Molecular phylogeny and paclitaxel screening of fungal endophytes from Taxus globosa

Fungal Biology

Volumn 115, Issue 2, 2011, Pages 143-156

  Soca Chafre, Giovanny ^a   Rivera Orduña, Flor N ^a   Hidalgo Lara, M Eugenia ^a   Hernandez Rodriguez, Cesar ^b   Marsch, Rodolfo ^a   Flores Cotera, Luis B ^a  

^a DEPARTAMENTO DE FÍSICA   (Mexico)

^b INSTITUTO POLITÉCNICO NACIONAL   (Mexico)

Author keywords

Ascomycota; Diversity; ITS rDNA; Mexican yew; Species richness

Indexed keywords

FUNGAL DNA; PACLITAXEL; RIBOSOME DNA;

CLOUD FOREST; ENDOPHYTE; FUNGUS; IMMUNOASSAY; INHIBITION; MITOCHONDRIAL DNA; PHYLOGENETICS; SHRUB; SPECIES DIVERSITY; SPECIES RICHNESS;

ARTICLE; CLASSIFICATION; FUNGUS; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PHYSIOLOGY; SYMBIOSIS; TAXUS;

DNA, FUNGAL; DNA, RIBOSOMAL; FUNGI; MOLECULAR SEQUENCE DATA; PACLITAXEL; PHYLOGENY; SYMBIOSIS; TAXUS;

MEXICO [NORTH AMERICA]; QUERETARO; SIERRA GORDA BIOSPHERE RESERVE;

ACREMONIUM (ASCOMYCOTA); ACREMONIUM (HYPOCREACEAE); ASCOMYCOTA; BOTRYOSPHAERIA; DOTHIDEOMYCETES; EUROTIOMYCETES; FUSARIUM; GYROMITRA; LEOTIOMYCETES; NIGROSPORA; PENICILLIUM; PEZIZOMYCETES; PLEOSPORALES; SORDARIOMYCETES; TAXUS; TAXUS GLOBOSA; XYLARIA;

EID: 79551684923     PISSN: 18786146     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.funbio.2010.11.004     Document Type: Article

References (69)

1. Adamcik S., Holec J., Lizon P., Ripkova S., Kucera V. Notes on taxa of the genus Pholiota described by C. Kalchbrenner. Mycotaxon 2006, 97:5-12.
2. Arbuck S.G., Blaylock B.A. Taxol: clinical results and current issues in development. Taxol: Science and Applications 1995, 379-415. CRC Press, Boca Raton, Florida. M. Suffness (Ed.).
3. Arnold A.E., Henk D.A., Eells R.L., Lutzoni F., Vilgalys R. Diversity and phylogenetic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR. Mycologia 2007, 99:185-206.
4. Arnold A.E., Lutzoni F. Diversity and host range of foliar fungal endophytes: are tropical leaves biodiversity hotspots?. Ecology 2007, 88:541-549.
5. Baayen R.P., Bonants P.M.J., Verkley G., Carroll G.C., Van der Aa H.A., Weerdt M., Van Brouwershaven I.R., Schutte G.C., Maccheroni W., De Blanco C.G., Azevedo J.L. Nonpathogenic isolates of the citrus black spot fungus Guignardia citricarpa, identified as a cosmopolitan endophyte of woody plants G. mangiferae (Phyllosticta capitalensis). Phytopathology 2002, 92:464-477.
6. Bergemann S.E., Garbelotto M. High diversity of fungi recovered from the roots of mature tanoak (Lithocarpus densiflorus) in northern California. Canadian Journal of Botany 2006, 84:1380-1394.
7. Bonilla L, Canchola PB, 2008. Fitogeografia de Taxus globosa en la región Centrooriente de México. Thesis, Universidad Autónoma Chapingo, Texcoco, México.
8. Burdsall H.H., Dorworth E.B. Preserving cultures of wood-decaying Basidiomycotina using sterile distilled water in cryovials. Mycologia 1994, 86:275-280.
9. Carabias J., Provencio E., De la Maza J., Ruiz M.I. Programa de Manejo Reserva de la Biosfera Sierra Gorda México 1999, Instituto Nacional de Ecologia, Semarnat, 1-173.
10. Campanella J.J., Bitincka L., Smalley J. MatGAT: an application that generates similarity/identity matrices using protein or DNA sequences. BMC Bioinformatics 2003, 4:29.
11. Caruso M., Colombo A.L., Fedeli L., Pavesi A., Quaroni S., Saracchi M., Ventrella G. Isolation of endophytic fungi and actinomycetes taxane producers. Annals of Microbiology 2000, 50:3-13.
12. Colwell RK, 2005. EstimateS: Statistical estimation of species richness and shared species from samples. http://viceroy.eeb.uconn.edu/EstimateS.
13. Crous P.W., Slippers B., Wingfield M.J., Rheeder J., Marasas W.F.O., Philips A.J.L., Alves A., Burgess T., Barber P., Groenewald J.Z. Phylogenetic lineages in the Botryosphaeriaceae. Studies in Mycology 2006, 55:235-253.
14. Davis E.C., Franklin J.B., Shaw J., Vilgalys R. Endophytic Xylaria (Xylariaceae) among liverworts and angiosperms: phylogenetics, distribution and symbiosis. American Journal of Botany 2003, 90:1661-1667.
15. De Hoog G.S., Guarro J., Gene J., Figueras M.J. Atlas of Clinical Fungi 2000, Centraalbureau voor Schimmelcultures, The Netherlands. 2nd edn.
16. Eitniear JC, Aragon Tapia A, Gonzalez V, Baccus JT, 1998. Bearded Wood-Partridge discovered in Mexican State of Querétaro. Newsletter of the Partridge, Quail, and Francolin Specialist Group 12: 4-6.
17. Fisher R.A., Corbet A.S., Williams C.B. The relation between the number of species and the number of individuals in a random sample of an animal population. Journal of Animal Ecology 1943, 12:42-58.
18. Flores-Bustamante Z.R., Rivera-Orduña F.N., Martinez-Cardenas A., Flores-Cotera L.B. Microbial paclitaxel: advances and perspectives. The Journal of Antibiotics 2010, 63:460-467.
19. Galtier N., Gouy M., Gautier C. SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Computer Applications in the Biosciences 1996, 12:543-548.
20. Ganley R., Newcombe G. Fungal endophytes in seeds and needles of Pinus monticola. Mycological Research 2006, 110:318-327.
21. Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by Maximum Likelihood. Systematic Biology 2003, 52:696-704.
22. Hanlin R. Illustrated Genera of Ascomycetes 1998, vol. 2. APS Press, St. Paul, MN, USA.
23. Hibbett D.S., Binder M., Bischoff J.F., Blackwell M., Cannon P.F., Eriksson O.E., Huhndorf S., James T., Kirk P.M., Lucking R., Lumbsch H.T., Lutzoni F., Matheny P.B., McLaughlin D.J., Powell M.J., Redhead S., Schoch C.L., Spatafora J.W., Stalpers J.A., Vilgalys R., Aime M.C., Aptroot A., Bauer R., Begerow D., Benny G.L., Castlebury L.A., Crous P.W., Dai Y.C., Gams W., Geiser D.M., Griffith G.W., Gueidan C., Hawksworth D.L., Hestmark G., Hosaka K., Humber R.A., Hyde K.D., Ironside J.E., Koljalg U., Kurtzman C.P., Larsson K.H., Lichtwardt R., Longcore J., Miadlikowska J., Miller A., Moncalvo J.M., Mozley-Standridge S., Oberwinkler F., Parmasto E., Reeb V., Rogers J.D., Roux C., Ryvarden L., Sampaio J.P., Schussler A., Sugiyama J., Thorn R.G., Tibell L., Untereiner W.A., Walker C., Wang Z., Weir A., Weiss M., White M.M., Winka K., Yao Y.J., Zhang N. A higher-level phylogenetic classification of the fungi. Mycological Research 2007, 111:509-547.
24. Higgins K.L., Arnold A.E., Miadlikowska J., Sarvate S.D., Lutzoni F. Phylogenetic relationships, host affinity, and geographic structure of boreal and arctic endophytes from three major plant lineages. Molecular Phylogenetics and Evolution 2007, 42:543-555.
25. Hoff J.A., Klopfenstein N.B., McDonald G.I., Tonn J.R., Kim M.S., Zambino P.J., Hessburg P.F., Rogers J.D., Peever T.L., Carris L.M. Fungal endophytes in woody roots of Douglas-fir (Pseudotsuga menziesii) and ponderosa pine (Pinus ponderosa). Forest Pathology 2004, 34:255-271.
26. Hoffman M.T., Arnold A.E. Geographic locality and host identity shape fungal endophyte communities in cupressaceous trees. Mycological Research 2008, 112:331-344.
27. Kanouse B.B. Some species of the genus Trichophaea. Mycologia 1958, 50:121-140.
28. Krishnamurthy Y.L., Naik S.B., Jayaram S. Fungal communities in herbaceous medicinal plants from the Malnad region, southern India. Microbes and Environments 2008, 23:24-28.
29. Larone D.H. Medically Important Fungi - a Guide to Identification 1995, ASM Press, Washington, DC. 3rd edn.
30. Liu K., Ding X., Deng B., Chen W.Q. Isolation and characterization of endophytic Taxol-producing fungi from Taxus chinensis. Journal of Industrial Microbiology & Biotechnology 2009, 36:1171-1177.
31. Magurran A.E. Ecological Diversity and its Measurement 1988, Princeton University Press, Princeton, NJ, USA.
32. Magurran A.E. Measuring Biological Diversity 2004, Wiley-Blackwell, Oxford, UK.
33. Nilsson R.H., Ryberg M., Abarenkov K., Sjökvist E., Kristiansson E. The ITS region as a target for characterization of fungal communities using emerging sequencing technologies. FEMS Microbiology Letters 2009, 296:97-101.
34. O'Brien H.E., Parrent J.L., Jackson J.A., Moncalvo J.M., Vilgalys R. Fungal community analysis by large-scale sequencing of environmental samples. Applied and Environmental Microbiology 2005, 71:5544-5550.
35. Petrini O. Taxonomy of endophytic fungi of aerial plant tissues. Microbiology of the Phyllosphere 1986, 175-187. Cambridge University Press, Cambridge. N.J. Fokkema, J. van den Heuvel (Eds.).
36. Phillips A.J.L., Alves A., Correia A., Luque J. Two new species of Botryosphaeria with brown, 1-septate ascospores and Dothiorella anamorphs. Mycologia 2005, 97:513-529.
37. Posada D. jModelTest: phylogenetic model averaging. Molecular Biology and Evolution 2008, 25:1253-1256.
38. Qi F.H., Jing T.Z., Wang Z.X., Zhan Y.G. Fungal endophytes from Acer ginnala Maxim: isolation, identification and their yield of gallic acid. Letters in Applied Microbiology 2009, 49:98-104.
39. Redecker D. Specific PCR primers to identify arbuscular mycorrhizal fungi within colonized roots. Mycorrhiza 2000, 10:73-80.
40. Riddell R.W. Permanent, stained mycological preparations obtained by slide culture. Mycologia 1950, 42:265-270.
41. Rodríguez K.F., Samuels G.J. Letendraeopsis palmarum, a new genus and species of Loculoascomycetes. Mycologia 1994, 86:254-258.
42. Rubini M.R., Silva-Ribeiro R.T., Pomella A.W.V., Maki C.S., Araújo W.L., Santos D.R.D., Azevedo J.L. Diversity of endophytic fungal community of cacao (Theobroma cacao L.) and biological control of Crinipellis perniciosa, causal agent of Witches' broom disease. International Journal of Biological Sciences 2005, 1:24-33.
43. Schrank F.P. Baierische flora 1789, 1. 1-753. http://www.mycobank.org/MycoTaxo.aspx?Link=T&Rec=3502.
44. Schulz B., Boyle C. The endophytic continuum. Mycological Research 2005, 109:661-686.
45. Seena S., Wynberg N., Bärlocher F. Fungal diversity during leaf decomposition in a stream assessed through clone libraries. Fungal Diversity 2008, 30:1-14.
46. Schulz B.U., Wanke U., Drager S., Aust H.J. Endophytes from herbaceous plants and shrubs: effectiveness of surface sterilization methods. Mycological Research 1993, 97:1447-1450.
47. Seifert K.A. A monograph of Stilbella and some allied hyphomycetes. Studies in Mycology 1985, 27:118.
48. Shannon C.E., Weaver W. The Mathematical Theory of Communication 1949, University of Illinois Press, Urbana.
49. Shear G.L., Dodge B.O. Life histories and heterothallism of the red bread-mold fungi of the Monilia sitophila group. Journal of Agricultural Research 1927, 34:1019-1041. http://www.mycobank.org/MycoTaxo.aspx.
50. Shemluck M., Nicholson R., Estrada E., Brobst S. A preliminary study of taxane chemistry and natural history of the Mexican yew, Taxus globosa. Boletín de la Sociedad Botánica de México 2003, 72:119-127.
51. Sieber T.N., Sieber-Canavesi F., Dorworth C.E. Endophytic fungi of red alder (Alnus rubra) leaves and twigs in British Columbia. Canadian Journal of Botany 1991, 69:407-411.
52. Simpson E.H. Measurement of species diversity. Nature 1949, 163:688.
53. Slippers B., Wingfielda M.J. Botryosphaeriaceae as endophytes and latent pathogens of woody plants: diversity, ecology and impact. Fungal Biology Reviews 2007, 21:90-106.
54. Stierle A., Strobel G., Stierle D. Taxol and taxane production by Taxomyces andreanae, an endophytic fungus of Pacific yew. Science 1993, 260:214-216.
55. Strobel G., Daisy B. Bioprospecting for microbial endophytes and their natural products. Microbiology and Molecular Biology Reviews 2003, 67:491-502.
56. Strobel G.A., Hess W.M., Ford E., Sidhu R.S., Yang X. Taxol from fungal endophytes and the issue of biodiversity. Journal of Industrial Microbiology 1996, 17:417-423.
57. Strobel G.A., Yang X.S., Sears J., Kramer R., Sidhu R.S., Hess W.M. Taxol from Pestalotiopsis microspora, an endophytic fungus of Taxus wallichiana. Microbiology 1996, 142:435-440.
58. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 1997, 24:4876-4882.
59. Van der Aa H.A. Studies in Phyllosticta I. Studies in Mycology 1973, 5:44. http://www.mycobank.org/MycoTaxo.aspx.
60. Von Arx J.A. On Mucoraceae s. str. and other families of the Mucorales. Sydowia 1982, 35:10-26. http://www.mycobank.org/MycoTaxo.aspx.
61. Wall M.E., Wani M.C. Paclitaxel: from discovery to clinic. ACS Symposium Series 1995, 583:18-30. G.I. Georg, T.T. Chen, I. Ojima, D.M. Vyas (Eds.).
62. Wang Y.T., Lo H.S., Wang P.H. Endophytic fungi from Taxus mairei in Taiwan: first report of Colletotrichum gloeosporioides as an endophyte of Taxus mairei. Botanical Studies 2008, 49:39-43.
63. Weber E. The Lecythophora-Coniochaeta complex: I. Morphological studies on Lecythophora species isolated from Picea abies. Nova Hedwigia 2002, 74:159-185.
64. White T.J., Bruns T., Lee S., Taylor J.W. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR Protocols: a Guide to Methods and Applications 1990, 315-322. Academic Press Inc, New York. D.H. Gelfand, J.J. Sninsky, T.J. White (Eds.).
65. Wu S.H., Chen Y.W., Shao S.C., Wang L.D., Yu Y., Li Z.Y., Yang L.Y., Li S.L., Huang R. Two new solanapyrone analogues from the endophytic fungus Nigrospora sp. YB-141 of Azadirachta indica. Chemistry & Biodiversity 2009, 6:79-85.
66. Zavala-Chávez F., Soto-Hernández M., Rodríguez-González M.T. El Romerillo (Taxus globosa Schlecht): biología, problemas y perspectivas de uso. Revista Chapingo serie Horticultura, Universidad Autónoma de Chapingo 2001, 7(1):77-94.
67. Zhang P., Zhou P.P., Yu L.J. An endophytic Taxol-producing fungus from Taxus media, Cladosporium cladosporioides MD2. Current Microbiology 2009, 59:227-232.
68. Zhao K., Ping W., Li Q., Hao S., Zhao L., Gao T., Zhou D. Aspergillus niger var. taxi, a new species variant of Taxol-producing fungus isolated from Taxus cuspidata in China. Journal of Applied Microbiology 2009, 4:1202-1207.
69. Zhong J.J. Plant cell culture for production of paclitaxel and other taxanes. Review. Journal of Bioscience and Bioengineering 2002, 94:591-599.