The ApMat marker can resolve Colletotrichum species: A case study with Mangifera indica

Fungal Diversity

Volumn 61, Issue 1, 2013, Pages 117-138

  Sharma, Gunjan ^a   Kumar, Navinder ^a   Weir, Bevan S ^b   Hyde, Kevin D ^c   Shenoy, Belle Damodara ^d  

^a INSTITUTE OF MICROBIAL TECHNOLOGY   (India)

^b LANDCARE RESEARCH   (New Zealand)

^c MAE FAH LUANG UNIVERSITY   (Thailand)

^d NATIONAL INSTITUTE OF OCEANOGRAPHY   (India)

Author keywords

Anthracnose; Identification; Phylogeny; Polyphasic taxonomy; Secondary barcode; Systematics

Indexed keywords

EID: 84884586269     PISSN: 15602745     EISSN: 18789129     Source Type: Journal    
DOI: 10.1007/s13225-013-0247-4     Document Type: Article

References (57)

1. Bailey JA, Jeger MJ (eds) (1992) Colletotrichum: Biology, pathology and control. CAB Int, Wallingford
2. Cai L, Hyde KD, Taylor PWJ, Weir BS, Waller J, Abang MM, Zhang JZ, Yang YL, Phoulivong S, Liu ZY, Prihastuti H, Shivas RG, McKenzie EHC, Johnston PR (2009) A polyphasic approach for studying Colletotrichum. Fungal Divers 39:183-204
3. Cai L, Giraud T, Zhang N, Begerow D, Cai G, Shivas RG (2011) The evolution of species concepts and species recognition criteria in plant pathogenic fungi. Fungal Divers 50:121-133
4. Cannon PF, Buddie AG, Bridge PD (2008) The typification of Colletotrichum gloeosporioides. Mycotaxon 104:189-204
5. Cannon PF, Damm U, Johnston PR, Weir BS (2012) Colletotrichum - current status and future directions. Stud Mycol 73:181-213
6. Chadha KL (2009) Handbook of Horticulture. Directorate of Information and Publication of Agriculture. ICAR, Krishi Anusandhan Bhavan (PUSA), New Delhi. pp 239-245
7. Crouch JA, Clarke BB, Hillman BI (2009) What is the value of ITS sequence data in Colletotrichum systematics and species diagnosis? A case study using the falcate-spored graminicolous Colletotrichum group. Mycologia 101:648-656
8. Damm U, Wouldenberg JHC, Cannon PF, Crous PW (2009) Colletotrichum species with curved conidia from herbaceous hosts. Fungal Divers 39:45-87
9. Damm U, Baroncelli R, Cai L, Kubo Y, O'Connell R, Weir B, Yoshino K, Cannon PF (2010) Colletotrichum: species, ecology and interactions. IMA Fungus 1:161-165
10. DCGIS Annual Report (2012) Agriculture and Processed food products Export Development Authority (APEDA), Ministry of Commerce and Industry, Government of India, information accessed online on 23rd April, 2013 from http://agriexchange.apeda.gov.in/product-profile/exp-f-india.aspx?categorycode= 0204
11. Doyle VP, Oudemans PV, Rehner SA, Litt A (2013) Habitat and host indicate lineage identity in Colletotrichum gloeosporioides s. l. from wild and agricultural landscapes in North America. PLoS One 8:e62394
12. Farr DF, Rossman AY (2013) Fungal Databases, Systematic Mycology and Microbiology Laboratory, ARS, USDA. Retrieved April 4, 2013, from http://nt.ars-grin.gov/fungaldatabases/
13. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evol 39:783-791
14. Ferrier P, Petersen E, Landes M (2012) Specialty crop access to US markets: A case study of Indian mangoes. US Department of Agriculture, Economic Research Service
15. Freeman S, Katan T, Shabi E (1998) Characterization of Colletotrichum species responsible for anthracnose diseases of various fruits. Plant Dis 82:596-605
16. Gräfenhan T, Schroers HJ, Nirenberg HI, Seifert KA (2011) An overview of the taxonomy, phylogeny and typification of nectriaceous fungi in Cosmospora, Acremonium, Fusarium, Stilbella and Volutella. Stud Mycol 68:79-113
17. Gupta VK, Pandey A, Kumar P, Pandey BK, Gaur RK, Bajpai V, Sharma N, Sharma S (2010) Genetic characterization of mango anthracnose pathogen Colletotrichum gloeosporioides Penz. by random amplified polymorphic DNA analysis. Afr J Biotechnol 9:4009-4013
18. Hibbett DS, Taylor JW (2013) Fungal systematics: is a new age of enlightenment at hand? Nat Rev Microbiol 11:129-133
19. Hunter GC, Crous PW, Carnegie AJ, Burgess TI, Wingfield MJ (2011) Mycosphaerella and Teratosphaeria diseases of Eucalyptus; easily confused and with serious consequences. Fungal Divers 50:145-166
20. Hyde KD, Cai L, McKenzie EHC, Yang YL, Zhang JZ, Prihastuti H (2009a) Colletotrichum: a catalogue of confusion. Fungal Divers 39:1-17
21. Hyde KD, Cai L, Cannon PF, Crouch JA, Crous PW, Damm U, Goodwin PH, Chen H, Johnston PR, Jones EBG, Liu ZY, McKenzie EHC, Moriwaki J, Noireung P, Pennycook SR, Pfenning LH, Prihastuti H, Sato T, Shivas RG, Tan YP, Taylor PWJ, Weir BS, Yang YL, Zhang JZ (2009b) Colletotrichum - names in current use. Fungal Divers 39:147-182
22. Kishino H, Hasewaga M (1989) Evaluation of maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order of Hominoidea. J Mol Evol 29:170-179
23. Ko Ko TW, McKenzie EHC, Bahkali AH et al. (2011) The need for re-inventory of Thai phytopathogens. Chiang Mai J Sci 38:625-638
24. Kumar AS, Reddy NPE, Reddy KH, Devi MC (2007) Evaluation of fungicidal resistance among Colletotrichum gloeosporioides isolates causing mango anthracnose in Agri Export Zone of Andhra Pradesh, India. Plant Pathol Bull 16:157-160
25. Kumar B, Mistry NC, Singh B, Gandhi CP (2011) Indian Horticulture Databse-2011. National Horticulture Board, Ministry of Agriculture, Government of India, New Delhi
26. Laxmi BKM, Reddy PN, Prasad RD (2011) Cross infection potential of Colletotrichum gloeosporioides Penz. isolates causing anthracnose in subtropical fruit crops. Trop Agric Res 22:183-193
27. Liu JK, Phookamsak R, Doilom M, Wikee S, Li YM, Ariyawansha H, Boonmee S et al. (2012) Towards a natural classification of Botryosphaeriales. Fungal Divers 57:149-210
28. Page RDM (1996) TREEVIEW: an application of display phylogenetic trees on personal computers. Comput Appl Biosci 12:357-358
29. Pavlic D, Slippers B, Coutinho TA, Wingfield MJ (2009) Multiple gene genealogies and phenotypic data reveal cryptic species of the Botryosphaeriaceae: a case study on the Neofusicoccum parvum/N. ribis complex. Mol Phylogenet Evol 51:259-268
30. Peng LJ, Yang Y, Hyde KD, Bahkali AH, Liu Z (2012) Colletotrichum species on Citrus leaves in Guizhou and Yunnan provinces, China. Cryptogam Mycol 33:267-283
31. Peng LJ, Sun T, Yang YL, Cai L, Hyde KD, Bahkali AH, Liu ZY (2013) Colletotrichum species on grape in Guizhou and Yunnan provinces, China. Mycoscience 54:29-41
32. Penzig AGO (1882) Fungi agrumicoli. Contribuzione allo studio dei funghi parassiti degli agrumi. Michelia 2:385-508
33. Phoulivong S, Cai L, Chen H, McKenzie EHC, Abdelsalam K, Chukeatirote E, Hyde KD (2010) Colletotrichum gloeosporioides is not a common pathogen on tropical fruits. Fungal Divers 44:33-43
34. Prihastuti H, Cai L, Chan H, McKenzie EHC, Hyde KD (2009) Characterization of Colletotrichum species associated with coffee berries in northern Thailand. Fungal Divers 39:89-109
35. Rojas EI, Rehner SA, Samuels GJ (2010) Colletotrichum gloeosporioides s. l. associated with Theobroma cacao and other plants in Panama: multilocus phylogenies distinguish host-associated pathogens from asymptomatic endophytes. Mycologia 102:1318-1338
36. Saitou N, Nei M (1987) The neighbor joining method: a new method for re-constructing phylogenetic trees. Mol Biol Evol 4:406-425
37. Sangeetha CG, Rawal RD (2009) Temperature requirements of different isolates of Colletotrichum gloeosporioides isolated from mango. American-Eurasian J Sci Res 4:20-25
38. Sarkiyayi S, Mohammed M, Yakubu A (2013) Comparative analysis of nutritional and anti nutritional contents of some varieties of mango (Mangifera indica) in Kaduna Metropolis-Nigeria. Res J Appl Sci Eng Technol 5:387-391
39. Schoch CL, Crous PW, Groenewald JZ, Boehm EWA, Burgess TI, De Gruyter J, De Hoog GS et al. (2009) A class-wide phylogenetic assessment of Dothideomycetes. Stud Mycol 64:1-15
40. Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, André Levesque C, Chen W et al. (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci (USA) 109:6241-6246
41. Silva DN, Talhinas P, Várzea V, Cai L, Paulo OS, Batista D (2012a) Application of the Apn2/MAT locus to improve the systematics of the Colletotrichum gloeosporioides complex: an example from coffee (Coffea spp.) hosts. Mycologia 104:396-409
42. Silva DN, Talhinhas P, Cai L, Manuel L, Gichuru EK, Loureiro A, Várzea V, Paulo OS, Batista D (2012b) Host-jump drives rapid and recent ecological speciation of the emergent fungal pathogen Colletotrichum kahawae. Mol Ecol 21:2655-2670
43. Singh V, Mishra RK, Mathew AJ, Pandey BK (2013) Molecular characterization of mango anthracnose pathogen Colletotrichum gloeosporioides sensu lato. Gene. doi: 10.1016/j.gene.2013.05.010
44. Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol 57:758-771
45. Summerell BA, Leslie JF (2011) Fifty years of Fusarium: how could nine species have ever been enough? Fungal Divers 50:135-144
46. Summerell BA, Leslie JF, Liew ECY, Laurence MH, Bullock S, Petrovic T, Bentley AR, Howard CG, Peterson SA, Walsh JL (2011) Fusarium species associated with plants in Australia. Fungal Divers 46:1-27
47. Swamy JS (2012) Anthracnose - a devastating pre and post-harvest disease in mango. Int J Plant Prot 5:429-437
48. Swofford DL (2003) PAUP*. Phylogenetic analysis using parsimony (*and other methods). Version 4. Sinauer Associates, Sunderland
49. Tamura K, Nei M, Kumar S (2004) Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci (USA) 101:11030-11035
50. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739
51. Udayanga D, Liu XX, McKenzie EHC, Chukeatirote E, Bahkali AH, Hyde KD (2011) The genus Phomopsis: biology, applications, species concepts and names of common phytopathogens. Fungal Divers 50:189-225
52. Udayanga D, Liu XX, Crous PW, McKenzie EHC, Chukeatirote E, Hyde KD (2012) A multi-locus phylogenetic evaluation of Diaporthe (Phomopsis). Fungal Divers 56:157-171
53. Vaidya G, Lohman DJ, Meier R (2011) SequenceMatrix: concatenation software for the fast assembly of multi-gene datasets with character set and codon information. Cladistics 27:171-180
54. Waller JM (1992) Colletotrichum diseases of perennial and other cash crops. In: Bailey JA, Jeger MJ (eds) Colletotrichum: Biology, pathology and control. CAB International, Wallingford, pp 131-142
55. Weir BS, Johnston PR, Damm U (2012) The Colletotrichum gloeosporioides species complex. Stud Mycol 73:115-180
56. Wikee S, Cai L, Pairin N, McKenzie EHC, Su YY, Chukeatirote E, Thi HN, Bahkali AH, Moslem MA, Abdelsalam K, Hyde KD (2011) Colletotrichum species from Jasmine (Jasminum sambac). Fungal Divers 46:171-182
57. Yang YL, Liu ZY, Cai L, Hyde KD, Yu ZN, McKenzie EHC (2009) Colletotrichum anthracnose of Amaryllidaceae. Fungal Divers 39:123-146