Jake M. RobinsonFlinders University
Jake M. Robinson
Ph.D Microbial Ecology / Nature-based Interventions
www.jakemrobinson.com
About
70
Publications
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Introduction
Jake is a microbial ecologist and eco-acoustician based in Adelaide, South Australia. He enjoys microbial ecology, ecoacoustics, geospatial science, social equity research and developing ways to conserve and restore nature through innovation.
Invisible Friends is his first book. It's all about how microbes shape our lives and the world around us.
For more information visit: www.jakemrobinson.com
Publications
Publications (70)
The interrelationship between climate change, pollution and the aerobiome (the microbiome of the air) is a complex ecological dynamic with profound implications for human and ecosystem health. This mini‐review explores the multifaceted relationships among these factors. By synthesising existing research and integrating interdisciplinary perspective...
Ecosystem restoration interventions often utilize visible elements to restore an ecosystem (e.g. replanting native plant communities and reintroducing lost species). However, using acoustic stimulation to help restore ecosystems and promote plant growth has received little attention. Our study aimed to assess the effect of acoustic stimulation on t...
Ecoacoustics—or acoustic ecology—aids in monitoring elusive and protected species in several ecological contexts. For example, passive acoustic monitoring (PAM), which involves autonomous acoustic sensors, is widely used to detect various taxonomic groups in terrestrial and aquatic ecosystems, from birds and bats to fish and cetaceans. Here, we ill...
Restoring and monitoring soil biodiversity has never been more important. Ecoacoustics is emerging as a promising tool to detect and monitor soil biodiversity and was recently effective in a temperate forest context. However, there is a need to investigate the efficacy of soil ecoacoustics in other ecosystems and bioregions.
Here, we applied ecoaco...
Soil microbiota are important components of healthy ecosystems. Greater consideration of soil microbiota in the restoration of biodiverse, functional, and resilient ecosystems is required to address the twin global crises of biodiversity decline and climate change. In this review, we discuss available and emerging practical applications of soil mic...
Butyrate‐producing bacteria colonise the gut of humans and non‐human animals, where they produce butyrate, a short‐chain fatty acid with known health benefits. Butyrate‐producing bacteria also reside in soils and soil bacteria can drive the assembly of airborne bacterial communities (the aerobiome). Aerobiomes in urban greenspaces are important res...
Abstract
Food webs are typically defined as being macro-organism-based (e.g., plants, mammals, birds) or microbial (e.g., bacteria, fungi, viruses). However, these characterizations have limits. We propose a multilayered food web conceptual model where microbial food webs are nested within food webs composed of macro-organisms. Nesting occurs throu...
Butyrate‐producing bacteria are found in many outdoor ecosystems and host organisms, including humans, and are vital to ecosystem functionality and human health. These bacteria ferment organic matter, producing the short‐chain fatty acid butyrate. However, the macroecological influences on their biogeographical distribution remain poorly resolved....
Urban development has profoundly reduced human exposure to biodiverse environments, which is linked to a rise in human disease. The 'biodiversity hypothesis' proposes that contact with diverse microbial communities (microbiota) benefits human health, as exposure to microbial diversity promotes immune training and regulates immune function. Soils an...
Soil bacterial taxa have important functional roles in ecosystems (e.g. nutrient cycling, soil formation, plant health). Many factors influence their assembly and regulation, with land cover types (e.g. open woodlands, grasslands), land use types (e.g. nature reserves, urban green space) and plant–soil feedbacks being well-studied factors. However,...
Fifty-nine percent of species on Earth inhabit the soil. However, soils are degrading at unprecedented rates, necessitating efficient, cost-effective, and minimally intrusive biodiversity monitoring methods to aid in their restoration. Ecoacoustics is emerging as a promising tool for detecting and monitoring soil biodiversity, recently proving effe...
Ecosystem restoration interventions often utilise visible elements to restore an ecosystem (e.g., replanting native plant communities and reintroducing lost species). However, using acoustic stimulation to restore ecosystems has received little attention. Our study aimed to (a) investigate the potential effects of acoustic stimulation on fungal bio...
Growing evidence suggests that exposure to microbial biodiversity is important for human immunoregulation and health. Urban greenspaces harbour airborne bacterial communities (aerobiomes) with the potential to transfer beneficial bacteria to humans. However, limited studies have examined the ecological influences of soil, vegetation, and rainfall o...
The microbiota–gut–brain axis facilitates communication between the gut microbiota and the brain. It has implications for health and environmental policy. Microbiota are linked to neurological and metabolic disorders, and our exposure to health-promoting microbiota depends on environmental quality. Microbiota–gut–brain axis interventions could info...
Microbiomes are critical to the health and functioning of humans and ecosystems. Defining ‘healthy microbiomes’, however, remains elusive. More advanced knowledge exists on health associations for the compounds used or produced by microbes. Because microbes, their feedstocks and micro-environments interact synchronously, using functional genes to f...
The benefits of exposure to nature for human health and wellbeing have been evidenced throughout history and across global civilisations. However, research on nature and place-based interventions for human health often centres around a reactive healthcare model rather than fully considering the cultural and historical scope of holistic approaches t...
Microbiomics is the science of characterizing microbial community structure,
function, and dynamics. It has great potential to advance our understanding of
plant–soil–microbe processes and interaction networks which can be applied to
improve ecosystem restoration. However, microbiomics may be perceived as
complex and the technology is not accessibl...
Post‐mining scenarios present challenges for restoration in a wide range of environments, especially in the context of climate change. The source of seed for restoration has been an issue of intense focus, as seed provenance can impact plant fitness and restoration outcomes. However, post‐mining landscapes require substrate reconstruction prior to...
Soil bacterial taxa have important functional roles in ecosystems (e.g., nutrient cycling, soil formation, plant health). Many factors influence their assembly and regulation, with land cover type (e.g., remnant vegetation, agriculture, urban parks) and plant-soil feedbacks being two well studied factors. However, changes in soil bacterial communit...
Forest restoration requires monitoring to assess above-and belowground communities, which is challenging due to practical and resource limitations. Ecological acoustic survey methods-also known as "ecoacoustics"-are increasingly available and provide a rapid, effective, and non-intrusive means of monitoring biodiversity. Aboveground ecoacoustics is...
Historically, a primary aim of bioaerosol research has been to understand and prevent 'unhealthy' human exposures to pathogens and allergens. However, there has been a recent paradigm shift in thinking about bioaerosols. Exposure to a diverse aerobiome - the microbiome of the air - is now considered necessary to be healthy.
As we continue to live through a pandemic, all eyes are on microbes: an imperceptible and pervasive threat that hangs heavy on the air and clings to surfaces. But the reality of micro-organisms is far more diverse and life-sustaining than such a notion would have us believe (hence the title of this book). Not only are they omnipresent, but we are h...
The vast and growing challenges for human health and all life on Earth require urgent and deep structural changes to the way in which we live. Broken relationships with nature are at the core of both the modern health crisis and the erosion of planetary health. A declining connection to nature has been implicated in the exploitative attitudes that...
Early childhood is a time of rapid physiological, cognitive, and social development, affected by various environmental factors. The physical environment, including the environmental microbiome (the entire consortium of microorganisms and their theatre of activity in a given environment), plays an essential role in childhood development and can be s...
Forest restoration requires monitoring to assess changes in above- and below-ground communities, which is challenging due to practical and resource limitations. With emerging sound recording technologies, ecological acoustic survey methods—also known as ‘ecoacoustics’—are increasingly available. These provide a rapid, effective, and non-intrusive m...
Aim
Butyrate-producing bacteria are found in many outdoor ecosystems and host organisms, including humans, and are vital to ecosystem functionality and human health. These bacteria ferment organic matter, producing the short-chain fatty acid butyrate. However, few (if any) studies have examined the macroecological influences on their large-scale bi...
Green infrastructure plays a vital role in urban ecosystems. This includes sustaining biodiversity and human health. Despite a large number of studies investigating greenspace disparities in suburban areas, no known studies have compared the green attributes (e.g., trees, greenness, and greenspaces) of urban centres. Consequently, there may be unch...
COVID-19 has devastated global communities and economies. The pandemic has exposed socioeconomic disparities and weaknesses in health systems worldwide. Long-term health effects and economic recovery are major concerns. Ecosystem restoration-ie, the repair of ecosystems that have been degraded-relates directly to tackling the health and socioeconom...
In the absence of effective and scalable human intervention, up to 95% of the world's ecosystems will be affected by anthropogenic degradation by 2050. Therefore, immediate and large‐scale ecological restoration is imperative to stem biodiversity loss and ecosystem decline. Ecologists must draw upon the most effective and efficient tools available...
Microbiome-Inspired Green Infrastructure (MIGI) was recently proposed as an integrative system to promote healthy urban ecosystems through multidisciplinary design. Specifically, MIGI is defined as nature-centric infrastructure restored, designed, and managed to enhance health-promoting interactions between humans and environmental microbiomes whil...
Social and political policy, human activities, and environmental change affect the ways in which microbial communities assemble and interact with people. These factors determine how different social groups are exposed to beneficial and/ or harmful microorganisms, meaning microbial exposure has an important socio-ecological justice context. Therefor...
It is now clear that the routine embedding of experiments into conservation practice is essential for creating reasonably comprehensive evidence of the effectiveness of actions. However, an important barrier is the stage of identifying testable questions that are both useful but also realistic to carry out without a major research project. We ident...
The “Earthrise” photograph, taken on the 1968 Apollo 8 mission, became one of the most significant images of the 20th Century. It triggered a profound shift in environmental awareness and the potential for human unity—inspiring the first Earth Day in 1970. Taking inspiration from these events 50 years later, we initiated Project Earthrise at our 20...
The “Earthrise” photograph, taken on the 1968 Apollo 8 mission, became one of the most significant images of the 20th Century. It triggered a profound shift in environmental awareness and the potential for human unity—inspiring the first Earth Day in 1970. Taking inspiration from these events 50 years later, we initiated Project Earthrise at our 20...
Humans are inextricably linked to each other and our natural world, and microorganisms lie at the nexus of those interactions. Microorganisms form genetically flexible, taxonomically diverse, and biochemically rich communities, i.e., microbiomes that are integral to the health and development of macroorganisms, societies, and ecosystems. Yet engage...
Humans are inextricably linked to each other and our natural world, and microorganisms lie at the nexus of those interactions. Microorganisms form genetically flexible, taxonomically diverse, and biochemically rich communities, i.e., microbiomes that are integral to the health and development of macroorganisms, societies, and ecosystems. Yet engage...
Germaphobia – a pathological aversion to microorganisms – could be contributing to an explosion in human immune-related disorders via mass sterilization of surfaces and reduced exposure to biodiversity. Loss of biodiversity and people’s weaker connection to nature, along with poor microbial literacy may be augmenting the negative consequences of ge...
Globally, anthropogenic sound and artificial light pollution have increased to alarming levels. Evidence suggests that these can disrupt critical processes that impact ecosystems and human health. However, limited focus has been given to the potential effects of sound and artificial light pollution on microbiomes. Microbial communities are the foun...
Recent advances in metagenomic technology and computational prediction may inadvertently weaken an individual's reasonable expectation of privacy. Through cross-kingdom genetic and metagenomic forensics, we can already predict at least a dozen human phenotypes with varying degrees of accuracy. There is also growing potential to detect a "molecular...
Exposure to biodiverse aerobiomes supports human health, but it is unclear which ecological factors influence exposure. Few studies have investigated near-surface green space aerobiome dynamics, and no studies have reported aerobiome vertical stratification in different urban green spaces. We used columnar sampling and next generation sequencing of...
Background: Microbiome-Inspired Green Infrastructure (MIGI) was recently proposed as an integrative system to promote healthy urban ecosystems, through multidisciplinary design. Specifically, MIGI is defined as nature-centric infrastructure restored and/or designed and managed to enhance health-promoting interactions between humans and environmenta...
Background: Microbiome-Inspired Green Infrastructure (MIGI) was recently proposed as an integrative system to promote healthy urban ecosystems, through multidisciplinary design. Specifically, MIGI is defined as nature-centric infrastructure restored and/or designed and managed to enhance health-promoting interactions between humans and environmenta...
The United Nations heralded 2021–2030 as the UN Decade on Ecosystem Restoration. A socio‐ecological approach to restoration has been proposed that honours the diversity in ecological landscapes and their respective cultures and peoples with the goal of repairing degraded ecosystems. Indigenous Peoples are intimately interconnected with landscapes,...
The COVID-19 pandemic has brought about unprecedented changes to human lifestyles across the world. The virus and associated social restriction measures have been linked to an increase in mental health conditions. A considerable body of evidence shows that spending time in and engaging with nature can improve human health and wellbeing. Our study e...
Germaphobia – a pathological aversion to microorganisms – could be contributing to an explosion in human immune-related disorders via mass sterilisation of surfaces and reduced exposure to biodiversity. Loss of biodiversity and our connectedness to nature, along with poor microbial literacy may be augmenting the negative consequences of germaphobia...
Globally, anthropogenic sound and artificial light pollution have increased to alarming levels. Evidence suggests that these can disrupt critical processes that impact ecosystems and human health. However, limited focus has been given to the potential effects of sound and artificial light pollution on microbiomes. Microbial communities are the foun...
The rise of microbiomics and metagenomics has been driven by advances in genomic sequencing technology, improved microbial sampling methods, and fast-evolving approaches in bioinformatics. Humans are a host to diverse microbial communities in and on their bodies, which continuously interact with and alter the surrounding environments. Since informa...
The COVID-19 pandemic has brought about unprecedented changes to human lifestyles across the world. The virus and associated social restriction measures have been linked to an increase in mental health conditions. A considerable body of evidence shows that spending time in and engaging with nature can improve human health and wellbeing. Our study e...
Background:
Exposure to a diverse environmental microbiome is thought to play an important role in "educating" the immune system and facilitating competitive exclusion of pathogens to maintain human health. Vegetation and soil are key sources of airborne microbiota--the aerobiome. A limited number of studies have attempted to characterize the dyna...
Cognitive biases can lead to misinterpretations of human and non-human biology and behavior. The concept of the Umwelt describes phylogenetic contrasts in the sensory realms of different species and has important implications for evolutionary studies of cognition (including biases) and social behavior. It has recently been suggested that the microb...
Exposure to biodiverse aerobiomes may support human health, but it is unclear which ecological factors influence exposure. Few studies have investigated near-surface green space aerobiome dynamics, and no studies have investigated aerobiome vertical stratification in different green spaces. We used columnar sampling and next generation sequencing o...
Vertical Stratification in Urban Green Space Aerobiomes - proof-of-concept study (pre-print).
Evidence of vertical stratification in both alpha and beta (compositional) diversity of airborne bacterial communities, with alpha diversity decreasing with height. Vertical stratification in known pathogenic and beneficial bacterial taxa suggests potent...
Research protocol (approved by the NHS Research Ethics Committee) for a green prescribing scheme - planned to take place in Sheffield, UK in 2020 but cancelled due to COVID-19.
This protocol can be used to help guide others wishing to start a green prescribing research collaboration (e.g., between researchers, GPs, nature-based organisations and...
Incorporating recent advances in environmental microbiome research and policy is a major challenge for urban design. We set out a framework for managing construction projects so that multidisciplinary teams of researchers and practitioners can explicitly consider environmental microbiota in design and construction contexts, thereby increasing ecosy...
Prescribing nature-based health interventions (green prescribing)-such as therapeutic horticulture or conservation activities-is an emerging transdisciplinary strategy focussed on reducing noncommunicable diseases. However, little is known about the practice of, and socioecological constraints/opportunities associated with, green prescribing in the...
Humans are spending less time in biodiverse environments, and according to the Old Friends and Biodiversity hypotheses, this has led to fewer interactions with diverse immunoregulatory micro‐organisms or ‘old friends’.
Non‐communicable diseases such as asthma and inflammatory bowel disease are on the rise, and the development and progression of the...
Advancements in DNA methods and biotechnology have enabled forensic scientists to explore the DNA evidence found as part of a criminal investigation on a much more comprehensive and predictive level. This has led to a rise in research into DNA intelligence tools such as phenotypic prediction (i.e., eye and hair colour) and inference of biogeographi...
Psychological frameworks are often used to investigate the mechanisms involved with our affinity towards, and connection with nature––such as the Biophilia Hypothesis and Nature Connectedness. Recent revelations from microbiome science suggest that animal behaviour can be strongly influenced by the host's microbiome––for example, via the bidirectio...
inVIVO Planetary Health (inVIVO) is a progressive scientific movement providing evidence, advocacy, and inspiration to align the interests and vitality of people, place, and planet. Our goal is to transform personal and planetary health through awareness, attitudes, and actions, and a deeper understanding of how all systems are interconnected and i...
Environmental microbiome research shows that microbial communities help to shape complex ecological processes that influence human and environmental health. Researchers are currently investigating the potential health-inducing interactions between humans and the environmental microbiome, particularly in urban areas. However, not only are there inhe...
There is a growing recognition of the links between the increasing prevalence of noncommunicable diseases, environmental concerns including biodiversity loss and ecosystem degradation, and socioecological issues such as ecological (in)justice. This has encouraged a number of recent calls for the development of integrative approaches aimed at addres...
Principles of ecology apply at myriad scales, including within the human body and the intertwined macro and microscopic ecosystems that we depend upon for survival. The conceptual principles of dysbiosis (‘life in distress’) also apply to different realms of life—our microbiome, the macro environment and the socioeconomic domain. Viewing the human...
Overview of some of the evidence to support the nature–human health and wellbeing relationship. Information on green prescribing - i.e. prescriptions for nature-based health interventions.
4D Microbial Cartography (4DMC): Modelling the Spatial, Compositional and Functional Dynamics of a Tree Microbiome
Questions
Questions (6)
Can anyone point to any studies (other than the one below) that suggest a loss of microbial diversity in a given habitat exacerbates the spread of ARGs, or that increasing microbial diversity (e.g. via inoculation) reduces ARGs?
And/or if you have any general thoughts on this, please leave comments.
Thanks,
Jake
I am seeking the best current methods and datasets (highest possible resolution) for defining and assessing global land degradation - ideally with a time series. I know there are different ways of exploring this e.g. biomass, productivity, land use/cover etc., but I would appreciate any thoughts on current modelling, datasets/resources and novel approaches.
I am also interested in the best methods for quantitatively mapping/modelling land restoration (biophysical) on a global scale, and if possible, historic land reconstruction.
Thanks!
Can you describe your experience of using data from Strava in your research (e.g., in spatial or socioecological studies) - and provide any tips on data acquisition, management, usage etc?
Thanks.
Can you provide examples of coadaptation between microbes and hosts (where the interactions also benefit the host in a way that selects for mutually beneficial behavioural change in the host)?
For example, I know the classic example of T. gondii altering the behaviour of intermediate host (e.g. the rodent) in order to reduce/lose its innate aversion to predators such as those in the felidae family (the definitive host)...The parasite obviously benefits; the rodent obviously does not; and the cat may benefit (?) from greater efficiency of capturing prey, but is there also selection for alterations to the cat's behaviour?
Any microbe-host coadaptation/behavioural manipulation examples would be much appreciated.
Thanks