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Prokaryotic Community Profiles of Soils from Mayon Volcano, Philippines Based on 16S Ribosomal RNA Gene Sequences

Kristel Mae DL. Perdigon, Asuncion K. Raymundo, Rina B. Opulencia

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J. Bio. Env. Sci.8(4), 221-230, April 2016


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Mayon Volcano is the Philippines’ most active volcano. Despite extensive pedological, ecological and ethnobotanical studies, no published information is known about its soil microflora. In this study, to determine the microbial community profiles, 16S rRNA gene was amplified and sequenced from genomic DNA isolated from volcanic soils collected from altitudinal gradients of Mayon Volcano. Phylogenetic analyses revealed 10 bacterial phyla, including an unclassified group, with Acidobacteria (40.6%) as the most dominant phylum. Archaea were distributed into three phyla and an unclassified archaeal group (53.9%), which comprised the majority. The composition of the prokaryotic community suggests roles in the cycling of organic and inorganic nutrients in Mayon Volcano ecosystem. At p<0.1, soil pH and organic matter content showed significant correlation with species richness of Archaea and diversity of Bacteria. In contrast, altitude, soil temperature and soil moisture content showed no significant influence on the composition and distribution of microorganisms in Mayon Volcano. This study provides the first known information on the prokaryotic composition of Mayon Volcano, including the soil properties that influence the structuring of these communities.


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Prokaryotic Community Profiles of Soils from Mayon Volcano, Philippines Based on 16S Ribosomal RNA Gene Sequences

Aberin VG. 2004. Pedological Characterizations of Soils in Mount Mayon, Albay, Philippines (Unpublished MSc thesis). University of the Philippines Los Baños, Laguna, Philippines.

Andrew DR, Fitak RR, Munguia-Vega A, Racolta A, Martinson VG, Dontsova K. 2012. Abiotic factors shape microbial diversity in Sonoran Desert soils. Applied and Environmental Microbiology 78, 217527-7537.

Barns SM, Fundyga RE, Jeffries MW,Pace NR. 1994. Remarkable archaeal diversity detected in a Yellowstone National Park hot-spring environment. Proceedings of the National Academy of Sciences 91, 1609–1613.

Barns SM, Cain EC, Sommerville L, Kuske CR. 2007.Acidobacteria Phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum. Applied and Environmental Microbiology 73, 3113-3116.

Bengtson P, Sterngren AE, Rousk J. 2012. Archaeal abundance across a pH gradient in an arable soil and its relationship to bacterial and fungal growth rates. Applied and Environmental Microbiology 78, 5906–5911.

Buot IE Jr. 2009. An ethnobotanical study of the plant biodiversity of Mt. Mayon, BicolPeninsula, Albay, Philippines. Journal of Nature Studies 8, 1-10.

Crits-Christoph A, Robinson CK, Barnum T, Fricke WF, Davila AF, Jedynak B, McKay CP, Diruggiero J. 2013. Colonization patterns of soil microbial communities in the Atacama Desert. Microbiome 1, 28.

Dayao AE. 1994. Morphostructure and hazard implication in Mount Mayon Philippines: A GIS-assisted volcanic study hazards study (Unpublished MSci thesis). University of the Philippines Los Baños, Laguna, Philippines.

DeLong EF. 1992. Archaea in coastal marine environments. Proceedings of the National Academy of Sciences, 89, 5685–5689.

Desantis TZ, Brodie EL, Moberg JP, Zubieta IX, Piceno YM, Andersen GL. 2007. High-density universal 16S rRNA microarray analysis reveals broader diversity than typical clone library when sampling the environment. Microbial Ecology 53, 371–383.

Faoro H, Alves AC, Souza EM, Rigo LU, Cruz LM, Al-Janabi SM, Monteiro RA, Baura VA, Pedrosa FO. 2010. Influence of soil characteristics on the diversity of bacteria in the Southern Brazilian Atlantic Forest. Applied and Environmental Microbiology 76, 4744–4749.

Fierer N, Jackson RB. 2006. The diversity and biogeography of soil bacterial communities. Proceedings of National Academy Sciences 103, 626–631.

Fierer N, Mccain CM, Meir P, Zimmermann M, Rapp JM, Silman MR, Knight R. 2011. Microbes do not follow the elevational diversity patterns of plants and animals. Ecology 92, 797-804.

Francis CA, Beman JM, Kuypers MM. 2007. New processes and players in the nitrogen cycle: the microbial ecology of anaerobic and archaeal ammonia oxidation. International Society for Microbial Ecology Journal 1, 19-27.

García-Fraile P, Benada O, Cajthaml T, Baldrian P, Lladó S. 2015. Terracidiphilus gabretensis gen. nov., sp. nov., an abundant and active forest soil Acidobacterium important in organic matter transformation. Applied and Environmental Microbiology 82, 560-569.

Geyer KM, Altrichter AE, Takacs-Vesbach CD, Van Horn DJ, Gooseff MN, Barrett JE. 2014. Bacterial community composition of divergent soil habitats in a polar desert. Federation of European Microbiological Societies Microbial Ecology 89, 490-494.

Greening C, Carerec CR, Rushton-Greena R, Harolda LK, Hardsa K,Taylor MC, Morales SE, Stott MB, Cook GM. 2015. Persistence of the dominant soil phylum Acidobacteria by trace gas scavenging. Proceedings of the National Academy of Sciences 112, 10497–10502.

Hill TCJ, Walsh KA, Harris JA, Moffett BF. 2003. Using ecological diversity measures with bacterial communities. Federation of European Microbiological Societies Microbiology Ecology 43, 1–11.

Janssen PH. 2006. Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Applied and Environmental Microbiology 72, 1719–1728.

Kirk JL, Beaudette LA, Hart M, Moutoglis P, Klironomos JN, Lee H, Trevors JT. 2004. Methods of studying soil microbial diversity. Journal of Microbiological Methods 58, 169–188.

Kowalchuk GA, Stephen JA. 2001. Ammonia-oxidizing bacteria: a model for molecular microbial ecology. Annual Review of Microbiology55, 485–529.

Lane DJ. 1991. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M, Ed. Nucleic acid techniques in bacterial systematics. John Wiley & Sons, Ltd. Chichester, England, 115–175.

Lladó S, Benada O, Cajthaml T, Baldrian P, García-Fraile P. 2015. Silvibacterium bohemicum gen. nov. sp. nov., an acidobacterium isolated from coniferous soil in the Bohemian Forest National Park. Systematic and Applied Microbiology 39, 14-19.

Lima-Perim JE, Romagnoli EM, Dini-Andreote F, Durrer A, Cavalcante A, Dias F, Dini Andreote F. 2016. Linking the composition of bacterial and Archaeal communities to characteristics of soil and flora composition in the Atlantic rainforest. PLOS ONE 11,1-19.

McLaughlin DJ, Hibbett DS, Lutzoni F, Spatafora JW, Vilgalys R. 2009. The search for the fungal tree of life. Trends in Microbiology 17, 488-497.

Nannipieri P, Ascher J, Ceccherini MT, Landi L, Pietramellara G, Renella G. 2003. Microbial diversity and soil functions. European Journal of Soil Science54,655–670.

Nicol GW, Leininger S, Schleper C, ProsserJI. 2008. The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidizing archaea and bacteria. Environmental Microbiology 10, 2966–2978.

Reysenbach AL, Wickham G, Pace N. 1994. Phylogenetic analysis of the hyperthermophilic pink filament community in Octopus Spring, Yellowstone National Park. Applied and Environmental Microbiology 60, 2113–2119.

Saitou N, Nei M.1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution4, 406-425.

Santos EC, Armas ED, Crowley D, Lambais MR. 2014. Artificial neural network modeling of microbial community structures in the Atlantic Forest of Brazil. Soil Biol Biochem 69, 101–109.

Shen C, Xiong J, Zhang H, Feng Y, Lin X, Li X. 2013. Soil pH drives the spatial distribution of bacterial communities along elevation on Changbai mountain. Soil Biology and Biochemistry 57, 204– 211.

Siles JA, Cajthaml T, Minerbi S, Margesin R. 2016. Effect of altitude and season on microbial activity, abundance and community structure in Alpine forest soils. Federation of European Microbiological Societies Microbial Ecology 92.

Singh D, Takahashi K, Kim M, Chun J, Adams JM. 2012. A hump-backed trend in bacterial diversity with elevation on Mount Fuji, Japan. Microbial Ecology 63, 429-37.

Stackebrandt E, Liesack W. 1993. Nucleic acids and classification. In Goodfellow M, O’Donnell AG, Eds. Handbook of New Bacterial Systematics. Academic Press, London. 152–189.

Trasar-Cepeda C, Leiros C, Gil-Sotres F, Seoane S. 1998. Towards a biochemical quality index for soils: An expression relating several biological and biochemical properties. Biology and Fertility of Soils26, 100-106.

Tripathi BM, Kim M, Singh D, Lee-Cruz L, Lai-Hoe A, Ainuddin AN, Go R, Abdul Rahim R, Husni MHA, Chun J, Adams JM. 2012. Tropical soil bacterial communities in Malaysia: pH dominates in the equatorial tropics too. Microbial Ecology 64, 474–484.

Tripathi BM, Kim M, Lai-Hoe A, Shukor NA, Rahim RA, Go R, Adams, JM. 2013. pH dominates variation in tropical soil archaeal diversity and community structure. Federation of European Microbiological Societies Microbial Ecology 86, 303– 311.

Tamura K, Stecher G, Peterson D. Filipski A, Kumar S. 2013. MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0. Molecular Biology and Evolution 30, 2725- 2729.

Whitman WB, Coleman DC, Wiebe WJ. 1998. Prokaryotes: The unseen majority. Proceedings National Academy of Science USA95, 6578–6583.

Zhang LM, Wang M, Prosser JI, Zheng YM, He JZ. 2009. Altitude ammonia-oxidizing bacteria and archaea in soils of Mount Everest. Federation of European Microbiological Societies Microbiology Ecology 70, 208–217.

Zhang CL, Xie W, Martin-Cuadrado AB, Rodriguez-Valera F. 2015. Marine Group II Archaea, potentially important players in the global ocean carbon cycle. Frontiers in Microbiology 6,1-9.


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