Analysis of internal transcribed spacer (ITS) regions of rRNA genes in fungal communities in a southeastern U.S. salt marsh

Microbial Ecology

Volumn 43, Issue 3, 2002, Pages 329-340

  Buchan, A ^a   Newell, S Y ^b   Moreta, J I L ^a   Moran, M A ^a  

^a UNIVERSITY OF GEORGIA   (United States)

^b University of Georgia Marine Institute   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMMUNITY COMPOSITION; FUNGUS; GENETIC ANALYSIS; SALTMARSH;

UNITED STATES;

ASCOMYCOTA; FUNGI; HYDROPISPHAERA ERUBESCENS; MYCOSPHAERELLA; PHAEOSPHAERIA HALIMA; PHAEOSPHAERIA SPARTINICOLA; PROKARYOTA; SPARTINA ALTERNIFLORA;

RIBOSOME RNA;

ARTICLE; ASCOMYCETES; BIOASSAY; DNA SEQUENCE; ECOSYSTEM; GENETICS; MICROBIOLOGY; PHYSIOLOGY; POACEAE; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; RNA PROCESSING;

ASCOMYCOTA; BIOLOGICAL ASSAY; ECOSYSTEM; POACEAE; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; RNA PROCESSING, POST-TRANSCRIPTIONAL; RNA, RIBOSOMAL; SEQUENCE ANALYSIS, DNA; WATER MICROBIOLOGY;

EID: 0036527144     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-001-1062-0     Document Type: Article

References (43)

1. Alexopoulos CJ, Mims CW, Blackwell M (1996) Introductory Mycology, 4th ed. Wiley, New York
2. Aanen DK, Kuyper TW, Hoekstra RF (2001) A widely distributed ITS polymorphism within a biological species of the ectomycorrhizal fungus Hebeloma velutipes. Mycol Res 105:284-290
3. Bergbauer M, Newell SY (1992) Contribution to lignocellulose degradation and DOC formation from a salt marsh macrophyte by the ascomycete Phaeosphaeria spartinicola. FEMS Microbiol Ecol 86:341-348
4. Bridge P, Spooner B (2001) Soil fungi: diversity and detection. Plant Soil 232:147-154
5. Cantrell SA, Newell SY, Hanlin RT (1996) A new species of Lachnum on Spartina alterniflora. Mycotaxon 57:479-485
6. Chalmers AG (1997) The ecology of the Sapelo Island National Estuarine Research Reserve. Sanctuaries and Reserves Division, Office of Coastal Resource Management, NOAA, Washington DC, 129 pp
7. de Los Angeles Vineusa M, Sanches-Puelles JM, Tibell L (2001) Intraspecific variation in Mycocalicium subtile (Mycocaliciaceae) elucidated by morphology and the sequences of the ITS1-5.8S-ITS2 region of rDNA. Mycol Res 105:323-330
8. Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidomycetes - application to the identification of mycorrhizae and rusts. Mol Ecol 2:1130-118
9. Gessner RV (1977) Seasonal occurrence and distribution of fungi associated with Spartina alterniflora from a Rhode Island estuary. Mycologia 69:477-491
10. Good IJ (1953) The population frequencies of species and the estimation of population parameters. Biometrika 40:237-264
11. Graça MAS, Newell SY, Kneib RT (2000) Grazing rates of organic matter and living fungal biomass of decaying Spartina alterniflora by three species of salt-marsh invertebrates. Mar Biol 136:281-289
12. Heinonsalo J, Jørgensen KS, Sen R (2001) Microcosmbased analyses of Scots pine seedling growth, ectomycorrhizal fungal community structure and bacterial carbon utilization profiles in boreal forest humus and underlying illuvial mineral horizons. FEMS Microbiol Ecol 36:73-84
13. Hietala AM, Vahala J, Hantula J (2001) Molecular evidence suggests that Ceratobasidium bicorne has an anamorph known as a conifer pathogen. Mycol Res 105:555-562
14. Howlett BJ, Rolls BD, Cozijnsen AJ (1997) Organization of ribosomal DNA in the ascomycete Leptosphaeria maculans. Microbiol Res 152:261-267
15. Kohlmeyer J, Gessner RV (1976) Buergenerula spartinae sp. nov., an ascomycete from salt marsh cordgrass, Spartina alterniflora. Can J Bot 54:1759-1766
16. Kohlmeyer J, Kohlmeyer E (1979) Marine Mycology. The Higher Fungi. Academic Press, New York
17. Kohlmeyer J, Volkmann-Kohlmeyer B (1991) Illustrated key to the filamentous higher marine fungi. Bot Mar 34:1-61
18. Kowalchuk GA (1999) New perspectives towards analyzing fungal communities in terrestrial environments. Curr Opin Biotechnol 10:247-251
19. Kurtzman CP, Fell JW (2000) The Yeasts. A Taxonomic Study, 4th ed. Elsevier Science, Amsterdam
20. Larena I, Salazar O, González V, Julián M, Rubio V (1999) Design of a primer for ribsomal DNA internal transcribed spacer with enhanced specificity for ascomycetes. J Biotechnol 75:187-194
21. Leuchtmann A, Newell SY (1991) Phaeosphaeria spartinicola, a new species on Spartina. Mycotaxon 41:1-7
22. Luttrell ES (1979) Single ascospore isolation. In: Kendrick B (ed) The Whole Fungus, vol 2, National Museums of Canada, Ottawa, pp 645-646
23. Maicas S, Adam AC, Polaina J (2000) The ribosomal DNA of the zygomycete Mucor miehei. Curr Genet 37:412-419
24. Meyers SP, Ahearn DG (1974) Implication of yeasts and yeast-like fungi in marine processes. Veröff Inst Meeresforsch Bremerh Suppl 5:321-338
25. Meyers SP, Ahearn DG, Alexander SK, Cook WL (1975) Pichia spartinae, a dominant yeast of the Spartina salt marsh. Dev Industr Microbiol 16:262-267
26. Newell SY (1992) Estimating fungal biomass and productivity in decomposing litter. In: GC Carroll, DW Wicklow (eds) The Fungal Community, 2nd ed. Marcel-Dekker, New York, pp 521-561
27. Newell SY (2001) Multiyear patterns of fungal biomass dynamics and productivity within naturally decaying smooth cordgrass shoots. Limnol Oceanogr 46:573-583
28. Newell SY (2001) Spore-expulsion rates and extents of blade occupation by ascomycetes of the smooth-cordgrass standing-decay system. Bot Mar 44:277-285
29. Newell SY, Arsuffi TL, Palm LA (1996a) Misting and nitrogen fertilization of shoots of a saltmarsh grass: effects upon fungal decay of leaf blades. Oecologia 108:495-502
30. Newell SY, Arsuffi TL, Palm LA (1998) Seasonal and vertical demography of dead portions of shoots of smooth cordgrass in a south-temperate saltmarsh. Aquat Bot 60:325-335
31. Newell SY, Blum LK, Crawford RE, Dai T, Dionne M (2000) Autumnal biomass and productivity of saltmarsh fungi from 29 to 43 degrees north latitude along the United States Atlantic coast. Appl Environ Microbiol 66:180-185
32. Newell SY, Porter D (2000) Microbial secondary production from saltmarsh-grass shoots, and its known and potential fates. In: MP Weinstein, DA Kreeger (eds) Concepts and Controversies in Tidal Marsh Ecology. Kluwer Academic, Dordrecht, pp 159-185
33. Newell SY, Porter D, Lingle WL (1996b) Lignocellulolysis by ascomycetes (Fungi) of a saltmarsh grass (smooth cordgrass). Microscopy Res Techn 33:32-46
34. O'Donnell K (1992) Ribosomal DNA internal transcribed spacers are highly divergent in the phytopathogenic ascomycete Fusarium samhucinum (Gibberella pulicaris). Curr Genet 22:213-220
35. Okabe I, Arakawa M, Matsumoto N (2001) ITS polymorphism within a single strain of Sclerotium rolfsii. Mycoscience 42:107-113
36. Rossman AY, McKemy JM, Pardo-Schultheiss RA, Schroers H-J (2001) Molecular studies of the Bionectriaceae using large subunit rDNA sequences. Mycologia 93:100-110
37. Schroeder S, Kim SH, Cheung WT, Sterflinger K, Breuil C (2001) Phylogenetic relationship of Ophiostoma piliferum to other sapstain fungi based on the nuclear rRNA gene. FEMS Microbiol Lett 95:163-167
38. Speksnijder AGCL, Kowalchuk GA, De Jong S, Kline E, Stephen JR, Laanbroek HJ (2001) Microvariation artifacts introduced by PCR and cloning of closely related 16S rRNA gene sequences. Appl Environ Microbiol 67:469-472
39. Suzuki MT, Giovannoni SJ (1996) Bias caused by template annealing in the amplification mixtures of 16S rRNA genes by PCR. Appl Environ Microbiol 62:625-630
40. Viaud M, Pasquier A, Brygoo Y (2000) Diversity of soil fungi studied by PCR-RFLP of ITS. Mycol Res 104:1027-1032
41. Walker J (1981) Taxonomy of take-all fungi and related genera and species. In: MJC Asher, PJ Shipton (eds) Biology and Control of Take-All. Academic Press, New York, pp 15-74
42. Wirsel SGR, Leibinger W, Ernst M, Mendgen K (2001) Genetic diversity of fungi closely associated with common reed. New Phytol 149:589-598
43. Yan ZH, Rogers SO, Wang CJK (1995) Assessment of Phialophora species based on ribosomal DNA internal transcribed spacers and morphology. Mycologia 87:72-83