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RESEARCH ARTICLE
Contents Vol 46(7)

Does atmospheric CO2 concentration influence soil nitrifying bacteria and their activity?

Saman Bowatte A B , R. Andrew Carran A , Paul C. D. Newton A and Phil Theobald A
+ Author Affiliations
- Author Affiliations

A AgResearch (Grasslands), Private Bag 11008, Palmerston North 4442, New Zealand.

B Corresponding author. Email: saman.bowatte@agresearch.co.nz

Australian Journal of Soil Research 46(7) 617-622 https://doi.org/10.1071/SR07214
Submitted: 27 November 2007  Accepted: 1 May 2008   Published: 8 October 2008

Abstract

Ammonia oxidising bacteria (AOB) are important soil microorganisms that carry out the first step in nitrification, the oxidation of ammonia to nitrite. In this paper we investigated the impact of long-term elevated CO2 on soil nitrification and soil AOB community composition. Soil samples were taken from Hakanoa natural CO2 springs, Kamo, Northland, New Zealand. This site has been exposed to elevated CO2 for several decades. Soils were collected from different points near to CO2-emitting vents where the CO2 concentration at canopy height had been characterised. Nitrification activity was measured using a short-term nitrification assay, and AOB community composition was characterised using polymerase chain reaction and denaturing gradient gel electrophoresis (DGGE). A principal component analysis of the DGGE banding pattern was carried out to identify the effect of CO2 on AOB community composition. Soil nitrification activity was markedly decreased with increasing CO2. The variation in DGGE banding patterns revealed differences in the composition of the soil AOB community that were related to CO2 concentration. Principal component analysis showed that the changes in community composition and nitrifying activity were linked and that these changes were related to atmospheric CO2 concentration.

Additional keywords: elevated CO2, nitrification, ammonia oxidising bacteria, natural CO2 springs, DGGE.


References


Avrahami S, Liesack W, Conrad R (2003) Effects of temperature and fertilizer on activity and community structure of soil ammonia oxidizers. Environmental Microbiology 5, 691–705.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Blakemore LC , Searle PL , Daly BK (1987) Methods for chemical analysis of soils. New Zealand Soil Bureau Scientific Report 80, NZ Soil Bureau, Lower Hutt, New Zealand.

Booth MS, Stark JM, Edwards R (2005) Controls on nitrogen cycling in terrestrial ecosystems: A synthetic analysis of literature data. Ecological Monographs 75, 139–157.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Bowatte S, Ishihara R, Asakawa S, Kimura M (2006) Characterization of ammonia oxidizing bacteria associated with weeds in a Japanese paddy field using amoA gene fragments. Soil Science and Plant Nutrition 52, 593–600.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Carran RA , Allard V (2006) Herbivory and nutrient cycling. In ‘Agroecosystems in a changing climate’. (Eds PCD Newton, RA Carran, GR Edwards, PA Niklaus) pp. 151–165. (CRC Press: New York)

De Graaff MA, van Groenigen KJ, Six J, Hungate B, van Kessel C (2006) Interactions between plant growth and soil nutrient cycling under elevated CO2: a meta-analysis. Global Change Biology 12, 2077–2091.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Edwards GR , Newton PCD (2006) Plant performance and implications for plant population dynamics and species composition in a changing climate. In ‘Agroecosystems in a changing climate’. (Eds PCD Newton, RA Carran, GR Edwards, PA Niklaus) pp. 189–210. (CRC Press: New York)

Geets J, Boon N, Verstraete W (2006) Strategies of aerobic ammonia oxidizing bacteria for coping with nutrient and oxygen fluctuations. FEMS Microbiology Ecology 58, 1–13.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Genstat (2005) ‘Genstat Release 9.0.’ (Lawes Agriculture Trust, IACR: Rothamsted, UK)

Horz HP, Barbrook A, Field CB, Bohannan BJM (2004) Ammonia-oxidizing bacteria respond to multifactorial global change. Proceeding of the National Academy of Sciences of the United States of America 101, 15136–15141.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Hungate B, Jaeger CH, Gamara G, Chapin FS, Field CB (2000) Soil microbiota in two annual grasslands: responses to elevated atmospheric CO2. Oecologia 124, 589–598.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Kool MK, Chung H, Tate KR, Des JR, Newton PCD, Six J (2007) Hierarchical saturation of soil carbon pools near a natural CO2 spring. Global Change Biology 13, 1282–1293.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Luo Y, Su B, Currie WS, Dukes JS, Finzi A , et al. (2004) Progressive nitrogen limitation of ecosystem responses to rising atmospheric carbon dioxide. Bioscience 54, 731–739.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Mahmood S, Prosser JI (2006) The influence of synthetic sheep urine on ammonia oxidizing bacterial communities in grassland soil. FEMS Microbiology Ecology 56, 444–454.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Morgan JA, Pataki DE, Körner C, Clark H, Del Grosso SJ , et al. (2004) Water relations in grassland and desert ecosystems exposed to elevated atmospheric CO2. Oecologia 140, 11–25.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Muyzer G , Brinkhoff T , Nübel U , Santegoeds C , Schäfer H , Wawer C (2004) Denaturing gradient gel electrophoresis (DGGE) in microbial ecology. In ‘Molecular microbial ecology manual’. (Eds GA Kowalchuk, Fj de Bruijn, IM Head, ADL Akkermans, JD van Elasas) pp. 743–770. (Kluwer Academic Publishers: Dordrecht)

Newton PCD, Bell CC, Clark H (1996) Carbon dioxide emissions from mineral springs in Northland and the potential of these sites for studying the effects of elevated carbon dioxide on pastures. New Zealand Journal of Agricultural Research 39, 33–40. open url image1

Nicolaisen MH, Ramsing NB (2002) Denaturing gradient gel electrophoresis (DGGE) approaches to study the diversity of ammonia-oxidizing bacteria. Journal of Microbiological Methods 50, 189–203.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Niklaus PA (2006) Climate change effects on biogeochemical cycles, nutrients and water supply. In ‘Agroecosystems in a changing climate’. (Eds PCD Newton, RA Carran, GR Edwards, PA Niklaus) pp. 11–52. (CRC Press: New York)

Prosser JI (1989) Autotrophic nitrification in bacteria. Advances in Microbial Physiology 30, 125–181.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Reich PB, Hobbie SE, Lee T, Ellsworth DS, West JB , et al. (2006) Nitrogen limitation constrains sustainability of ecosystem responses to CO2. Nature 440, 922–924.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1

Rillig MC, Wright SF, Allen MF, Field CB (1999) Rise in carbon dioxide changes soil structure. Nature 400, 628.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Ross DJ, Scott NA, Tate KR, Rodda NJ, Townsend JA (2001) Root effects on soil carbon and nitrogen cycling in a Pinus radiata D. Don plantation on a coastal sand. Australian Journal of Soil Research 39, 1027–1039.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Ross DJ, Tate KR, Newton PCD, Wild RH, Clark H (2000) Carbon and nitrogen pools and mineralization in a grassland gley soil under elevated carbon dioxide at a natural CO2 spring. Global Change Biology 6, 779–790.
| Crossref | GoogleScholarGoogle Scholar | open url image1

Rotthauwe JH, Witzel KP, Liesack W (1997) The ammonia monooxygenase structural gene amoA as a functional marker: Molecular fine-scale analysis of natural ammonia-oxidizing populations. Applied and Environmental Microbiology 63, 4704–4712.
| PubMed |
open url image1

Sarathchandra SU (1978) Nitrification activities of some New Zealand soils and effect of some clay types on nitrification. New Zealand Journal of Agricultural Research 21, 615–621. open url image1

Verhagen FJM, Duyts H, Laanbroek HJ (1992) Competition for ammonium between nitrifying and heterotrophic bacteria in continuously percolated soil columns. Applied and Environmental Microbiology 58, 3303–3311.
| PubMed |
open url image1

Webster G, Embley M, Freitag TE, Smith Z, Prosser JI (2005) Links between ammonia oxidizer species composition, functional diversity and nitrification kinetics in grassland soils. Environmental Microbiology 7, 676–684.
| Crossref | GoogleScholarGoogle Scholar | PubMed | open url image1