The diversity of soil culturable fungi in the three alpine shrub grasslands of Eastern Qilian Mountains

Junzhong ZHANG, Baiying MAN, Benzhong FU, Li LIU, Changzhi HAN

PDF(195 KB)
PDF(195 KB)
Front. Earth Sci. ›› 2013, Vol. 7 ›› Issue (1) : 76-84. DOI: 10.1007/s11707-012-0345-8
RESEARCH ARTICLE
RESEARCH ARTICLE

The diversity of soil culturable fungi in the three alpine shrub grasslands of Eastern Qilian Mountains

Author information +
History +

Abstract

To understand the diversity of culturable fungi in soil at alpine sites, Rhododendron fruticosa shrubland, Salix cupularis fruticosa shrubland, and Dasiphoru fruticosa shrubland of the Eastern Qilian Mountains were selected to investigate. Three methods, including traditional culturing, rDNA internal transcribed spacer (ITS) sequence analysis, and economical efficiency analysis, were carried out to estimate the diversity of soil culturable fungi of these three alpine shrublands. A total of 35 strains of culturable fungi were cultured by dilution plate technique and were analyzed by rDNA ITS sequence. The diversity indices such as species abundance (S), Shannon–Wiener index (H), Simpson dominance index (D), and Pielou evenness index (J) of Rhododendron fruticosa shrubland, Salix cupularis fruticosa shrubland, and Dasiphoru fruticosa shrubland were ranged between 16 and 17, 2.66–2.71, 0.92, 0.95–0.97 respectively. The results showed that the diversity of soil fungi were abundant in these three types of alpine shrub grasslands, while further study should be done to explore their potential value.

Keywords

alpine shrub grasslands / culturable fungi / rDNA ITS sequence analysis / diversity

Cite this article

Download citation ▾
Junzhong ZHANG, Baiying MAN, Benzhong FU, Li LIU, Changzhi HAN. The diversity of soil culturable fungi in the three alpine shrub grasslands of Eastern Qilian Mountains. Front Earth Sci, 2013, 7(1): 76‒84 https://doi.org/10.1007/s11707-012-0345-8

References

[1]
Allen M F, Allen E B (1992). Mycorrhizae and plant community development: mechanisms and patterns. In: rroll G C, Wicklow D T, eds. The Fungal Community. New York: Marcel Dekker
[2]
Altschul S F, Gish W, Miller W, Myers E W, Lipman D J (1990). Basic local alignment search tool. J Mol Biol, 215(3): 403-410
[3]
Anderson I C, Campbell C D, Prosser J I (2003). Potential bias of fungal 18S rDNA and internal transcribed spacer polymerase chain reaction primers for estimating fungal biodiversity in soil. Environ Microbiol, 5(1): 36-47
[4]
Atlas R M, Bartha R (1998). Microbial Ecology: Fundamentals and Applications, <BibVersion>4th ed</BibVersion>. Menlo Park: Benjamin/Cummings
[5]
Bardgett R D, Frankland J C, Whittaker J B (1993). The effects of agricultural management on the soil biota of some upland grasslands. Agric Ecosyst Environ, 45(1-2): 25-45
[6]
Borneman J, Skroch P W, O’Sullivan K M, Palus J A, Rumjanek N G, Jansen J L, Nienhuis J, Triplett E W (1996). Molecular microbial diversity of an agricultural soil in Wisconsin. Appl Environ Microbiol, 62(6): 1935-1943
[7]
Felsenstein J (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 6: 227-242
[8]
Frankland J C, Dighton J, Boddy L (1990). Methods for studying fungi in soil and forest litter. Methods in Microbioly, 22: 343-404
[9]
Gams W (1992). The analysis of communities of saprophytic microfungi with special reference to soil fungi. In: nterhoff W, ed. Fungi in Vegetation Science. Boston: Kluwer Academic
[10]
Gardes M, Bruns T D (1993). ITS primers with enhanced specificity for basidiomycetes—application to the identification of mycorrhizae and rusts. Mol Ecol, 2(2): 113-118
CrossRef Google scholar
[11]
Griffiths B S, Ritz K, Bardgett R D, Cook R, Christensen S, Ekelund F, Sørensen S J, Bååth E, Bloem J, Ruiter P C, Dolfing J, Nicolardot B (2000). Ecosystem response of pasture soil communities to fumigation-induced microbial diversity reductions: an examination of the biodiversity ecosystem function relationship. Oikos, 90(2): 279-294
[12]
Hall T A (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser, 41: 95-98
[13]
Hawksworth D L (2001). The magnitude of fungal diversity: the 1.5 million species estimate revisited. Mycol Res, 105(12): 1422-1432
[14]
Hibbett D S, Ohman A, Glotzer D, Nuhn M, Kirk P, Nilsson R H (2011). Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences. Fungal Biol Rev, 25(1): 38-47
[15]
Hirsch P R, Mauchline T H, Clark I M (2010). Culture-independent molecular techniques for soil microbial ecology. Soil Biol Biochem, 42(6): 878-887
[16]
Kjøller A, Struwe S (1982). Microfungi in ecosystems: fungal occurrence and activity in litter and soil. Oikos, 39(3): 391-422
[17]
Kowalchuk G A, Gerards S, Woldendorp J W (1997). Detection and characterization of fungal infections of Ammophila arenaria (marram grass) roots by denaturing gradient gel electrophoresis of specifically amplified 18s rDNA. Appl Environ Microbiol, 63(10): 3858-3865
[18]
Kuninaga S, Natsuaki T, Takeuchi T, Yokosawa R (1997). Sequence variation of the rDNA ITS regions within and between anastomosis groups in Rhizoctonia solani. Curr Genet, 32(3): 237-243
[19]
Larena I, Salazar O, González V, Julián M C, Rubio V (1999). Design of a primer for ribosomal DNA internal transcribed spacer with enhanced specificity for ascomycetes. J Biotechnol, 75(2-3): 187-194
[20]
Li Y C, Yang Z L, Tolgor B (2009). Phylogenetic and biogeographic relationships of Chroogomphus species as inferred from molecular and morphological data. Fungal Divers, 38: 85-104
[21]
Mello A, Napoli C, Murat C, Morin E, Marceddu G, Bonfante P (2011). ITS-1 versus ITS-2 pyrosequencing: a comparison of fungal populations in truffle grounds. Mycologia, 103(6): 1184-1193
[22]
Swofford D L (2002). PAUP 4.0 b10: Phylogenetic Analysis Using Parsimony. Sunderland: Sinauer Associates
[23]
Tabacchioni S, Chiarini L, Bevivino A, Cantale C, Dalmastri C (2000). Bias caused by using different isolation media for assessing the genetic diversity of a natural microbial population. Microb Ecol, 40(3): 169-176
[24]
Tebbe C C, Vahjen W (1993). Interference of humic acids and DNA extracted directly from soil in detection and transformation of recombinant DNA from bacteria and a yeast. Appl Environ Microbiol, 59(8): 2657-2665
[25]
Thompson J D, Gibson T J, Plewniak F, Jeanmougin F, Higgins D G (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res, 25(24): 4876-4882
[26]
Thorn R G, Reddy C A, Harris D, Paul E A (1996). Isolation of saprophytic basidiomycetes from soil. Appl Environ Microbiol, 62(11): 4288-4292
[27]
Tilman D A, Knops J, Wedin D (1997). The influence of functional diversity and composition on ecosystem processes. Science, 277(5330): 1300-1302
[28]
Unterseher M, Jumpponen A, Opik M, Tedersoo L, Moora M, Dormann C F, Schnittler M (2011). Species abundance distributions and richness estimations in fungal metagenomics—lessons learned from community ecology. Mol Ecol, 20(2): 275-285
[29]
van Elsas J D, Duarte G F, Keijzer-Wolters A, Smit E (2000). Analysis of the dynamics of fungal communities in soil via fungal-specific PCR of soil DNA followed by denaturing gradient gel electrophoresis. J Microbiol Methods, 43(2): 133-151
[30]
Wardle D A, Giller K E (1996). The quest for a contemporary ecological dimension to soil biology. Soil Biol Biochem, 28(12): 1549-1554
[31]
White T J, Bruns T, Lee S, Taylor J (1990). Amplification and direct sequencing of fungal ribossomal RNA genes for phylogenetics. In: nis M A, Gelfand D H, Sninsky J J, White J W, eds. PCR Protocols: a Guide to Methods and Applications. New York: Academic Press
[32]
Xu L, Ravnskov S, Larsen J, Nilsson R H, Nicolaisen M (2012). Soil fungal community structure along a soil health gradient in pea fields examined using deep amplicon sequencing. Soil Biol Biochem, 46: 26-32

Acknowledgements

This work was supported by the Key Laboratory of Forest Disaster Warning and Control in Yunnan Province (No. ZK10A104) College of Forestry, Southwest Forestry University and Scientific Research Fund of Yunnan Provincial Department of Education (No. 2012Y225).

RIGHTS & PERMISSIONS

2014 Higher Education Press and Springer-Verlag Berlin Heidelberg
AI Summary AI Mindmap
PDF(195 KB)

Accesses

Citations

Detail

Sections
Recommended

/