Internal transcribed spacer primers and sequences for improved characterization of basidiomycetous orchid mycorrhizas - PubMed (original) (raw)
Internal transcribed spacer primers and sequences for improved characterization of basidiomycetous orchid mycorrhizas
D Lee Taylor et al. New Phytol. 2008.
Free article
Abstract
Despite advances owing to molecular approaches, several hurdles still obstruct the identification of fungi forming orchid mycorrhizas. The Tulasnellaceae exhibit accelerated evolution of the nuclear ribosomal operon, causing most standard primers to fail in polymerase chain reaction (PCR) trials. Insufficient sequences are available from well characterized isolates and fruitbodies. Lastly, taxon-specific PCR primers are needed in order to explore the ecology of the fungi outside of the orchid root. Here, progress in overcoming these hurdles is reported. Broad-spectrum basidiomycete internal transcribed spacer (ITS) primers that do not exclude most known Tulasnellaceae are presented. blast searches and empirical PCR tests support their wide utility within the Basidiomycota. Taxon-specific ITS primers are presented targeted to orchid-associated Tulasnella, and a core component of the Thelephora-Tomentella complex. The efficiency and selectivity of these primer sets are again supported by blast searches and empirical tests. Lastly, ITS DNA sequences are presented from several strains of Epulorhiza, Ceratorhiza, Ceratobasidium, Sistotrema, Thanatephorus and Tulasnella that were originally described in the landmark mycorrhizal studies of Currah and Warcup. Detailed phylogenetic analyses reveal some inconsistencies in species concepts in these taxonomically challenging resupinate basidiomycetes, but also help to place several sequences from environmental samples.
Similar articles
- Impact of primer choice on characterization of orchid mycorrhizal communities using 454 pyrosequencing.
Waud M, Busschaert P, Ruyters S, Jacquemyn H, Lievens B. Waud M, et al. Mol Ecol Resour. 2014 Jul;14(4):679-99. doi: 10.1111/1755-0998.12229. Epub 2014 Mar 14. Mol Ecol Resour. 2014. PMID: 24460947 - From extensive clone libraries to comprehensive DNA arrays for the efficient and simultaneous detection and identification of orchid mycorrhizal fungi.
Lievens B, van Kerckhove S, Justé A, Cammue BP, Honnay O, Jacquemyn H. Lievens B, et al. J Microbiol Methods. 2010 Jan;80(1):76-85. doi: 10.1016/j.mimet.2009.11.004. Epub 2009 Nov 13. J Microbiol Methods. 2010. PMID: 19914306 - Low specificity and nested subset structure characterize mycorrhizal associations in five closely related species of the genus Orchis.
Jacquemyn H, Honnay O, Cammue BP, Brys R, Lievens B. Jacquemyn H, et al. Mol Ecol. 2010 Sep;19(18):4086-95. doi: 10.1111/j.1365-294X.2010.04785.x. Epub 2010 Aug 23. Mol Ecol. 2010. PMID: 20735736 - Fungi from the roots of the common terrestrial orchid Gymnadenia conopsea.
Stark C, Babik W, Durka W. Stark C, et al. Mycol Res. 2009 Sep;113(Pt 9):952-9. doi: 10.1016/j.mycres.2009.05.002. Epub 2009 May 30. Mycol Res. 2009. PMID: 19486943 - Further advances in orchid mycorrhizal research.
Dearnaley JDW. Dearnaley JDW. Mycorrhiza. 2007 Sep;17(6):475-486. doi: 10.1007/s00572-007-0138-1. Epub 2007 Jun 21. Mycorrhiza. 2007. PMID: 17582535 Review.
Cited by
- Distinct microbial communities are linked to organic matter properties in millimetre-sized soil aggregates.
Simon E, Guseva K, Darcy S, Alteio L, Pjevac P, Schmidt H, Jenab K, Ranits C, Kaiser C. Simon E, et al. ISME J. 2024 Jan 8;18(1):wrae156. doi: 10.1093/ismejo/wrae156. ISME J. 2024. PMID: 39105276 Free PMC article. - Four New Species of Tomentella (Thelephorales, Basidiomycota) from Subtropical Forests in Southwestern China.
Zhu YQ, Li XL, Zhao DX, Wei YL, Yuan HS. Zhu YQ, et al. J Fungi (Basel). 2024 Jun 21;10(7):440. doi: 10.3390/jof10070440. J Fungi (Basel). 2024. PMID: 39057325 Free PMC article. - Mode of carbon gain and fungal associations of Neuwiedia malipoensis within the evolutionarily early-diverging orchid subfamily Apostasioideae.
Zahn FE, Jiang H, Lee YI, Gebauer G. Zahn FE, et al. Ann Bot. 2024 Aug 22;134(3):511-520. doi: 10.1093/aob/mcae097. Ann Bot. 2024. PMID: 38912975 - Diversity of unique, nonmycorrhizal endophytic fungi in cultivated Phalaenopsis orchids: A pilot study.
Watkinson JI, Winkel BSJ. Watkinson JI, et al. Plant Environ Interact. 2024 May 17;5(3):e10146. doi: 10.1002/pei3.10146. eCollection 2024 Jun. Plant Environ Interact. 2024. PMID: 38764601 Free PMC article. - Partial mycoheterotrophy in the leafless orchid Eulophia zollingeri specialized on wood-decaying fungi.
Suetsugu K, Ohta T, Tayasu I. Suetsugu K, et al. Mycorrhiza. 2024 Apr;34(1-2):33-44. doi: 10.1007/s00572-024-01136-w. Epub 2024 Mar 23. Mycorrhiza. 2024. PMID: 38520554
References
- Abadie JC, Puttsepp U, Gebauer G, Faccio A, Bonfante P, Selosse MA. 2006. Cephalanthera longifolia (Neottieae, Orchidaceae) is mixotrophic: a comparative study between green and nonphotosynthetic individuals. Canadian Journal of Botany-Revue Canadienne De Botanique 84: 1462-1477.
- Altshul SF, Madden TL, Schäffer AA, Zhang Z, Zheng Z, Miller W, Lipman DJ. 1997. Gapped BLAST and PSI_BLAST: a new generation of protein database search programs. Nucleic Acids Research 25: 3389-3402.
- Andersen TF. 1990. A study of hyphal morphology in the form genus rhizoctonia. Mycotaxon 37: 25-46.
- Andersen TF. 1996. A comparative taxonomic study of Rhizoctonia sensu lato employing morphological, ultrastructural and molecular methods. Mycological Research 100: 1117-1128.
- Arditti J, Ernst R, Yam TW, Glabe C. 1990. The contributions of orchid mycorrhizal fungi to seed germination a speculative review. Lindleyana 5: 249-255.
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Molecular Biology Databases
Research Materials