@inbook{0273df4afd7544c2a9de3197fd3b3f86,
title = "Noninvasive analysis of the soil microbiome: Biomonitoring strategies using the volatilome, community analysis, and environmental data",
abstract = "Within soils there are microorganisms that act to break down complex substrates (saprophytes), microorganisms that actively aid nutrient delivery (mycorrhizal fungi and nitrogen-fixing bacteria), and others that hijack the system to their own benefit (parasitic bacteria and fungi). The complex interaction between plants, these microbes, and the soil determines how effectively nutrients will be recycled, with a significant impact on regional productivity and biodiversity. Each microbe plays a role in overall soil function but, despite the critical role they play, soil microbial communities and their functions remain challenging to accurately quantify. The functional behaviour of soils is difficult to quantify, in part due to the effects of disturbance when sampling. This suggests that noninvasive analytical tools are necessary to diagnose current soil function and to predict changes in soil behaviour with changing climate or land use. Microbial communities, the drivers of soil function, are diverse, and their individual metabolisms are often tightly coupled, such that the microbial community in aggregate may be considered to have a “net” metabolism. This net metabolism can be described by the volatile signatures that propagate from the soil into the atmosphere and, by proxy, allowing a noninvasive analysis of the microbial community active in the subsurface. Here, we detail the complexities of the soil volatile metabolism, propose a “fingerprint” strategy to describe this complex community that uses trace gas fluxes combined with environmental data, and describe the promising outcomes from an initial foray using this method.",
keywords = "dimethyl sulphide, isoprene, methyl halides, microbial community, microbiome, salt marsh, volatile metabolites, volatilome",
author = "Redeker, {Kelly R.} and Cai, {Leda L.} and Dumbrell, {Alex J.} and Alex Bardill and Chong, {James P.J.} and Thorunn Helgason",
note = "Funding Information: J.P.J.C. is a Royal Society Industry Fellow. The authors thank the staff of the Essex Wildlife Trust, particularly those at Abbotts Hall and Fingringhoe Wick, for access, support, and advice. We would also like to thank the Colchester Wildfowling and Conservation Club for access to the Mersea Island site. The authors thank Phil Brailey and Emma Rand for figure creation and assistance. This work used the York Biosciences Technology Facility and the authors thank Peter Ashton and Sally James for their assistance. K.R., A.D., and T.H. acknowledge Natural Environment Research Council award no. NE/K01546X/1. Funding Information: J.P.J.C. is a Royal Society Industry Fellow. The authors thank the staff of the Essex Wildlife Trust, particularly those at Abbotts Hall and Fingringhoe Wick, for access, support, and advice. We would also like to thank the Colchester Wildfowling and Conservation Club for access to the Mersea Island site. The authors thank Phil Brailey and Emma Rand for figure creation and assistance. This work used the York Biosciences Technology Facility and the authors thank Peter Ashton and Sally James for their assistance. K.R., A.D., and T.H. acknowledge Natural Environment Research Council award no. NE/K01546X/1. Publisher Copyright: {\textcopyright} 2018 Elsevier Ltd",
year = "2018",
month = sep,
day = "10",
doi = "10.1016/bs.aecr.2018.07.001",
language = "English",
isbn = "9780128143179",
volume = "59",
series = "Advances in Ecological Research",
publisher = "Academic Press",
pages = "93--132",
editor = "Bohan, {David A.} and Dumbrell, {Alex J.} and Guy Woodward and Michelle Jackson",
booktitle = "Advances in Ecological Research",
}