates play important roles in soil nitrogen cycles and potentially promote or reduce soil fertility.</p>
<p>Given that changes in microbial biomass and activity have implications for soil microbiome-derived ecosystem services, understanding the biotic interactions that contribute to changes in microbial biomass and activity is essential. Integrated studies exploring concurrent patterns of both microbial and invertebrate population dynamics specifically in urban soils would provide more insight into how the microbiome may change with invertebrate community composition and density. Additionally, manipulative field studies using fauna exclusions or fauna additions and assessing microbiome responses in urban soils can provide important insights into community-level changes due to soil invertebrates. This could potentially elucidate an important pathway through which invertebrates mediate microbially-driven ecosystem services through their effects on the urban soil microbiome.</p>
</sec>
<sec id="s5">
<title>The Roles of Invertebrates in Organic Matter Fragmentation and Mixing in Urban Soils</title>
<p>Many soil invertebrates are involved in the mixing and breakdown of plant residue inputs to soil (Chamberlain et al., <xref ref-type="bibr" rid="B13">2006</xref>). As such, invertebrates alter the physical and chemical composition and accessibility of organic matter in soil, which can influence microbial resource acquisition and resource use efficiency (Scheu and Wolters, <xref ref-type="bibr" rid="B78">1991</xref>; Wardle, <xref ref-type="bibr" rid="B99">2002</xref>; Wieder et al., <xref ref-type="bibr" rid="B100">2014</xref>). Yet, the impact of invertebrates on plant residue breakdown is known to vary with residue chemistry (Garcia-Palacios et al., <xref ref-type="bibr" rid="B29">2013</xref>; Suzuki et al., <xref ref-type="bibr" rid="B86">2013</xref>) suggesting that their importance as moderators of resource inputs for the urban soil microbiome may depend heavily on the type or amount of organic matter input a system receives.</p>
<p>Organic matter inputs across urban soil habitats can range widely in physical and chemical composition (Lorenz and Lal, <xref ref-type="bibr" rid="B51">2009</xref>) from tree leaf litter in urban forests to grass clippings and root exudates in lawns. Organic matter is also frequently added to urban soils in the form of mulches, compost, biosolids, biostimulants, and high-organic matter topsoil. Along with their addition, it is also common practice to remove organic matter from some urban soils (e.g., lawn and leaf waste) which can reduce organic matter inputs to soils (Craul, <xref ref-type="bibr" rid="B16">1985</xref>; Byrne et al., <xref ref-type="bibr" rid="B11">2008</xref>). Such notable modifications to organic matter within urban soils can alter microbial activity and decomposition (Byrne et al., <xref ref-type="bibr" rid="B11">2008</xref>; Carlson et al., <xref ref-type="bibr" rid="B12">2015</xref>), modify plant nutrient availability (Beniston et al., <xref ref-type="bibr" rid="B6">2016</xref>) and impact carbon storage (Beesley, <xref ref-type="bibr" rid="B5">2012</xref>). There is general evidence that the composition of the decomposer community can affect the rate of decomposition in urban soils through interactions between inputs, invertebrates and microorganism (Ossola et al., <xref ref-type="bibr" rid="B62">2016</xref>; Jusselme et al., <xref ref-type="bibr" rid="B43">2019</xref>; Tresch et al., <xref ref-type="bibr" rid="B90">2019</xref>); however, the importance of invertebrates in shaping organic matter-microbe interactions in urban soils is not fully understood. We therefore need to account for all the potential consequences of alterations to organic matter while supporting management goals within urban soils. Future work should focus on targeted approaches to assess invertebrate contributions to microbial resource accessibility and how resource accessibility alters the structure and function of the urban soil microbiome. This could include tracking microbiome responses in field studies with wide-ranging input chemistries such as labile grass clippings to compost to tree leaves in which invertebrate communities are present or excluded.</p>
</sec>
<sec sec-type="conclusions" id="s6">
<title>Conclusions</title>
<p>Urban soils are a unique habitat for microorganisms and invertebrates, and there is ample evidence that biota can be both abundant and diverse within urban soils (e.g., McIntyre, <xref ref-type="bibr" rid="B55">2000</xref>; Tratalos et al., <xref ref-type="bibr" rid="B89">2007</xref>; Gardiner et al., <xref ref-type="bibr" rid="B31">2014</xref>; Ramirez et al., <xref ref-type="bibr" rid="B72">2014</xref>; Set&#x000E4;l&#x000E4; et al., <xref ref-type="bibr" rid="B82">2014</xref>; Ossola et al., <xref ref-type="bibr" rid="B62">2016</xref>; Szlavecz et al., <xref ref-type="bibr" rid="B87">2018</xref>). Yet, going beyond characterization and moving to management of microbiomes to increase plant productivity and bolster other ecosystem services is an important future direction for urban soil ecology research. Therefore, identifying and assessing all the biotic pathways that can change microbiomes is key to achieving this management goal. Through the three pathways identified here, soil invertebrates may be particularly important drivers of soil microbiome function in urban soils. Invertebrate-microbe interactions in urban soil may be site-specific given the variability within and across urban areas. Advancing knowledge of invertebrate-microbe interactions in urban soils has the potential to improve our ability to make more accurate predictions about belowground biogeochemical processes across diverse urban soils. Many unknowns remain surrounding the relative importance of invertebrates for predicting soil microbial processes under different urban soil conditions but targeted approaches that investigate invertebrate-microbe interactions in urban soils may eventually increase our ability to manage microbiomes and the ecosystem services they provide.</p>
</sec>
<sec id="s7">
<title>Author Contributions</title>
<p>Both authors contributed to the writing of this work and have approved it for publication.</p>
<sec>
<title>Conflict of Interest</title>
<p>The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.</p>
</sec>
</sec>
</body>
<back>
<ack><p>The authors would like to thank the two reviewers for their feedback and suggestions that improved the paper.</p>
</ack>
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<fn-group>
<fn fn-type="financial-disclosure"><p><bold>Funding.</bold> NB and KW were supported by funding from the College of Agricultural and Life Sciences at Cornell University.</p>
</fn>
</fn-group>
</back>
</article>