Genetic diversity and phylogenetic analysis of Fusarium oxysporium strains isolated from the Cucurbitaceae hosts revealed by SRAPs

doi:10.13287/j.1001-9332.201703.003

Abstract

Abstract: Cucurbitaceae wilt of different hosts could be caused by Fusarium oxysporum. To clear the genetic diversity and phylogenetic relationship of F. oxysporum isolates from different Cucurbitaceae hosts and regions, genomic DNA of ninety-five strains of F. oxysporum isolated from different hosts and different regions were amplified by sequence-related amplified polymorphism (SRAP) molecular markers. All strains could be uniquely distinguished with 238 polymorphism bands which generated 100% of polymorphic ratio with 19 selective primer pairs. On average, each primer pairs amplified 12.5 loci and 12.5 polymorphic loci. A total of 166 bands of F. oxysporum f. sp. momordicae (FOM) were amplified, among which 145 polymorphic bands generated 87.4% of polymorphic ratio. On average, each primer combination amplified 8.7 loci and 7.7 polymorphic loci. This indicated that genetic variation of F. oxysporum was extensive. The genetic similarity coefficient of F. oxysporum was 0.68-0.99, and the average indexes of Nei’s genetic diversity and Shannon were 0.2390 and 0.3718, respectively. Ninety-five strains of F. oxysporum were divided into four formae speciales from bitter gourd, cucumber, watermelon and melon, when the genetic similarity coefficient was 0.74. In SRAP dendrogram all the FOM isolates were gathered into one phylogenetic branch with the genetic similarity coefficient ranging from 0.78 to 0.99. The average indexes of Nei’s genetic diversity and Shannon indices were 0.1811 and 0.2750, respectively. This indicated that genetic diversity of FOM was abundant, and the classification of phylogenetic group was related to geographic origin to some extent.

TIAN Ye-han, HOU Yuan-yuan, PENG Cai-yun, WANG Yong-yang, HE Bang-ling, GAO Ke-xiang. Genetic diversity and phylogenetic analysis of Fusarium oxysporium strains isolated from the Cucurbitaceae hosts revealed by SRAPs[J]. Chinese Journal of Applied Ecology, 2017, 28(3): 947-956.

References

[1] Jin Y-X (金扬秀), Xie G-L (谢关林). Progresses in Fusarium wilt study of Cucurbitaceae. Plant Protection (植物保护), 2002, 28(6): 43-45 (in Chinese)
[2] Gao J (高军), Gao Z-G (高增贵), Zhao S-B (赵世波), et al.Research progress of Fusarium wilt of gourd vegetable and its control. Journal of Changjiang Vegetables (长江蔬菜), 2006(1): 35-38 (in Chinese)
[3] Qi P-K (戚佩坤). The introduction of Fusarium oxysporium of Cucurbitaceae. Journal of South China Agricultural University (华南农业大学学报), 1995, 16(4): 110-114 (in Chinese)
[4] Duan H-J (段会军), Zhang C-Y (张彩英), Li X-H (李喜焕), et al. Assessment of genetic diversity in Fusarium oxysporum f. sp. niveum by RAPD, ISSR and AFLP analysis. Mycosystema (菌物学报), 2008, 27(2): 267-276 (in Chinese)
[5] Li X-F (李新凤), Zhang G-M (张光明), Chang Y-D (畅引东), et al.Genetic diversity of 21 Fusarium strains in section martiella based on ISSR analysis. Chinese Journal of Applied Ecology (应用生态学报), 2012, 23(5): 1339-1344 (in Chinese)
[6] Baysal , Siragusa M, Gümrükcü E, et al. Molecular characterization of Fusarium oxysporum f. melongenae by ISSR and RAPD markers on eggplant. Biochemical Genetics, 2010, 48: 524-537
[7] Bayraktar H, Dolar FS, Maden S. Use of RAPD and ISSR markers in detection of genetic variation and population structure among Fusarium oxysporum f. sp. ciceris isolates on chickpea in Turkey. Journal of Phytopathology, 2008, 156: 146-154
[8] Li R-Q (李蕊倩), He Y-R (何摇瑞), Zhang Y-B (张跃兵), et al. Establishment of ISSR reaction system of Fusarium and its analysis of genetic diversity. Scientia Agricultura Sinica (中国农业科学), 2009, 42(9): 3139-3146 (in Chinese)
[9] Li G, Quiros CF. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: Its application to mapping and gene tagging in Brassica. Theoretical and Applied Genetics, 2001, 103: 455-461
[10] Wang C-Y (王从彦). Research progresses of SRAP application on plants in genetic diversities. Biotechnology (生物技术), 2011, 21(5): 87-90 (in Chinese)
[11] Li X (李秀), Xu K (徐坤), Gong B (巩彪). Genetic diversity and phylogenetic relationship of ginger germplasm resources revealed by SRAPs. Scientia Agricultura Sinica (中国农业科学), 2014, 47(4): 718-726 (in Chinese)
[12] Aneja B, Yadav NR, Chawla V, et al. Sequence-related amplified polymorphism (SRAP) molecular marker system and its applications in crop improvement. Molecular Breeding, 2012, 30: 1635-1648
[13] Cao L (曹亮), Wei B-Y (魏宝阳), Li S-X (李顺祥). Molecular markers technologies SRAP and SCAR used in research of Chinese herbal medicines. Science & Technology Review (科技导报), 2010, 28(12): 104-109 (in Chinese)
[14] Chen L-L (陈伦林), Zou X-Y (邹小云), Li S-Y (李书宇), et al. Analysis the genetic diversity of rapeseed by SSR and SRAP with emphasis on the difference of this two kinds of markers. Molecular Plant Breeding (分子植物育种), 2008, 6(3): 511-516 (in Chinese)
[15] Qian W-C (钱文成), Zhang G-H (张桂华), Chen F-X (陈飞雪), et al. Characteristics of SRAP maker in detecting polymorphism of cucumber genome. Hereditas (遗传), 2006, 28(11): 1435-1439 (in Chinese)
[16] Liu Z-H (刘志恒), Hu J-X (胡积祥), Hou Y (侯悦), et al. Optimization of SRAP system and primer screening of Rhizoctonia solani in rice. Acta Phytophyla-cica Sinica (植物保护学报), 2013, 40(5): 407-412 (in Chinese)
[17] Lan C-Z (兰成忠), Li B-J (李本金), Chen Q-H (陈庆河), et al. Analysis on genetic diversity of Phytophthora infestans based on SRAP in Fujian Province. Chinese Agricultural Science Bulletin (中国农学通报), 2011, 27(9): 395-399 (in Chinese)
[18] Li L-X (李利霞), Zhao K-H (赵奎华), Liu C-Y (刘长远), et al. Analysis on genetic diversity of Colletotrichum gloeosporioides based on SRAP. Chinese Agricultu-ral Science Bulletin (中国农学通报), 2012, 28(12): 230-235 (in Chinese)
[19] Chen Z-D (陈振东), Yuan G-Q (袁高庆), Li Q-Q (黎起秦), et al. Identification and genetic diversity of Fusarium oxysporum isolates from bitter gourd. Acta Phytopathologica Sinica (植物病理学报), 2014, 44(1): 36-45 (in Chinese)
[20] Zhao B-X (赵柏霞), Gao Z-G (高增贵), Zhuang J-F (庄敬华), et al. UP-PCR diversity analysis of Fusarium population isolated from greenhouse melon soils. Chinese Journal of Applied Ecology (应用生态学报), 2009, 20(4): 857-862 (in Chinese)
[21] Zhang S-Y (张述义), Li X-F (李新凤), Wei X-Y (韦晓艳), et al. Genetic diversity of 33 Fusarium oxys-porum strains. Chinese Journal of Ecology (生态学杂志), 2013, 32(5): 1195-1202 (in Chinese)
[22] Li W (李伟), Sun W-X (孙文秀). Genetic diversity of pathogenesis in watermelon Fusarium oxysporum isolates. Journal of Henan Agricultural University (河南农业大学学报), 2008(2): 70-74 (in Chinese)
[23] Pasquali M, Komjati H, Lee D, et al. SRAP technique efficiently generates polymorphisms in Puccinia striiformis isolates. Journal of Phytopathology, 2010, 158: 708-711
[24] Dinolfo MI, Castaares E, Stenglein SA. SRAP as an informative molecular marker to study the Fusarium poae genetic variability. Journal of Phytopathology, 2015, 163: 657-663
[25] Ren N, Liu JJ, Yang DL, et al. Sequence-related amplified polymorphism (SRAP) marker as a new method for identification of endophytic fungi from Taxus. World Journal of Microbiology and Biotechnology, 2012, 28: 215-221
[26] Xu M-Y (许美燕), Tang C-H (唐传红), Zhang J-S (张劲松), et al. Development of SCAR markers based on SRAP and ISSR for rapid identification of Ganoderma strains. Mycosystema (菌物学报), 2008, 27(5): 707-717 (in Chinese)
[27] Xiong F (熊芳), Liu X-R (刘新锐), Deng Y-J (邓优锦), et al. Development of SCAR markers based on SRAP for rapid identification of Pleurotus cystidiosus O.K. Miller. Chinese Journal of Tropical Crops (热带作物学报), 2012, 33(2): 321-326 (in Chinese)
[28] Xiong F (熊芳), Zheng M-J (郑闽江), Liu X-R (刘新锐), et al. Identification of Pleurotus citrinopileatus breed variety by using SCAR marker technology. Genomics and Applied Biology (基因组学与应用生物学), 2010, 29(3): 593-597 (in Chinese)
[29] Li C-N (李春楠), Cui H-R (崔海瑞), Wang W-B (王伟博). Genetic diversity in rhizosphere soil microbes detected with SRAP markers. Biodiversity Science (生物多样性), 2011, 19(4): 485-493 (in Chinese)