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Title: Analysis of soil eDNA functional genes: potential to increase profitability and sustainability of pastoral agriculture

Journal Article · · New Zealand Journal of Agricultural Research (New Zealand)
 [1];  [1];  [2];  [1];  [3];  [4];  [5];  [6];  [1]
  1. AgResearch Ltd, Christchurch (New Zealand)
  2. AgResearch Ltd, Christchurch (New Zealand); Lincoln Univ., Canterbury (New Zealand)
  3. AgResearch Ltd, Christchurch (New Zealand); Univ. of Thessaly, Larisa (Greece)
  4. Lincoln Univ., Canterbury (New Zealand)
  5. Univ. of Oklahoma, Norman, OK (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Tsinghua Univ., Beijing (China)
  6. Univ. of Oklahoma, Norman, OK (United States)
+ Show Author Affiliations

Management of soil biological resources to optimise plant production, efficiency of nutrient inputs, and system sustainability is an emerging opportunity for pastoral agriculture. To attain these goals, suitable tools that can assess the functional state of the soil ecosystem must be developed and standardised approaches to their application adopted. Towards this end, we have undertaken comprehensive, high-density functional-gene microarray analysis (GeoChip5) of environmental DNA (eDNA) extracted from 50 pastoral soils. When combined with soil, environmental and management metadata, the information can be used to provide insights into soil biological processes spanning greenhouse gas emissions, through to natural suppression of plant root diseases. To give an example of a structured workflow of analysis in a pastoral system context, we analysed the GeoChip data using a combination of approaches spanning routine univariate methods through to more complex multivariate and network-based analysis. Analyses were restricted to comparing effects of land-use (dairy or ‘other’ farming systems), and exploring relationships of the GeoChip data with the soil properties from each sample. These exemplar analyses introduce a pathway for the application of eDNA approaches (GeoChip or others) to deliver outcomes for pastoral agricultural in New Zealand.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC)
Grant/Contract Number:
AC02-05CH11231
OSTI ID:
1567065
Journal Information:
New Zealand Journal of Agricultural Research (New Zealand), Vol. 59, Issue 4; ISSN 0028-8233
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 9 works
Citation information provided by
Web of Science

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Cited By (6)

A review on the applications and recent advances in environmental DNA (eDNA) metagenomics journal July 2019
Soil biodiversity and biogeochemical function in managed ecosystems journal January 2020
Managing soil microbiology: realising opportunities for the productive land-based sectors journal February 2018
Applications of the Soil, Plant and Rumen Microbiomes in Pastoral Agriculture journal July 2019
Effect of land use and soil organic matter quality on the structure and function of microbial communities in pastoral soils: Implications for disease suppression journal May 2018
Applications of the Soil, Plant and Rumen Microbiomes in Pastoral Agriculture journal July 2019

Linked Research (2)

Figures / Tables (6)

Figure 1(p. 9)figure Figure 1
Figure 2(p. 10)figure Figure 2
Table 1(p. 12)table Table 1
Table 2(p. 13)table Table 2
Figure 3(p. 14)figure Figure 3
Figure 4(p. 15)figure Figure 4

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Data analysis
eDNA
environmental genomics
GeoChip
soil ecosystem function