Evaluation of Five DNA Extraction Methods for Different Processed Fish Samples

Abstract

Abstract: It was to find more effective method for DNA extraction, five methodologies for DNA extraction from eleven different processed fish samples were compared. Five methods, including CTAB method and four commercial DNA extraction kits were employed and compared on the extraction of DNA from 11 processed fish samples, such as boiled, oil immersed, fumed, roasted, dried and salt-dried fish etc. The quality and quantity of the extracted DNA were evaluated by measurement of the absorbance at 230, 260 and 280 nm, and by qualitative PCR. The result showed that five methods can all be used to extract from the most processed fish samples, but the quality and quantity of the extracted DNA were different. So every method has its benefits and disadvantages.

Key words: Processed fish samples, DNA extraction, DNA purification, PCR

Li Jinbo, Sheng Jing, Li Xiang, Pan Liangwen, Lü Rong, Yang Jielin,. Evaluation of Five DNA Extraction Methods for Different Processed Fish Samples[J]. Biotechnology Bulletin, 2014, 0(4): 43-49.

References

[1] 上海农业网.中国水产品出口贸易结构的现状及其优化对策［OL]http://www.shac.gov.cn/zxzx/scfx/tjyfx/200712/t20071214 _201314.htm
[2] 国际农产品贸易.我国水产品进出口贸易创新高［OL]http://www.zgnyqss.com/news/yaowen/2012/0516/134530.html
[3] 国家质检总局.进口食品、化妆品警示通报(2010年第57号)：关于美国进口水产品的警示通报［OL] .2010.
[4] 中国养殖网.5月起水产品进美国须进行DNA检测［OL].http://news.spzs.com/NewsView/20885.html
[5] Rooney LW, Serna-Saldivar S. Alkaline-cooked products. In Corn：Chemistry and Technology［M]//Watson SA, Ramstad PE, Eds. American Association of Cereal Chemists：St. Paul, MN, 1987：410-418.
[6] Di Bernardo G, Galderisi U, Cipollaro M, et al. Methods to improve the yield and quality of DNA from dried and processed figs[J]. Biotechnol Prog, 2005, 21(2)：546-549.
[7] Poinar HN, Hofreiter M, Spaulding WG, et al. Molecular coproscopy：dung and diet of the extinct ground sloth Nothrotheriops shastensis[J]. Science, 1998, 281(5375)：402-406.
[8] Vasan S, Zhang X, Kapurniotu A, et al. An agent cleaving glucose-derived protein crosslinks in vitro and in vivo[J]. Nature, 1996, 382(6588)：275-278.
[9] Di Bernardo G, Del Gaudio S, Galderisi U, et al. Comparative evaluation of different DNA extraction procedures from food samples[J]. Biotechnol Prog, 2007, 23(2)：297-301.
[10] Dalmasso A, Fontanella E, Piatti P, et al. A multiplex PCR assay for the identification of animal species in feedstuffs[J]. Molecular and Cellular Probes, 2004(18)：81-87.
[11] Peano C, Samson MC, Palmieri L, et al. Qualitative and quantitative evaluation of the genomic DNA extracted from GMO and non-GMO foodstuffs with four different extraction methods[J]. J Agric Food Chem, 2004, 52(23)：6962-6968.
[12] Smith DS, Maxwell PW, De Boer SH. Comparison of several methods for the extraction of DNA from potatoes and potatoderived products[J]. J Agric Food Chem, 2005, 53(26)：9848-9859.

[1]	YU Hui, WANG Jing, LIANG Xin-xin, XIN Ya-ping, ZHOU Jun, ZHAO Hui-jun. Isolation and Functional Verification of Genes Responding to Iron and Cadmium Stresses in Lycium barbarum [J]. Biotechnology Bulletin, 2023, 39(7): 195-205.
[2]	YAO Zi-ting, CAO Xue-ying, XIAO Xue, LI Rui-fang, WEI Xiao-mei, ZOU Cheng-wu, ZHU Gui-ning. Screening of Reference Genes for RT-qPCR in Neoscytalidium dimidiatum [J]. Biotechnology Bulletin, 2023, 39(5): 92-102.
[3]	GUO San-bao, SONG Mei-ling, LI Ling-xin, YAO Zi-zhao, GUI Ming-ming, HUANG Sheng-he. Cloning and Analysis of Chalcone Synthase Gene and Its Promoter from Euphorbia maculata [J]. Biotechnology Bulletin, 2023, 39(4): 148-156.
[4]	SONG Hai-na, WU Xin-tong, YANG Lu-yu, GENG Xi-ning, ZHANG Hua-min, SONG Xiao-long. Selection and Validation of Reference Genes for RT-qPCR in Allium tuberosum Infected by Botrytis squamosa [J]. Biotechnology Bulletin, 2023, 39(3): 101-115.
[5]	LI Tian-shun, LI Chen-wei, WANG Jia, ZHU Long-Jiao, XU Wen-tao. Efficient Generation of Secondary Libraries During Functional Nucleic Acids Screening [J]. Biotechnology Bulletin, 2023, 39(3): 116-122.
[6]	YU Shi-zhou, CAO Ling-gai, WANG Shi-ze, LIU Yong, BIAN Wen-jie, REN Xue-liang. Development Core SNP Markers for Tobacco Germplasm Genotyping [J]. Biotechnology Bulletin, 2023, 39(3): 89-100.
[7]	MU De-tian, WAN Ling-yun, ZHANG Yao, WEI Shu-gen, LU Ying, FU Jin-e, TIAN Yi, PAN Li-mei, TANG Qi. House-keeping Genes Screening and Expression Patterns Analysis of Genes Involved in Alkaloid Biosynthesis in Uncaria rhynchophylla [J]. Biotechnology Bulletin, 2023, 39(2): 126-138.
[8]	LI Hui-jie, DONG Lian-hua, CHEN Gui-fang, LIU Si-yuan, YANG Jia-yi, YANG Jing-ya. Establishment of Droplet Digital PCR Assay for Quantitative Detection of Pseudomonas cocovenenans in Foods [J]. Biotechnology Bulletin, 2023, 39(1): 127-136.
[9]	HU Xue-ying, ZHANG Yue, GUO Ya-jie, QIU Tian-lei, GAO Min, SUN Xing-bin, WANG Xu-ming. Comparison in Antibiotic Resistance Genes Carried by Bacteriophages and Bacteria in Farmland Soil Amended with Different Fertilizers [J]. Biotechnology Bulletin, 2022, 38(9): 116-126.
[10]	CHENG Shen-wei, ZHANG Ke-qiang, LIANG Jun-feng, LIU Fu-yuan, GAO Xing-liang, DU Lian-zhu. Establishment of a Triple Droplet Digital PCR Quantitative Detection Method for Typical Pathogenic Bacteria in Livestock and Poultry Manure [J]. Biotechnology Bulletin, 2022, 38(9): 271-280.
[11]	CAO Ying-fang, ZHAO Xin, LIU Shuang, LI Rui-huan, LIU Na, XU Shi-yong, GAO Fang-rui, MA Hui, LAN Qing-kuo, TAN Jian-xin, WANG Yong. Establishment of Real-time Fluorescent Quantitative PCR Detection Method for Genetically Modified Herbicide-tolerant Soybean GE-J12 [J]. Biotechnology Bulletin, 2022, 38(7): 146-152.
[12]	SHEN Heng, LIU Si-hui, LI yue, LI Jing-tao, LIANG Wen-xing. Rapid Crude Extraction of Genomic DNA from Solanum lycopersicum for PCR [J]. Biotechnology Bulletin, 2022, 38(6): 74-80.
[13]	YI Fang, LAI Peng-cheng, ZHENG Xi-ao, HU Shuai, GAO Yan-li. Research on the Preparation and Purification of Kod DNA Polymerase [J]. Biotechnology Bulletin, 2022, 38(5): 183-190.
[14]	SUN Bao-zhen, QUAN Long-ping, KANG Hui, YAO Yu-xin, SHEN Tian, CHEN Wei-ping, DU Yuan-peng, GAO Zhen. Back-splicing Primers-based PCR Method for Specific Detection of circRNA [J]. Biotechnology Bulletin, 2022, 38(5): 279-285.
[15]	ZHANG Yu-han, FAN Yi, LI Ting-ting, PANG Shuang, LIU Wei, BAI Ke-yu, ZHANG Xi-mei. Microbial Enrichment on Leaf Surface and DNA Extraction Method Based on the Metagenomics Sequencing [J]. Biotechnology Bulletin, 2022, 38(3): 256-263.