Development of polymorphic microsatellite markers issued from pyrosequencing technology for the medicinal mushroom Agaricus subrufescens

FEMS Microbiology Letters

Volumn 334, Issue 2, 2012, Pages 119-126

  Foulongne Oriol, Marie ^a   Spataro, Cathy ^a   Moinard, Magalie ^a   Cabannes, Delphine ^a   Callac, Philippe ^a   Savoie, Jean Michel ^a  

^a CEMAGREF   (France)

Author keywords

Agaricus blazei Murrill; Almond mushroom; Next generation sequencing; Simple sequence repeats

Indexed keywords

AGARICUS SUBRUFESCENS; ALLELE; ARTICLE; CONTROLLED STUDY; FUNGAL EXAMINATION; FUNGAL REPRODUCTION; FUNGAL STRAIN; GENE LIBRARY; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC ORIGIN; HETEROZYGOSITY; MEDICINAL MUSHROOM; MICROSATELLITE MARKER; MULTIPLEX POLYMERASE CHAIN REACTION; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMORPHIC LOCUS; PRIORITY JOURNAL; PROCESS DEVELOPMENT; PYROSEQUENCING; SIMPLE SEQUENCE REPEAT;

AGARICUS; DNA PRIMERS; DNA, FUNGAL; GENETIC VARIATION; GENOTYPE; HUMANS; MICROSATELLITE REPEATS; MOLECULAR SEQUENCE DATA; MOLECULAR TYPING; MYCOLOGICAL TYPING TECHNIQUES; SEQUENCE ANALYSIS, DNA;

AGARICUS BLAZEI; AGARICUS SUBRUFESCENS; BASIDIOMYCOTA; PRUNUS DULCIS;

EID: 84865414459     PISSN: 03781097     EISSN: 15746968     Source Type: Journal    
DOI: 10.1111/j.1574-6968.2012.02627.x     Document Type: Article

References (34)

1. Abbott CL, Ebert D, Tabata A & Therriault TW (2011) Twelve microsatellite markers in the invasive tunicate, Didemnum vexillum, isolated from low genome coverage 454 pyrosequencing reads. Conserv Genet Resour 3: 79-81.
2. Abdelkrim J, Robertson B, Stanton JA & Gemmell N (2009) Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing. Biotechniques 46: 185-192.
3. Allan GJ & Max TL (2010) Molecular genetic techniques and markers for ecological research. Nature Education Knowledge 1: 2.
4. Buehler D, Graf R, Holderegger R & Gugerli F (2011) Using the 454 pyrosequencing-based technique in the development of nuclear microsatellite loci in the alpine plant Arabis alpina (Brassicaceae). Am J Bot 98: e103-e105.
5. Carvalho DC, Rodriguez-Zarate CJ, Hammer MP & Beheregaray LB (2011) Development of 21 microsatellite markers for the threatened Yarra pygmy perch (Nannoperca obscura) through 454 shot-gun pyrosequencing. Conserv Genet Resour 3: 601-604.
6. Colauto NB, Dias ES, Gimenes MA & da Eira AF (2002) Genetic characterization of isolates of the basidiomycete Agaricus blazei by RAPD. Braz J Microbiol 33: 131-133.
7. Delmas CE, Lhuillier E, Pornon A & Escaravage N (2011) Isolation and characterization of microsatellite loci in Rhododendron ferrugineum (Ericaceae) using pyrosequencing technology. Am J Bot 98: e120-e122.
8. Dutech C, Enjalbert J, Fournier E, Delmotte F, Barres B, Carlier J, Tharreau D & Giraud T (2007) Challenges of microsatellite isolation in fungi. Fungal Genet Biol 44: 933-949.
9. Firenzuoli F, Gori L & Lombardo G (2008) The medicinal mushroom Agaricus blazei Murrill: review of literature and pharmaco-toxicological problems. Evid Based Complement Alternat Med 5: 3-15.
10. Foulongne-Oriol M, Spataro C & Savoie JM (2009) Novel microsatellite markers suitable for genetic studies in the white button mushroom. Agaricus bisporus Appl Microbiol Biotechnol 1184: 1125-1135.
11. Fukuda M, Ohno S & LKato L (2003) Genetic variation in cultivated strains of Agaricus blazei Mycoscience 44: 431-436.
12. Gardner MG, Fitch AJ, Bertozzi T & Lowe AJ (2011) Rise of the machines - recommendations for ecologists when using next generation sequencing for microsatellite development. Mol Ecol Resour 11: 1093-1101.
13. Guichoux E, Lagache L, Wagner S et al. (2011) Current trends in microsatellite genotyping. Mol Ecol Resour 11: 591-611.
14. Kerrigan RW (2005) Agaricus subrufescens, a cultivated edible and medicinal mushroom, and its synonyms. Mycologia 97: 12-24.
15. Kerrigan RW (2007) Inclusive and exclusive concepts of Agaricus subrufescens Peck: a reply to Wasser et al.. Int J Med Mushrooms 9: 79-83.
16. Kerrigan RW, Callac P, Guinberteau J, Challen MP & Parra LA (2005) Agaricus section Xanthodermatei: a phylogenetic reconstruction with commentary on taxa. Mycologia 97: 1292-1315.
17. Largeteau M, Llarena-Hernandez RC, Regnault-Roger C & Savoie JM (2011) The medicinal Agaricus mushroom cultivated in Brazil: biology, cultivation and non-medicinal valorisation. Appl Microbiol Biotechnol 92: 897-907.
18. Liu K & Muse SV (2005) PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128-2129.
19. Mahmud MA, Kitaura H & Fukuda M (2007) AFLP analysis for examining genetic differences in cultivated strains and their single-spore isolates and for confirming sucessful crosses in Agaricus blazei Mycoscience 48: 297-304.
20. Malausa T, Gilles A, Meglecz E et al. (2011) High-throughput microsatellite isolation through 454 GS-FLX Titanium pyrosequencing of enriched DNA libraries. Mol Ecol Resour 11: 638-644.
21. Mizuno T, Hagiwara T, Nakamura T, Ito H, Shimura K, Sumiya T & Asakura A (1990a) Studies on the host-mediated antitumor polysaccharides .13. antitumor-activity and some properties of water-soluble polysaccharides from himematsutake, the fruiting body of Agaricus blazei Murill. Agric Biol Chem 54: 2889-2896.
22. Mizuno T, Inagaki R, Kanao T et al. (1990b) Studies on the host-mediated antitumor polysaccharides. 13. Antitumor-activity and some properties of water-insoluble hetero-glycans from himematsutake, the fruiting body of Agaricus blazei Murill. Agric Biol Chem 54: 2897-2905.
23. Neves MA, Kasuya MCM, Araujo E, Leite CL, Camelini CM, Ribas LC & Mendonça MM (2005) Physiological and genetic variability of commercial isolates of culinary-medicinal mushroom Agaricus braziliensis s. Wasser et al. (Agaricomycetidae) cultivated in Brazil. Int J Med Mushrooms 7: 553-563.
24. Njambere EN, Vandemark G & Chen W (2010) Development and characterisation of microsatellite markers of the fungal plant pathogen Sclerotinia trifoliorum Genome 53: 494-500.
25. Oliveira L, de Almeida Cordova CO, de Toledo NO, Funghetto SS, de Oliveira G & Karnikowski MG (2011) Does the Agaricus blazei Murill mushroom have properties that affect the immune system? An integrative review J Med Food 14: 2-8.
26. Santana QC, Coetzee MPA, Steenkamp ET, Mlonyeni OX, Hammond GNA, Wingfield MJ & Wingfield BD (2009) Microsatellite discovery by deep sequencing of enriched genomic libraries. Biotechniques 46: 217-223.
27. Selkoe KA & Toonen RJ (2006) Microsatellites for ecologists: a practical guide to using and evaluating microsatellite markers. Ecol Lett 9: 615-629.
28. Tomizawa MM, Dias ES, de Assis LJ, Gomide PHO & dos Santos JB (2007) Genetic variability of mushroom isolates Agaricus blazei using markers RAPD. Cienc E Agrotecnol 31: 1242-1249.
29. Wasser SP, Didukh MY, Amazonas MALD, Nevo E, Stamets P & Eira AF (2002) Is a widely cultivated culinary-medicinal Royal Sun Agaricus (the Himematsutake mushroom) indeed Agaricus blazei Murill? Int J Med Mushrooms 4: 267-290.
30. Wasser SP, Didukh MY, Amazonas MALD, Nevo E, Stamets P & Eira AF (2005) Is a widely cultivated culinary-medicinal Royal Sun Agaricus (Champignon do Brazil, or the Himematsutake mushroom) Agaricus brasiliensis S. Wasser et al. indeed a synonym of A. subrufescens Peck?. Int J Med Mushrooms 7: 507-511.
31. Wisitrassameewong K, Karunarathna SC, Thongklang N, Zhao R, Callac P, Moukha S, Férandon C, Chukeatirote E & Hyde K (2012) Agaricus subrufescens: a review. Saudi J Biol Sci 19: 131-146.
32. Zhao RL, Karunarathna S, Raspé O et al. (2011) Major clades in tropical Agaricus Fungal Divers 51: 279-296.
33. Zhao RL, Hyde K, Desjardin DE, Raspé O, Soytong K, Guinberteau J, Karunarathna S & Callac P (2012) Agaricus flocculosipes sp. nov., a new potentially cultivatable species from the tropics. Mycoscience 53: 300-311.
34. Zied DC, Pardo-Gimenez A, Savoie JM, Pardo-Gonzalez JR & Callac P (2011) 'Indoor' method of composting and genetic breeding of the strains to improve yield and quality of the almond mushroom Agaricus subrufescens 7th International Conference on Mushroom Biology and Mushroom Products, Vol. 1 ( Savoie JM, Foulongne-Oriol M, Largeteau M & Barroso G, eds), pp. 424-432. http://wsmbmp.org/Previous_Conference_7.html, Arcachon, France.