Sự thay đổi trong thành phần cộng đồng vi khuẩn do tiếp xúc lâu dài với niken nhưng không ảnh hưởng đến đa dạng sinh học trong hai loại đất nông nghiệp đối lập

Springer Science and Business Media LLC - Tập 22 - Trang 10496-10505 - 2015
Jing Li1,2, Hang-Wei Hu3, Yi-Bing Ma4, Jun-Tao Wang1,2, Yu-Rong Liu1, Ji-Zheng He1,3
1State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China
2University of Chinese Academy of Sciences, Beijing, China
3Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Parkville, Australia
4National Soil Fertility and Fertilizer Effects Long-term Monitoring Network, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China

Tóm tắt

Ô nhiễm niken gây ra những tác động tiêu cực đến hệ sinh thái đất. Phản ứng của vi sinh vật trong đất đối với ô nhiễm niken lâu dài trong điều kiện thực địa vẫn còn phần lớn chưa được biết đến. Trong nghiên cứu này, chúng tôi đã sử dụng phương pháp giải trình tự cao thông lượng để làm rõ tác động của ô nhiễm niken lâu dài đến các cộng đồng vi khuẩn trong đất ở hai loại đất nông nghiệp khác nhau. Kết quả cho thấy rằng cacbon sinh khối vi sinh vật trong đất liên tục giảm dọc theo các gradient niken ở cả hai loại đất. Ô nhiễm niken chọn lọc ủng hộ hoặc cản trở sự hiện diện của một số hội nhóm vi khuẩn thống trị nhất định, đặc biệt là Actinobacteria cho thấy khả năng chịu đựng, trong khi Acidobacteria và Planctomycetes thể hiện sự nhạy cảm. Mặc dù có sự thay đổi rõ rệt trong thành phần cộng đồng vi khuẩn, nhưng không có xu hướng rõ ràng nào về sự đa dạng và độ phong phú của vi khuẩn được xác định dọc theo các gradient niken ở cả hai loại đất. Tóm lại, chúng tôi cung cấp bằng chứng rằng ô nhiễm niken lâu dài đã làm thay đổi các cộng đồng vi khuẩn trong đất, dẫn đến sự giảm sinh khối vi sinh vật mặc dù đa dạng vi khuẩn không thay đổi đáng kể.

Từ khóa

#ô nhiễm niken #cộng đồng vi khuẩn #vi sinh vật đất #cacbon sinh khối #đa dạng sinh học

Tài liệu tham khảo

Adamo P, Dudka S, Wilson MJ, McHardy WJ (1996) Chemical and mineralogical forms of Cu and Ni in contaminated soils from the Sudbury mining and smelting region Canada. Environ Pollut 91:11–19 Ager D, Evans S, Li H, Lilley AK, van der Gast CJ (2010) Anthropogenic disturbance affects the structure of bacterial communities. Environ Microbiol 12:670–678 Awasthi A, Singh M, Soni SK, Singh R, Kalra A (2014) Biodiversity acts as insurance of productivity of bacterial communities under abiotic perturbations. ISME J 8:2445–2452 Bååth E, Frostegård Å, Pennanen T, Fritze H (1995) Microbial community structure and pH response in relation to soil organic matter quality in wood-ash fertilized, clear-cut or burned coniferous forest soils. Soil Biol Biochem 27:229–240 Bardgett RD, Lovell RD, Hobbs PJ, Jarvis SC (1999) Seasonal changes in soil microbial communities along a fertility gradient of temperate grasslands. Soil Biol Biochem 31:1021–1030 Bates ST, Berg-Lyons D, Caporaso JG, Walters WA, Knight R, Fierer N (2011) Examining the global distribution of dominant archaeal populations in soil. ISME J 5:908–917 Berg J, Brandt KK, Al-Soud WA, Holm PE, Hansen LH, Sørensen SJ, Nybroe O (2012) Selection for Cu-tolerant bacterial communities with altered composition, but unaltered richness, via long-term Cu exposure. Appl Environ Microbiol 78:7438–7446 Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK et al (2010a) QIIME allows analysis of high-throughput community sequencing data. Nat Methods 7:335–336 Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen GL, Knight R (2010b) PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics 26:266–267 Cempel M, Nikel G (2006) Nickel: a review of its sources and environmental toxicology. Polish J of Environ Stud 15:375–382 Chen X, Zhang LM, Shen JP, Xu ZH, He JZ (2010) Soil type determines the abundance and community structure of ammonia-oxidizing bacteria and archaea in flooded paddy soils. J Soil Sediment 10:1510–1516 Edgar RC (2013) UPARSE: highly accurate OTU sequences from microbial amplicon reads. Nat Methods 10:996–998 Falkowski PG, Fenchel T, Delong EF (2008) The microbial engines that drive Earth’s biogeochemical cycles. Science 320:1034–1039 Field D, Tiwari B, Booth T, Houten S, Swan D, Bertrand N, Thurston M (2006) Open software for biologists: from famine to feast. Nat Biotechnol 24:801–804 Fierer N, Jackson RB (2006) The diversity and biogeography of soil bacterial communities. PNAS 103:626–631 Fierer N, Schimel JP, Holden PA (2003) Influence of drying–rewetting frequency on soil bacterial community structure. Microb Ecol 45:63–71 Fierer N, Ladau J, Clemente JC, Leff JW, Owens SM, Pollard KS, Knight R, Gilbert JA, McCulley RL (2013) Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the united states. Science 342:621–624 Fuerst JA, Sagulenko E (2011) Beyond the bacterium: Planctomycetes challenge our concepts of microbial structure and function. Nat Rev 9:403–413 Giller KE, Witter E, McGrath SP (1998) Toxicity of heavy metals to microorganisms and microbial processes in agricultural soils: a review. Soil Biol Biochem 30:1389–1414 Griffiths BS, Philippot L (2012) Insights into the resistance and resilience of the soil microbial community. FEMS Microbiol Rev 37:112–129 Guo XY, Zuo YB, Wang BR, Li JM, Ma YB (2010) Toxicity and accumulation of copper and nickel in maize plants cropped on calcareous and acidic field soils. Plant Soil 333:365–373 Haferburg G, Kothe E (2007) Microbes and metals: interactions in the environment. J Basic Microbiol 47:453–467 He JZ, Shen JP, Zhang LM, Zhu YG, Zheng YM, Xu MG, Di HJ (2007) Quantitative analyses of the abundance and composition of ammonia-oxidizing bacteria and ammonia-oxidizing archaea of a Chinese upland red soil under long-term fertilization practices. Environ Microbiol 9:2364–2374 He JZ, Zheng Y, Chen CR, He YQ, Zhang LM (2008) Microbial composition and diversity of an upland red soil under long-term fertilization treatments as revealed by culture-dependent and culture-independent approaches. J Soil Sediment 8:349–358 He JZ, Ge Y, Xu ZH, Chen CR (2009) Linking soil bacterial diversity to ecosystem multifunctionality using backward-elimination boosted tree analysis. J Soil Sediment 9:547–554 He JZ, Hu HW, Zhang LM (2012) Current insights into the autotrophic thaumarchaeal ammonia oxidation in acidic soils. Soil Biol Biochem 55:146–154 Héry M, Nazaret S, Jaffré T, Normand P, Navarro E (2003) Adaptation to nickel spiking of bacterial communities in neocaledonian soils. Environ Microbiol 5:3–12 Hu HW, Zhang LM, Dai Y, Di HJ, He JZ (2013) pH-dependent distribution of soil ammonia oxidizers across a large geographical scale as revealed by high-throughput pyrosequencing. J Soil Sediment 13:1439–1449 Hu HW, Xu ZH, He JZ (2014) Ammonia-oxidizing archaea play a predominant role in acid soil nitrification. Adv Agron 125:261–302 Jones RT, Robeson MS, Lauber CL, Hamady M, Knight R, Fierer N (2009) A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses. ISME J 3:442–453 Khan S, Hesham AE, Qiao M, Rehman S, He JZ (2010) Effects of Cd and Pb on soil microbial community structure and activities. Environ Sci Pollut Res 17:288–296 Lauber CL, Hamady M, Knight R, Fierer N (2009) Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale. Appl Environ Microbiol 75:5111–5120 Lejon DPH, Pascault N, Ranjard L (2010) Differential copper impact on density, diversity and resistance of adapted culturable bacterial populations according to soil organic status. Eur J Soil Biol 46:168–174 Li J, Zheng YM, Liu YR, Ma YB, Hu HW, He JZ (2014) Initial copper stress strengthens the resistance of soil microorganisms to a subsequent copper stress. Microb Ecol 67:931–941 Liu YR, Zheng YM, Shen JP, Zhang LM, He JZ (2010) Effects of mercury on the activity and community composition of soil ammonia oxidizers. Environ Sci Pollut Res 17:1237–1244 Ma YB, Lombi E, Oliver IW, Nolan AL, Mclaughlin MJ (2006) Long-term aging of copper added to soils. Environ Sci Technol 40:6310–6317 Macdonald CA, Singh BK, Peck JA, van Schaik AP, Hunter LC, Horswell J, Campbell CD, Speir TW (2007) Long-term exposure to Zn-spiked sewage sludge alters soil community structure. Soil Biol Biochem 39:2576–2586 Macdonald CA, Clark IM, Zhao FJ, Hirsch PR, Singh BK, McGrath SP (2011) Long-term impacts of zinc and copper enriched sewage sludge additions on bacterial, archaeal and fungal communities in arable and grassland soils. Soil Biol Biochem 43:932–941 Magoè T, Salzberg SL (2011) FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics 27:2957–2963 Marcina C, Marcin G, Justynac M, Katarzynac K, Mariac N (2013) Diversity of microorganisms from forest soils differently polluted with heavy metals. Appl Soil Ecol 64:7–14 McDonald D, Price MN, Goodrich J, Nawrocki EP, DeSantis TZ, Probst A, Andersen GL, Knight R, Hugenholtz P (2011) An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J 6:610–618 Mirete S, de Figueras CG, González-Pastor JE (2007) Novel nickel resistance genes from the rhizosphere metagenome of plants adapted to acid mine drainage. Appl Environ Microbiol 73:6001–6011 Shen JP, Xu ZH, He JZ (2014) Frontiers in the microbial processes of ammonia oxidation in soils and sediments. J Soil Sediment 14:1023–1029 Singh BK, Quince C, Macdonald CA, Khachane A, Thomas N, Al-Soud WA, Sørensen SJ, He ZL, White D, Sinclair A, Crooks B, Zhou JZ, Campbell CD (2014) Loss of microbial diversity in soils is coincident with reductions in some specialized functions. Environ Microbiol 16:2408–2420 Suzuki MT, Taylor LT, DeLong EF (2000) Quantitative analysis of small-subunit rRNA genes in mixed microbial populations via 5’-nuclease assays. Appl Environ Microbiol 66:4605–4614 Trivedi P, Anderson IC, Singh BK (2013) Microbial modulators of soil carbon storage: integrating genomic and metabolic knowledge for global prediction. Trends Microbiol 21:614–651 Wakelin SA, Chu GX, Lardner R, Liang YC, McLaughlin MJ (2010) A single application of Cu to field soil has long term effects on bacterial community structure, diversity, and soil processes. Pedobiologia 53:149–158 Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73:5261–5267 Wittebolle L, Marzorati M, Clement L, Balloi A, Daffonchio D, Heylen K, Vos PD, Verstraete W, Boon N (2009) Initial community evenness favours functionality under selective stress. Nature 458:623–626 Wu JS, Joergensen RG, Pommerening B (1990) Measurement of soil microbial biomass C by fumigation-extraction-an automated procedure. Soil Biol Biochem 22:1167–1169 Yang GY, Luo W, Zhang TB, Wan HF, Gao YX (2007) The distribution of Ni contents in agricultural soils in the Pearl River Delta, China. Ecol Environ 16:818–821 (in Chinese)