Soil Microbial Abundance and Diversity Along a Low Precipitation Gradient

Microbial Ecology

Volumn 60, Issue 2, 2010, Pages 453-461

  Bachar, Ami ^a   Al Ashhab, Ashraf ^a   Soares, M Ines M ^a   Sklarz, Menachem Y ^a   Angel, Roey ^b   Ungar, Eugene D ^c   Gillor, Osnat ^a  

^a BEN GURION UNIVERSITY OF THE NEGEV   (Israel)

^b MAX PLANCK INSTITUTE FOR TERRESTRIAL MICROBIOLOGY   (Germany)

^c VOLCANI CENTER   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; PHOSPHOLIPID; RAIN; WATER;

ARTICLE; BACTERIUM; BIODIVERSITY; CLASSIFICATION; CLIMATE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; PH; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SALINITY; SOIL; SOUTHERN EUROPE;

BACTERIA; BIODIVERSITY; CLIMATE; DNA, BACTERIAL; HYDROGEN-ION CONCENTRATION; MEDITERRANEAN REGION; PHOSPHOLIPIDS; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RAIN; SALINITY; SOIL; SOIL MICROBIOLOGY; WATER;

ANIMALIA; BACTERIA (MICROORGANISMS);

EID: 77956881490     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-010-9727-1     Document Type: Article

References (44)

1. Lomolino MV (2005) Body size evolution in insular vertebrates: generality of the island rule. J Biogeogr 32: 1683-1699.
2. Gentry AH (1982) Patterns of neotropical plant-species diversity. Evol Biol 15: 1-85.
3. Heaney LR (2001) Small mammal diversity along elevational gradients in the Philippines: an assessment of patterns and hypotheses. Glob Ecol Biogeogr 10: 15-39.
4. McCoy ED (1990) The distribution of insect along elevational gradients. Oikos 58: 313-322.
5. Terborgh J (1977) Bird species-diversity on an Andean elevational gradient. Ecology 58: 1007-1019.
6. Usher MB, Sier ARJ, Hornung M, Millard P (2006) Understanding biological diversity in soil: the UK's Soil Biodiversity Research Programme. Appl Soil Ecol 33: 101-113.
7. Navarro-Gonzalez R, Rainey FA, Molina P, Bagaley DR, Hollen BJ, de la Rosa J, Small AM, Quinn RC, Grunthaner FJ, Caceres L, Gomez-Silva B, McKay CP (2003) Mars-like soils in the Atacama Desert, Chile, and the dry limit of microbial life. Science 302: 1018-1021.
8. Zhou JZ, Xia BC, Huang H, Palumbo AV, Tiedje JM (2004) Microbial diversity and heterogeneity in sandy subsurface soils. Appl Environ Microbiol 70: 1723-1734.
9. Chan OC, Yang XD, Fu Y, Feng ZL, Sha LQ, Casper P, Zou XM (2006) 16S rRNA gene analyses of bacterial community structures in the soils of evergreen broad-leaved forests in south-west China. FEMS Microbiol Ecol 58: 247-259.
10. Fierer N, Jackson RB (2006) The diversity and biogeography of soil bacterial communities. Proc Natl Acad Sci U S A 103: 626-631.
11. Green J, Bohannan BJM (2006) Spatial scaling of microbial biodiversity. Trends Ecol Evol 21: 501-507.
12. Vishniac HS (2006) A multivariate analysis of soil yeasts isolated from a latitudinal gradient. Microb Ecol 52: 90-103.
13. Zhou J, Xia B, Treves DS, Wu LY, Marsh TL, O'Neill RV, Palumbo AV, Tiedje JM (2002) Spatial and resource factors influencing high microbial diversity in soil. Appl Environ Microbiol 68: 326-334.
14. Fierer N, Bradford MA, Jackson RB (2007) Toward an ecological classification of soil bacteria. Ecology 88: 1354-1364.
15. Yergeau E, Newsham KK, Pearce DA, Kowalchuk GA (2007) Patterns of bacterial diversity across a range of Antarctic terrestrial habitats. Environ Microbiol 9: 2670-2682.
16. Fierer N, Strickland MS, Liptzin D, Bradford MA, Cleveland CC (2009) Global patterns in belowground communities. Ecol Lett 12: 1238-1249.
17. Angel R, Soares MIM, Ungar ED, Gillor O (2009) Biogeography of soil archaea and bacteria along a steep precipitation gradient. ISME J 4: 553-563.
18. Egert M, Friedrich MW (2003) Formation of pseudo-terminal restriction fragments, a PCR-related bias affecting terminal restriction fragment length polymorphism analysis of microbial community structure. Appl Environ Microbiol 69: 2555-2562.
19. Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, Tiedje JM (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: D141-D145.
20. Shyu C, Soule T, Bent SJ, Foster JA, Forney LJ (2007) MiCA: a web-based tool for the analysis of microbial communities based on terminal-restriction fragment length polymorphisms of 16S and 18S rRNA genes. Microb Ecol 53: 562-570.
21. Dunbar J, Ticknor LO, Kuske CR (2001) Phylogenetic specificity and reproducibility and new method for analysis of terminal restriction fragment profiles of 16S rRNA genes from bacterial communities. Appl Environ Microbiol 67: 190-197.
22. Iwamoto T, Tani K, Nakamura K, Suzuki Y, Kitagawa M, Eguchi M, Nasu M (2000) Monitoring impact of in situ biostimulation treatment on groundwater bacterial community by DGGE. FEMS Microbiol Ecol 32: 129-141.
23. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4. 0. Mol Biol Evol 24: 1596-1599.
24. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) Clustal W and Clustal X version 2. 0. Bioinformatics 23: 2947-2948.
25. Cole JR, Chai B, Farris RJ, Wang Q, Kulam SA, McGarrell DM, Garrity GM, Tiedje JM (2005) The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis. Nucleic Acids Res 33: D294-D296.
26. Huber T, Faulkner G, Hugenholtz P (2004) Bellerophon: a program to detect chimeric sequences in multiple sequence alignments. Bioinformatics 20: 2317-2319.
27. 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.
28. Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp 115-147.
29. Stothard P (2000) The sequence manipulation suite: JavaScript programs for analyzing and formatting protein and DNA sequences. Biotechniques 28: 1102.
30. White DC, Ringelberg DB (1998) Signature lipid biomarker analysis. In: Burlage RS, Atlas R, Stahl D, Geesey G, Sayler G (eds) Techniques in Microbial Ecology. Oxford University Press, New York, pp 255-272.
31. SSSA (1996) Methods of soil analysis, Part 3-chemical methods and processes. Soil Science Society of America, Madison.
32. Hawkins BA, Field R, Cornell HV, Currie DJ, Guegan JF, Kaufman DM, Kerr JT, Mittelbach GG, Oberdorff T, O'Brien EM, Porter EE, Turner JRG (2003) Energy, water, and broad-scale geographic patterns of species richness. Ecology 84: 3105-3117.
33. Fulthorpe RR, Roesch LFW, Riva A, Triplett EW (2008) Distantly sampled soils carry few species in common. ISME J 2: 901-910.
34. Treves DS, Xia B, Zhou J, Tiedje JM (2003) A two-species test of the hypothesis that spatial isolation influences microbial diversity in soil. Microb Ecol 45: 20-28.
35. Suzuki MT, Giovannoni SJ (1996) Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl Environ Microbiol 62: 625-630.
36. Warren-Rhodes KA, Rhodes KL, Pointing SB, Ewing SA, Lacap DC, Gomez-Silva B, Amundson R, Friedmann EI, McKay CP (2006) Hypolithic cyanobacteria, dry limit of photosynthesis, and microbial ecology in the hyperarid Atacama Desert. Microb Ecol 52: 389-398.
37. Nagy ML, Perez A, Garcia-Pichel F (2005) The prokaryotic diversity of biological soil crusts in the Sonoran Desert (Organ Pipe Cactus National Monument, AZ). FEMS Microbiol Ecol 54: 233-245.
38. Prestel E, Salamitou S, Dubow MS (2008) An examination of the bacteriophages and bacteria of the Namib desert. J Microbiol 46: 364-372.
39. Chanal A, Chapon V, Benzerara K, Barakat M, Christen R, Achouak W, Barras F, Heulin T (2006) The desert of Tataouine: an extreme environment that hosts a wide diversity of microorganisms and radiotolerant bacteria. Environ Microbiol 8: 514-525.
40. Dworkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrandt E (2007) The prokaryotes: an evolving electronic resource for the microbiology communitybacteria, firmicutes, vol. 3b. Springer, New York.
41. Evenari M, Shanan L, Tadmor N (1982) The Negev: the challenge of a desert. Harvard University Press, Cambridge.
42. Yair A, Danin A (1980) Spatial variations in vegetation as related to the soil moisture regime over an arid limestone hillside, northern Negev, Israel. Oecologia 47: 83-88.
43. Danin A, Orshan G (1990) The distribution of raunkiaer life forms in Israel in relation to the environment. J Veg Sci 1: 41-48.
44. Danin A, Orshan G, Zohary M (1975) The vegetation of the northern Negev and the Judean desert of Israel. Isr J Bot 24: 118-172.