Microbial community biogeographic patterns in the rhizosphere of two Brazilian semi-arid leguminous trees

World Journal of Microbiology and Biotechnology

Volumn 29, Issue 7, 2013, Pages 1233-1241

  Lançoni, Milena Duarte ^a,b   Taketani, Rodrigo Gouvêa ^a   Kavamura, Vanessa Nessner ^a,b   de Melo, Itamar Soares ^a  

^a EMBRAPA CERRADOS   (Brazil)

^b UNIVERSITY OF SÃO PAULO   (Brazil)

Author keywords

amoA; Archaeal ammonium oxidizers; Archaeal community; Bacterial community; Drought; Rhizosphere; Semi arid; T RFLP

Indexed keywords

AMOA; ARCHAEAL; BACTERIAL COMMUNITY; RHIZOSPHERE; SEMI ARID; T-RFLP;

DROUGHT; FORESTRY; MICROORGANISMS; RNA; SOIL SURVEYS;

SOILS;

AMMONIA MONOOXYGENASE; OXIDOREDUCTASE; RNA 16S;

ARCHAEON; ARTICLE; BACTERIUM; BIOTA; BRAZIL; CLASSIFICATION; DESERT CLIMATE; DNA FINGERPRINTING; FABACEAE; GENETICS; MICROBIOLOGY; PHYLOGEOGRAPHY; PLANT ROOT; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RHIZOSPHERE; SEASON; TREE;

ARCHAEA; BACTERIA; BIOTA; BRAZIL; DESERT CLIMATE; DNA FINGERPRINTING; FABACEAE; OXIDOREDUCTASES; PHYLOGEOGRAPHY; PLANT ROOTS; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RHIZOSPHERE; RNA, RIBOSOMAL, 16S; SEASONS; SOIL MICROBIOLOGY; TREES;

BACTERIA; DROUGHT; FORESTRY; MICROORGANISMS; NUCLEIC ACIDS; SOIL;

ARCHAEA; BACTERIA (MICROORGANISMS); MIMOSA; MIMOSA TENUIFLORA; PIPTADENIA;

EID: 84879155315     PISSN: 09593993     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11274-013-1286-4     Document Type: Article

References (66)

1. Ab'sáber AN (2003) Os domínios da natureza no Brasil: potencialidades paisagísticas. 2nd edn. Ateliê Editorial, São Paulo.
2. Andrade L, Gonzaleza AM, Araujoa FV, Paranhos R (2003) Flow cytometry assessment of bacterioplankton in tropical marine environments. J Microbiol Meth 55: 841-850.
3. Andreote FD, Azevedo JL, Araújo WL (2009) Assessing the diversity of bacterial communities associated with plants. Braz J Microbiol 40: 417-432.
4. Azovsky AI (2002) Size-dependent species-area relationships in benthos: is the world more diverse for microbes? Ecography 25: 273-282.
5. Baas-Becking LGM (1934) Geobiologie of inleiding tot de milieukunde. van Stockum and Zoon, The Hague.
6. Bachar A, Al-Ashhab A, Soares MI, Sklarz MY, Angel R, Ungar ED, Gillor O (2010) Soil Microbial Abundance and Diversity Along a Low Precipitation Gradient. Microbiol Ecol 60: 453-461.
7. Bais HP, Weir TL, Perry LG, Gilroy S, Vivanco JM (2006) The role of root exudates in rhizosphere interactions with plants and other organisms. Annu Rev Plant Biol 57: 233-266.
8. Baldwin DS, Mitchell AM (2000) The effects of drying and re-flooding on sediment and soil nutrient dynamics of lowland river-floodplain systems: a synthesis. Regul Rivers 16: 457-467.
9. Belay-Tedla A, Zhou X, Su B, Wan S, Luo Y (2009) Labile, recalcitrant, and microbial carbon and nitrogen pools of a tallgrass prairie soil in the US Great Plains subjected to experimental warming and clipping. Soil Biol Biochem 41: 110-116.
10. Beveridge TJ, Hughes MN, Lee H, Leung KT, Poole RK, Savvaides I, Silver S, Trevors JT (1997) Metal-microbe interactions: contemporary approaches. Adv Microbiol Physiol 38: 177-243.
11. Bonilla I, Garcia-Gonzalez M, Mateo P (1990) Boron requirement in cyanobacteria. Plant Physiol 94: 1554-1560.
12. Burd GI, Dixon DG, Glick BR (2000) Plant growth-promoting bacteria that decrease heavy metal toxicity in plants. Can J Microbiol, Ottawa 46(3): 237-245.
13. Casamayor EO, Massana R, Benlloch S, Øvreås L, Díez B, Goddard VJ, Gasol JM, Joint I, Rodríguez-Valera F, Pedrós-Alió C, et al (2002) Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern [Internet]. Environ Microbiol 4: 338-348.
14. Collins SL, Sinsabaugh RL, Crenshaw C, Green L, Porras-Alfaro A, Stursova M, Zeglin LH (2008) Pulse dynamics and microbial processes in aridland ecosystems. J Ecol 96: 413-420.
15. Curtis TP, Head IM, Lunn M, Woodcock S, Schloss PD, Sloan WT (2006) What is the extent of prokaryotic diversity? Philos Trans R Soc Lond B Biol Sci 361: 2023-2037.
16. Dunitz J, Hawley D, Miklos D, White D, Berlin Y, Marusic R, Prelog V (1971) Structure of boromycin. Helv Chim Acta 54: 1709-1713.
17. Easterling D, Meehl GA, Parmesan C, Changnon SA, Karl TR, Mearns LO (2000) Climate extremes: observations, modeling, and impacts. Science 289: 2068-2074.
18. Edwards U, Rogall T, Blocker H, Emde M, Bottger EC (1989) Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 17: 7843-7853.
19. Ettema CH, Wardle DA (2002) Spatial soil ecology. Trends Ecol Evol 17: 177-183.
20. Fierer N, Jackson RB (2006) The diversity and biogeography of soil bacterial communities. P Natl Acad Sci USA, Washington 103: 626-631.
21. Fierer N, Schimel JP, Holden PA (2003) Influence of drying-rewetting frequency on soil bacterial community structure. Microb Ecol 45: 63-71.
22. Foissner W (2008) Protist diversity and distribution: some basic considerations. Biodivers Conserv 17: 235-242.
23. Francis CA, Roberts KJ, Beman JM, Santoro AEE, Oakley BBB (2005) Ubiquity and diversity of ammoniaoxidizing archaea in water columns and sediments of the ocean [Internet]. Proceedings of the National Academy of Sciences of the United States of America 102: 14683.
24. Glick BR (1995) The enhancement of plant growth by free-living bacteria. Can J Microbiol, Ottawa 41: 109-117.
25. Gyaneshwar P, Kumar GN, Parekh LJ, Poole PS (2002) Role of soil microorganisms in improving P nutrition of plants. Plant Soil, The Hague 245: 83-93.
26. Hewson I, Fuhrman JA (2004) Richness and diversity of bacterioplankton species along an estuarine gradient in Moreton Bay, Australia. Appl Environ Microb 70: 3425-3433.
27. Horner-Devine MC, Lage M, Hughes JB, Bohannan BJM (2004) A taxa-area relationship for bacteria. Nature 432: 750-753.
28. Irschik H, Schummer D, Gerth K, Hofle G, Reichenbach H (1995) The tartrolons, new boron-containing antibiotics from a myxobacterium, Sorangium cellulosum. J Antibiot 48: 26-30.
29. Jesus EC, Marsh TL, Tiedje JM, Moreira FMS (2009) Changes in land use alter structure of bacterial communities in Western Amazon soils. ISME J Heteren 3: 1004-1011.
30. Kemnitz D, Kolb S, Conrad R (2007) High abundance of Crenarchaeota in a temperate acidic forest soil. FEMS Microbiol Ecol 60: 442-448.
31. Leal IR, Tabarelli M, Silva JMC da (2005) Ecologia e conservação da caatinga. 2nd edn. Recife, Universitária da UFPE 822.
32. Le Houerou HN (1996) Climate change, drought and desertification. J Arid Environ 34: 133-185.
33. Lindberg N, Bengtsson J, Persson T (2002) Effects of experimental irrigation and drought on the composition and diversity of soil fauna in a coniferous stand. J Appl Ecol 39: 924-936.
34. Liu W, Zhang Z, Wan S (2009) Predominant role of water in regulating soil and microbial respiration and their responses to climate change in a semiarid grassland. Glob Change Biol 15: 184-195.
35. Locey KJ (2010) Synthesizing traditional biogeography with microbial ecology: the importance of dormancy. J Biogeogr 37: 1835-1841.
36. Lynch J, Hobbie JE (1988) Micro-organisms action: concepts and applications in microbial ecology, 2nd edn. Blackwell, Oxford.
37. Marshall BJ, Armstrong JA, Francis GJ, Nokes NT, Wee SH (1987) Antibacterial action of bismuth in relation to Campylobacter pyloridis colonization and gastritis. Digestion 37(Suppl. 2): 16-30.
38. Martiny JBH, Bohannan BJM, Brown JH, Colwell RK, Fuhrman JA, Green JL, Horner-Devine MC, Kane M, Krumins JA, Kuske CR, Morin PJ, Naeem S, Øvreås L, Reysenbach A, Smith VH, Staley JT (2006) Microbial biogeography: putting microorganisms on the map. Nat Rev 4: 102-112.
39. Mendes LW (2009) Análise molecular das estruturas e diversidade de comunidades microbianas em solo de manguezal preservado da Ilha do Cardoso-SP. Thesis (Master), Piracicaba.
40. Nielsen UN, Osler GHR, Campbell CD, Burslem DFRP, van der Wal R (2010) The influence of vegetation type, soil properties and precipitation on the composition of soil mite and microbial communities at the landscape scale. J Biogeogr 37: 1317-1328.
41. Nozela EF (2006) Valor Nutricional De Espécies Arbóreo-Arbustivas nativas da caatinga e utilização de tratamentos físico-químicos para redução do teor de taninos. Thesis (Doctor) - Centro de Energia Nuclear na Agricultura, Universidade de São Paulo, Piracicaba.
42. O'Malley MA. (2008) 'Everything is everywhere: but the environment selects': ubiquitous distribution and ecological determinism in microbial biogeography. Stud Hist Philos Biol Biomed Sci 39: 314-325.
43. O'Neill M, Eberhard S, Albersheim P, Darvill A (2001) Requirement of borate cross-linking of cell wall rhamnogalacturonan II for Arabidopsis growth. Science 294: 846-849.
44. Ochsenreiter T, Selezi D, Quaiser A, Bonch-Osmolovskaya L, Schelper C (2003) Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR. Environ Microbiol 7(12): 1967-1984.
45. Pedrós-Alió C (2006) Marine microbial diversity: can it be determined? Trends Microbiol 14: 257-263.
46. Pointing SB, Belnap J (2012) Microbial colonization and controls in dryland systems. Nature Reviews 10: 551-562.
47. Queiroz LP (2006) Leguminosas da Caatinga. Universidade Estadual de Feira de Santana 913.
48. Quispel A (1998) Lourens GM Baas Becking (1985-1963). Inspirator for many (micro)biologists. Int Microbiol 1: 69-72.
49. Ramette A, Tiedje JM (2007) Multiscale responses of microbial life to spatial distance and environmental heterogeneity in a patchy ecosystem. Proc Natl Acad Sci USA 104: 2761-2766.
50. Rinnan R, Michelsen A, Bååth E, Jonasson S (2007) Fifteen years of climate change Manipulations alter soil microbial communities in a subarctic heath ecosystem. Glob Change Biol 13: 28-39.
51. 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 [Internet]. App Environ Microbiol 63: 4704-4712.
52. Schimel J, Balser TC, Wallenstein MD (2007) Microbial stress-response physiology and its implications for ecosystem function. Ecology 88: 1386-1394.
53. Seager R, Ting M, Held I, Kushnir Y et al (2007) Model of an imminent transition to a more arid climate in southwestern North America. Science 316: 1181-1184.
54. Servais P, Casamayor EO, Courties C, Catala P, Parthuisot N, Lebaron P (2003) Activity and diversity of bacterial cells with high and low nucleic acid content. Aquat Microb Ecol 33: 41-51.
55. Silva JMC, Tabarelli MT, Fonseca MT, Lins LV (2004): Biodiversidade da caatinga: áreas e ações prioritárias para conservação. Ministério do Meio Ambiente.
56. Stark JM, Firestone MK (1995) Mechanisms for soil-moisture effects on activity of nitrifying bacteria. Appl Environ Microbiol 61: 218-221.
57. Thatcher R (1934) A proposed classification of the chemical elements with respect to their function in plant nutrition. Science 79: 463-466.
58. Tinker PB (1984) The role of microorganisms in mediating and facilitating the uptake of plant nutrients from soil. Plant Soil, The Hague 76(1/3): 77-91.
59. Trovão DMB, Fernandes PD, de Andrade LA, Neto JD (2007) Variações sazonais de aspectos fisiológicos de espécies da Caatinga. Rev Bras Eng Agríc Amb 11: 307-311.
60. Veblen TT, Young KR, Orme AR (2007) The physical geography of South America. Oxford University Press: New York.
61. Vieira RP, Clementino MM, Cardoso AM, Oliveira DN, Albano RM, Gonzalez, AM, Paranhos R, Martins OB (2007) Archaeal communities in a tropical estuarine ecosystem: Guanabara Bay, Brazil. Microbial Ecol 54(3): 460-468.
62. Wardle D (2006) The influence of biotic interactions on soil biodiversity. Ecol Lett 9: 870-886.
63. Williams MA, Rice CW (2007) Seven years of enhanced water availability influences the physiological, structural, and functional attributes of a soil microbial community. Appl Soil Ecol 35: 535-545.
64. Yair A, Veste M, Almog R, Breckle SW (2008) Sensitivity of a sandy area to climate change along a rainfall gradient at a desert fringe. Arid Dune Ecosystems - The Nizzana Sands in the Negev Desert, Ecol Stud Series, Springer, Berlin. 200: 425-440.
65. Yang Z, Hayakawa T, Inoue N (2008) Methane emission peak observed at predawn in tropical paddy field: a case study of Hainan Island, China. Journal of the Faculty of Agriculture Shinshu University, Japan 01(44).
66. Zhang W, Parker KM, Luo Y, Wan S, Wallace LL, Hu S (2005) Soil microbial responses to experimental warming and clipping in a tallgrass prairie. Glob Change Biol 11: 266-277.