Diversity of aerobic anoxygenic phototrophic bacteria in paddy soil and their response to elevated atmospheric CO2

Aerobic anoxygenic phototrophic bacteria (AAnPB) are recognized as an important group driving the global carbon cycling. However, the diversity of AAnPB in terrestrial environment remains largely unknown as well as their responses to the elevated atmospheric CO2. By using culture‐independent techniques, the diversity of AAnPB in paddy soil and the changes in response to the rising atmospheric CO2 were investigated within China FACE (Free‐air CO2 enrichment) platform. There was a phylogenetically diverse AAnPB community with large population size residing in paddy soil. The community structure of AAnPB in bulk and rhizospheric soils stayed almost identical, while the population size was higher in rhizospheric [2.0–2.5 × 108 copy number of pufM genes g−1 dry weight soil (d.w.s.)] than that in bulk (0.7–0.8 × 108 g−1 d.w.s.) soils. Elevated atmospheric CO2 appeared to significantly stimulate AAnPB abundance (up to 1.4–1.5 × 108 g−1 d.w.s.) and result in a higher AAnPB percentage in total bacterial community (from 0.5% up to 1.5%) in bulk soil, whereas no significant effect was observed in rhizospheric soil. Our results would extend the functional ecotypes of AAnPB and indicate that environmental changes associated with the rising atmospheric CO2 might affect AAnPB community in paddy soil.

[1]  W. Wanek,et al.  Microbial communities of arboreal and ground soils in the Esquinas rainforest, Costa Rica , 2010, Plant and Soil.

[2]  N. Oh,et al.  Atmospheric CO2 enrichment facilitates cation release from soil. , 2010, Ecology letters.

[3]  Gang Liu,et al.  Elevated CO2 accelerates flag leaf senescence in wheat due to ear photosynthesis which causes greater ear nitrogen sink capacity and ear carbon sink limitation. , 2009, Functional plant biology : FPB.

[4]  Jianguo Zhu,et al.  Free-air CO2 enrichment (FACE) enhances the biodiversity of purple phototrophic bacteria in flooded paddy soil , 2009, Plant and Soil.

[5]  Stephan C Schuster,et al.  Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment , 2008, Proceedings of the National Academy of Sciences.

[6]  Elizabeth A. Ainsworth,et al.  Rice production in a changing climate: a meta‐analysis of responses to elevated carbon dioxide and elevated ozone concentration , 2008 .

[7]  D. Kirchman,et al.  Diversity and Distribution of Ecotypes of the Aerobic Anoxygenic Phototrophy Gene pufM in the Delaware Estuary , 2008, Applied and Environmental Microbiology.

[8]  F. Chen,et al.  Distinct distribution pattern of abundance and diversity of aerobic anoxygenic phototrophic bacteria in the global ocean. , 2007, Environmental microbiology.

[9]  M. Nei,et al.  MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. , 2007, Molecular biology and evolution.

[10]  D. Kirchman,et al.  Aerobic Anoxygenic Phototrophic Bacteria Attached to Particles in Turbid Waters of the Delaware and Chesapeake Estuaries , 2007, Applied and Environmental Microbiology.

[11]  N. Jiao,et al.  Abundant presence of the gamma-like Proteobacterial pufM gene in oxic seawater. , 2006, FEMS microbiology letters.

[12]  Yuesi Wang,et al.  Effect of free-air atmospheric CO2 enrichment on dark respiration of rice plants (Oryza sativa L.) , 2006 .

[13]  H. Nakahara,et al.  Variations in the microalgal structure in paddy soil in Osaka, Japan: comparison between surface and subsurface soils , 2006, Limnology.

[14]  N. Jiao,et al.  Real-time PCR for quantification of aerobic anoxygenic phototrophic bacteria based on pufM gene in marine environment , 2006 .

[15]  U. Rasmussen,et al.  Biodiversity and seasonal variation of the cyanobacterial assemblage in a rice paddy field in Fujian, China. , 2005, FEMS microbiology ecology.

[16]  J. V. van Elsas,et al.  The ecology of transfer of mobile genetic elements. , 2002, FEMS microbiology ecology.

[17]  Gang Liu,et al.  [Rice-wheat rotational FACE platform. I. System structure and control]. , 2002, Ying yong sheng tai xue bao = The journal of applied ecology.

[18]  Zbigniew S. Kolber,et al.  Contribution of Aerobic Photoheterotrophic Bacteria to the Carbon Cycle in the Ocean , 2001, Science.

[19]  M. Lieffering,et al.  Free-air CO2 enrichment (FACE) using pure CO2 injection: system description , 2001 .

[20]  K. Finster,et al.  Sulphate reduction and nitrogen fixation rates associated with roots, rhizomes and sediments from Zostera noltii and Spartina maritima meadows. , 2001, Environmental microbiology.

[21]  W. Liesack,et al.  Microbiology of flooded rice paddies. , 2000, FEMS microbiology reviews.

[22]  A. Lüscher,et al.  Yield response of Lolium perenne swards to free air CO2 enrichment increased over six years in a high N input system on fertile soil , 2000 .

[23]  P. Falkowski,et al.  Bacterial photosynthesis in surface waters of the open ocean , 2000, Nature.

[24]  C. Bauer,et al.  Molecular evidence for the early evolution of photosynthesis. , 2000, Science.

[25]  V. Yurkov,et al.  Aerobic Anoxygenic Phototrophic Bacteria , 1998, Microbiology and Molecular Biology Reviews.

[26]  A. Hiraishi,et al.  Horizontal transfer of genes coding for the photosynthetic reaction centers of purple bacteria , 1997, Journal of Molecular Evolution.

[27]  B. Griffiths,et al.  Effect of elevated CO2 on rhizosphere carbon flow and soil microbial processes , 1997 .

[28]  M. Schortemeyer,et al.  Soil microbial responses to increased concentrations of atmospheric CO2 , 1997 .

[29]  T. Bird,et al.  Regulatory Circuits Controlling Photosynthesis Gene Expression , 1996, Cell.

[30]  H. Ohta,et al.  Expression of the puf operon in an aerobic photosynthetic bacterium, Roseobacter denitrificans. , 1996, Plant & cell physiology.

[31]  M. Willig,et al.  Functional diversity of microbial communities: A quantitative approach , 1994 .

[32]  G. Alter,et al.  Bacteriochlorophyll and Photosynthetic Reaction Centers in Rhizobium Strain BTAi 1 , 1990, Applied and environmental microbiology.

[33]  K. Komagata,et al.  Protomonas, a New Genus of Facultatively Methylotrophic Bacteria , 1984 .

[34]  V. Yurkov.  Aerobic Phototrophic Proteobacteria , 2006 .

[35]  N. Jiao,et al.  Abundant presence of the c -like Proteobacterial pufM gene in oxic seawater , 2006 .

[36]  J. Beatty.  On the natural selection and evolution of the aerobic phototrophic bacteria , 2004, Photosynthesis Research.

[37]  R. Miller,et al.  Long-term effects of elevated atmospheric CO2 on below-ground biomass and transformations to soil organic matter in grassland , 2004, Plant and Soil.

[38]  P. Roger,et al.  Biology and management of the floodwater ecosystem in ricefields , 1996 .

[39]  K. Shimada.  Aerobic Anoxygenic Phototrophs , 1995 .

[40]  S V Krupa,et al.  Plant responses to atmospheric CO2 enrichment with emphasis on roots and the rhizosphere. , 1994, Environmental pollution.

[41]  N. Pfennig.  Photosynthetic bacteria. , 1967, Annual review of microbiology.