水产品中特定腐败菌分析技术的研究进展
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摘要
随着我国居民生活水平的提高,人们已经不再满足于单一的饮食品种,所以,近年来我国的水产品消费呈现出逐年增长的趋势。由于水产品在捕捞后的贮藏过程中极易发生腐败变质,其中引起水产品腐败的主要原因是特定腐败菌的代谢和生长,因此,对水产品中特定腐败菌的分析技术进行研究具有重要意义。该文主要针对国内外水产品特定腐败菌分析技术的研究现状进行综述,总结分析聚合酶链反应基因组指纹(polymerase chain reaction-repetitiveextra-genic palindromic,Rep-PCR)分析技术、聚合酶链反应变性梯度凝胶电泳(polymerase chain reaction-denaturinggradient gel electrophoresis,PCR-DGGE)分析技术、聚合酶链反应温度梯度凝胶电泳(polymerase chain reaction-temperature gradient gel electrophoresis,PCR-TGGE)分析技术、聚合酶链反应限制性片段长度多态性(polymerase chainreaction-restriction fragment length polymorphism,PCR-RFLP)分析技术和高通量测序技术各自的特点,以期为这方面的研究提供一定的参考。
With the improvement of the living standards of our residents,people are no longer satisfied with a single dietary variety. In recent years,China's aquatic product consumption had shown an increasing trend year by year. However,aquatic products are easy to spoilage during storage.Specific spoilage organisms are the main factors for the corruption of aquatic products. It was of great significance to carry out research on the analysis technology of specific spoilage organisms in aquatic products. It focused on the research of analysis techniques from domestic and foreign specific spoilage organisms in aquatic products. The article summarized the analysis of polymerase chain reaction-repetitive extra-genic palindromic(Rep-PCR)fingerprinting technology,polymerase chain reaction-denaturing gradient gel electrophoresis(PCR-DGGE)analysis technology,polymerase chain reaction-temperature gradient gel electrophoresis(PCR-TGGE)analysis technology,polymerase chain reaction-restriction fragment length polymorphism(PCR-RFLP)analysis technology and high-throughput sequencing technology in order to provide some references for the research in this aspect.
With the improvement of the living standards of our residents,people are no longer satisfied with a single dietary variety. In recent years,China's aquatic product consumption had shown an increasing trend year by year. However,aquatic products are easy to spoilage during storage.Specific spoilage organisms are the main factors for the corruption of aquatic products. It was of great significance to carry out research on the analysis technology of specific spoilage organisms in aquatic products. It focused on the research of analysis techniques from domestic and foreign specific spoilage organisms in aquatic products. The article summarized the analysis of polymerase chain reaction-repetitive extra-genic palindromic(Rep-PCR)fingerprinting technology,polymerase chain reaction-denaturing gradient gel electrophoresis(PCR-DGGE)analysis technology,polymerase chain reaction-temperature gradient gel electrophoresis(PCR-TGGE)analysis technology,polymerase chain reaction-restriction fragment length polymorphism(PCR-RFLP)analysis technology and high-throughput sequencing technology in order to provide some references for the research in this aspect.
引文
[1]应晓国,袁宁,邓尚贵,等.水产品质量安全检测技术研究进展[J].食品安全质量检测学报,2017,8(4):1196-1202
[2]李明爽,全国出口水产品优势养殖区域发展规划(2008-2015年)区域布局与发展重点[J].中国水产,2009(3):2-3
[3]董金和.《2013中国渔业统计年鉴》解读[J].中国水产,2013(7):19-20
[4]LI T T,LI J R,HU W Z,et al.Shelf-life extension of crucian carp(Carassius auratus)using natural preservatives during chilled storage[J].Food Chemistry,2012,135:140-145
[5]Painter J A.Attribution of foodborne illnesses,hospitalizations,and deaths to food commodities by using outbreak data,United States,1998-2008[J].Emerging Infectious Diseases,2013,19(3):407-415
[6]罗庆华.水产品特定腐败菌研究进展[J].食品科学,2010(23):33-39
[7]LLOYD M A,HESS S J,DRAKE M A.Effect of nitrogen flushing and storage temperature on flavor and shelf-life of whole milk powder[J].Journal of Dairy Science,2009,92(6):2409-2422
[8]沈月新.水产食品学[M].北京:中国农业出版社,2000:56-67
[9]王庆丽.养殖大黄鱼和海水鲈鱼冷藏过程中特定腐败菌的鉴别[D].杭州:浙江工商大学,2012:1-8
[10]Gennari M,Tomaselli S,Cotrona V.The microflora of fresh and spoiled sardines(Sardina pilchadus)caught in Adriatic(Mediterranean)sea and stored in ice[J].Food Microbiology,1999,16:15-28
[11]Surendran P K,Joseph J,Shenoy A V,et al.Studies on spoilage of commercially important tropical fishes under iced storage[J].Fish Research,1989,7:1-9
[12]Gram L,Troll G,Huss H H.Detection of specific spoilage bacteria from fish stored at low(0℃)and high(20℃)temperature[J].International Journal of Food Microbiology,1987,4:65-72
[13]Taoukis P S,Koutsoumanis K,Nychas G J E.Use of time temperature integrators and predictive modelling for shelf life control of chilled fish under dynamic storage conditions[J].International Journal of Food Microbiology,1999,53:21-31
[14]Dalgaard P.Qualitative and quantitative characterization of spoilage bacteria from packed fish[J].Internation Journal of Food Microbiology,1995,26:319-333
[15]Dalgaard P.Freshness,quality and safety in seafoods[A].http//www.exp.ie/flair.html(2018-4-20)
[16]杨宪时,许钟,肖琳琳.水产食品特定腐败菌与货架期的预测和延长[J].水产学报,2004,28(1):106-111
[17]Gram L,Hans H H.Microbiological spoilage of fish and fish product[J].International Journal of Food Microbiology,1996,33:65-83
[18]Jos H J,Huis I V.Microbial and biochemical spoilage of foods:an overview[J].International Journal of Food Microbiolog,1996,33(2):1-18
[19]陈奖励,何邵阳,赵文.水产微生物学[M].北京:中国农业出版社,1993:99-123
[20]Koutsoumains K,Nychas G J E.Chemical and sensory changes a SSO ciated with microbial flora of Mediterranean Boque(Boops boops)stored aerobically at 0,3,7 and 10℃[J].Applied and Environmental Microbiology,1999,65:698-706
[21]Stenstrom I M,Molin G.Classification of the spoilage flora of fish with special reference of Shewanella putrefaciens[J].Journal of Applied Microbiology,1990,68:601-618
[22]陈晓倩,殷浩文.微生物群落多样性分析方法的进展[J].上海环境科学,2003(3):33-39
[23]雷正瑜.16SrDNA序列分析技术在微生物分类鉴定中的应用[J].湖北生态职业技术学院学报,2006,33(1):53-59
[24]侍浏洋.鲍病原菌的分离、鉴定及微生物群落动态变化与病害相关性研究[D].厦门:厦门大学,2014:8-10
[25]Priscilla E,Dombek,Leeann K.Use of repetitive DNA sequences and the PCR to differentiate Escherichia coli isolates from human and animal sources[J].Applied and Environmental Microbiology,2000,66:2572-2577
[26]Duan H Y,Chai T J,Liu J Z,et al.Source identification of airborne Escherichia coli of swine house surroundings using ERIC-PCR and REP-PCR[J].Environmental Research,2009,109:511-517
[27]Bidyut R M,Klaas B,Asit M.Differentiation of fecal Escherichia coli from poultry and free-living birds by(GTG)5-PCR genomic fingerprintin[J].International Journal of Medical Microbiology,2008,298:245-252
[28]Priscilla E,Leeann K J.et al.Use of repetitive DNA sequences and the PCR to differentiate Escherichia coli isolates from human and animal sources[J].Applied and Environmental Microbiology,2000,66:2572-2577
[29]Stoeckel,Donald M,Valerie J H.Performance,Design and Analysis in Microbial Source Tracking Studies[J].Applied and Environmental Microbiology.2007,73:2405-2415
[30]Cimenti M,Biswasi N.Evaluation of microbial indicators for the determination of bacterial groundwater contamination sources[J].Applied and Environmental Microbiology,2005,32:34-38
[31]Wheeler A L,Hartel P G.Potential of enterococcus faecalis as a human fecal indicator for microbial source tracking[J].Journal of Environmental Quality.2002,31:1286-1293
[32]U S Environmental Protection Agency.Improved enumeration methods for recreational water quality indicators:enterococcia and Escherichia coli.EPA1821/R-971004[M].Washington:Office of Science and Technology,2000,23:99-103
[33]Harwood V J,Withington V.Classification of antibiotic resistance patterns of indicator bacteria by discriminant analysis:use in predicting the source of fecal contamination in subtropical waters[J].Applied and Environmental Microbiology,2000,66:3698-3704
[34]Maite M,Andrey P.Differential persistence of F-specific RNAphage subgroups hinders their use as single tracers for fecal source tracking in surface water[J].Water Research,2008,12:77-79
[35]Katharine G,Fielda M S.Fecal source tracking,the indicator paradigm,and managing water quality[J].Water Research,2007,41:3517-3538
[36]Sunny C,Jiang W,Chu B H.Microbial source tracking in a small southern California urban watershed indicates wild animals and growth as the source of fecal bacteria[J].Applied Microbiology Biotechnology,2007,76:927-934
[37]Lin C W,Chiou C S,Chang Y C,et al.Comparison of pulsed-field gel electrophoresis and three rep-PCR methods for evaluating the genetic relatedness of Stenotrophomonas maltophilia isolates[J].Letters in Applied Microbiology,2008,47(5):393
[38]Mohammadjavad P,Cindy S J T,Kwai L T.Prevalence and characterisation of potentially virulent Vibrio parahaemolyticus in seafood in Malaysia using conventional methods,PCR and REP-PCR[J].Food Control,2013,32(1):13-18
[39]Konstantinov S,Zhu W Y.Effect of fermentable carbohydrates on piglet faecal bacterial communities as revealed by denaturing gradient gel electrophoresis analysis of 16S ribosomal DNA[J].Fems Microbiology Ecology.2003,43:225-235
[40]Muyzer G,Waal E C,Uitterlinden G A.Profiling of complex populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA[J].Applied And Environmental Microbiology,1993,59:695-700
[41]Fischer S G,Lerman L S.DNA fragments differing by single basepair substitutions are separated in denaturing gradient gels:correspondence with melting theory[J].Proceedings of the National A-cademy of Science of USA,1983,80:1579-1583
[42]Muyzer G,Ellen C D W,Andre G U.Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction genes coding for 16S rRNA[J].Applied and Environmental Microbiology,1993,59:695-700
[43]Lerman L S,Fischer S G.Sequence-determined DNA separations[M].Palo Alto:Annu Rev Biophys Bioeng,1984,13:399-423
[44]Fischer S G,and Lerman L S.DNA fragments differing by single base-pair substitutions are separated in denaturing gradient gels:correspondence with melting theory[D].Proceedings of the National Academy of Sciences of the United States of America's Latest Table of Contents.1983,80:1579-1583
[45]Huang Z B,Guo F,Zhao J,et al.Molecular analysis of the intestinal bacterial flora in cage-cultured adult small abalone,Haliotis diversicolor[J].Aquaculture Research,2010,41(11):760-769
[46]Zhao J,Shi B,Jiang Q R,et al.Changes in gut-associated flora and bacterial digestive enzymes during the development stages of abalone(Haliotis diversicolo)[J].Aquaculture,2012,338-341:147-153
[47]张新林,谢晶,钱韻芳,等.PCR-DGGE法结合传统技术研究4℃冷链贮运条件下三文鱼菌相变化[J].食品科学,2016,37(24):271-277
[48]王慧敏,王庆丽,朱军莉.鲈鱼在微冻贮藏下品质及优势腐败菌的变化[J].食品工业科技,2013,34(20):330-335
[49]顾采东.基于PCR-TGGE技术研究不同热处理对牛乳杀菌效果的影响[D].沈阳:沈阳农业大学,2017
[50]叶姜瑜,彭德,陆榆丰,等.聚甲醛废水的生物强化处理及微生物种群动态分析[J].环境科学学报,2017,37(5):1681-1687
[51]江芸,高峰.PCR-TRFLP研究托盘包装冷却猪肉冷藏过程中的菌相变化[J].浙江大学学报,2011,37(5):565-572
[52]陈明霞,李和阳.九龙江口沉积物TCBS(Thiosulfate Citrate Bile Salts Sucrose)菌群的分布[J].微生物学报,2012,52(5):637-644
[53]Juvonen R,Koivula T,Haikara A.Group-specific PCR-RFLP and real-time PCR methods for detection and tentative discrimination of strictly anaerobic beer-spoilage bacteria of the class Clostridia[J].International Journal of Food Microbiology,2008,125(2):162-169
[54]潘子强,陈彦,李彬,等.冷藏真空包装脆肉鲩鱼特定腐败菌的分析[J].食品科技,2013,38(9):109-113
[55]Shendure J,Ji H.Next-generation DNA sequencing[J].Nature biotechnology,2008,26(10):1135-1145
[56]张芹,周中凯,任晓冲.高通量测序技术研究高糖饮食对小鼠肠道菌群的影响[J].食品安全质量检测学报,2015,6(5):1776-1782
[57]江艳华,王联珠,许东勤,等.基于高通量测序分析虾夷扇贝柱菌群结构及腐败优势菌[J].食品科学,2018(20):140-145
[58]曹荣,刘淇,赵玲,等.基于高通量测序的牡蛎冷藏过程中微生物群落分析[J].农业工程学报,2016,32(20):275-280
[2]李明爽,全国出口水产品优势养殖区域发展规划(2008-2015年)区域布局与发展重点[J].中国水产,2009(3):2-3
[3]董金和.《2013中国渔业统计年鉴》解读[J].中国水产,2013(7):19-20
[4]LI T T,LI J R,HU W Z,et al.Shelf-life extension of crucian carp(Carassius auratus)using natural preservatives during chilled storage[J].Food Chemistry,2012,135:140-145
[5]Painter J A.Attribution of foodborne illnesses,hospitalizations,and deaths to food commodities by using outbreak data,United States,1998-2008[J].Emerging Infectious Diseases,2013,19(3):407-415
[6]罗庆华.水产品特定腐败菌研究进展[J].食品科学,2010(23):33-39
[7]LLOYD M A,HESS S J,DRAKE M A.Effect of nitrogen flushing and storage temperature on flavor and shelf-life of whole milk powder[J].Journal of Dairy Science,2009,92(6):2409-2422
[8]沈月新.水产食品学[M].北京:中国农业出版社,2000:56-67
[9]王庆丽.养殖大黄鱼和海水鲈鱼冷藏过程中特定腐败菌的鉴别[D].杭州:浙江工商大学,2012:1-8
[10]Gennari M,Tomaselli S,Cotrona V.The microflora of fresh and spoiled sardines(Sardina pilchadus)caught in Adriatic(Mediterranean)sea and stored in ice[J].Food Microbiology,1999,16:15-28
[11]Surendran P K,Joseph J,Shenoy A V,et al.Studies on spoilage of commercially important tropical fishes under iced storage[J].Fish Research,1989,7:1-9
[12]Gram L,Troll G,Huss H H.Detection of specific spoilage bacteria from fish stored at low(0℃)and high(20℃)temperature[J].International Journal of Food Microbiology,1987,4:65-72
[13]Taoukis P S,Koutsoumanis K,Nychas G J E.Use of time temperature integrators and predictive modelling for shelf life control of chilled fish under dynamic storage conditions[J].International Journal of Food Microbiology,1999,53:21-31
[14]Dalgaard P.Qualitative and quantitative characterization of spoilage bacteria from packed fish[J].Internation Journal of Food Microbiology,1995,26:319-333
[15]Dalgaard P.Freshness,quality and safety in seafoods[A].http//www.exp.ie/flair.html(2018-4-20)
[16]杨宪时,许钟,肖琳琳.水产食品特定腐败菌与货架期的预测和延长[J].水产学报,2004,28(1):106-111
[17]Gram L,Hans H H.Microbiological spoilage of fish and fish product[J].International Journal of Food Microbiology,1996,33:65-83
[18]Jos H J,Huis I V.Microbial and biochemical spoilage of foods:an overview[J].International Journal of Food Microbiolog,1996,33(2):1-18
[19]陈奖励,何邵阳,赵文.水产微生物学[M].北京:中国农业出版社,1993:99-123
[20]Koutsoumains K,Nychas G J E.Chemical and sensory changes a SSO ciated with microbial flora of Mediterranean Boque(Boops boops)stored aerobically at 0,3,7 and 10℃[J].Applied and Environmental Microbiology,1999,65:698-706
[21]Stenstrom I M,Molin G.Classification of the spoilage flora of fish with special reference of Shewanella putrefaciens[J].Journal of Applied Microbiology,1990,68:601-618
[22]陈晓倩,殷浩文.微生物群落多样性分析方法的进展[J].上海环境科学,2003(3):33-39
[23]雷正瑜.16SrDNA序列分析技术在微生物分类鉴定中的应用[J].湖北生态职业技术学院学报,2006,33(1):53-59
[24]侍浏洋.鲍病原菌的分离、鉴定及微生物群落动态变化与病害相关性研究[D].厦门:厦门大学,2014:8-10
[25]Priscilla E,Dombek,Leeann K.Use of repetitive DNA sequences and the PCR to differentiate Escherichia coli isolates from human and animal sources[J].Applied and Environmental Microbiology,2000,66:2572-2577
[26]Duan H Y,Chai T J,Liu J Z,et al.Source identification of airborne Escherichia coli of swine house surroundings using ERIC-PCR and REP-PCR[J].Environmental Research,2009,109:511-517
[27]Bidyut R M,Klaas B,Asit M.Differentiation of fecal Escherichia coli from poultry and free-living birds by(GTG)5-PCR genomic fingerprintin[J].International Journal of Medical Microbiology,2008,298:245-252
[28]Priscilla E,Leeann K J.et al.Use of repetitive DNA sequences and the PCR to differentiate Escherichia coli isolates from human and animal sources[J].Applied and Environmental Microbiology,2000,66:2572-2577
[29]Stoeckel,Donald M,Valerie J H.Performance,Design and Analysis in Microbial Source Tracking Studies[J].Applied and Environmental Microbiology.2007,73:2405-2415
[30]Cimenti M,Biswasi N.Evaluation of microbial indicators for the determination of bacterial groundwater contamination sources[J].Applied and Environmental Microbiology,2005,32:34-38
[31]Wheeler A L,Hartel P G.Potential of enterococcus faecalis as a human fecal indicator for microbial source tracking[J].Journal of Environmental Quality.2002,31:1286-1293
[32]U S Environmental Protection Agency.Improved enumeration methods for recreational water quality indicators:enterococcia and Escherichia coli.EPA1821/R-971004[M].Washington:Office of Science and Technology,2000,23:99-103
[33]Harwood V J,Withington V.Classification of antibiotic resistance patterns of indicator bacteria by discriminant analysis:use in predicting the source of fecal contamination in subtropical waters[J].Applied and Environmental Microbiology,2000,66:3698-3704
[34]Maite M,Andrey P.Differential persistence of F-specific RNAphage subgroups hinders their use as single tracers for fecal source tracking in surface water[J].Water Research,2008,12:77-79
[35]Katharine G,Fielda M S.Fecal source tracking,the indicator paradigm,and managing water quality[J].Water Research,2007,41:3517-3538
[36]Sunny C,Jiang W,Chu B H.Microbial source tracking in a small southern California urban watershed indicates wild animals and growth as the source of fecal bacteria[J].Applied Microbiology Biotechnology,2007,76:927-934
[37]Lin C W,Chiou C S,Chang Y C,et al.Comparison of pulsed-field gel electrophoresis and three rep-PCR methods for evaluating the genetic relatedness of Stenotrophomonas maltophilia isolates[J].Letters in Applied Microbiology,2008,47(5):393
[38]Mohammadjavad P,Cindy S J T,Kwai L T.Prevalence and characterisation of potentially virulent Vibrio parahaemolyticus in seafood in Malaysia using conventional methods,PCR and REP-PCR[J].Food Control,2013,32(1):13-18
[39]Konstantinov S,Zhu W Y.Effect of fermentable carbohydrates on piglet faecal bacterial communities as revealed by denaturing gradient gel electrophoresis analysis of 16S ribosomal DNA[J].Fems Microbiology Ecology.2003,43:225-235
[40]Muyzer G,Waal E C,Uitterlinden G A.Profiling of complex populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA[J].Applied And Environmental Microbiology,1993,59:695-700
[41]Fischer S G,Lerman L S.DNA fragments differing by single basepair substitutions are separated in denaturing gradient gels:correspondence with melting theory[J].Proceedings of the National A-cademy of Science of USA,1983,80:1579-1583
[42]Muyzer G,Ellen C D W,Andre G U.Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction genes coding for 16S rRNA[J].Applied and Environmental Microbiology,1993,59:695-700
[43]Lerman L S,Fischer S G.Sequence-determined DNA separations[M].Palo Alto:Annu Rev Biophys Bioeng,1984,13:399-423
[44]Fischer S G,and Lerman L S.DNA fragments differing by single base-pair substitutions are separated in denaturing gradient gels:correspondence with melting theory[D].Proceedings of the National Academy of Sciences of the United States of America's Latest Table of Contents.1983,80:1579-1583
[45]Huang Z B,Guo F,Zhao J,et al.Molecular analysis of the intestinal bacterial flora in cage-cultured adult small abalone,Haliotis diversicolor[J].Aquaculture Research,2010,41(11):760-769
[46]Zhao J,Shi B,Jiang Q R,et al.Changes in gut-associated flora and bacterial digestive enzymes during the development stages of abalone(Haliotis diversicolo)[J].Aquaculture,2012,338-341:147-153
[47]张新林,谢晶,钱韻芳,等.PCR-DGGE法结合传统技术研究4℃冷链贮运条件下三文鱼菌相变化[J].食品科学,2016,37(24):271-277
[48]王慧敏,王庆丽,朱军莉.鲈鱼在微冻贮藏下品质及优势腐败菌的变化[J].食品工业科技,2013,34(20):330-335
[49]顾采东.基于PCR-TGGE技术研究不同热处理对牛乳杀菌效果的影响[D].沈阳:沈阳农业大学,2017
[50]叶姜瑜,彭德,陆榆丰,等.聚甲醛废水的生物强化处理及微生物种群动态分析[J].环境科学学报,2017,37(5):1681-1687
[51]江芸,高峰.PCR-TRFLP研究托盘包装冷却猪肉冷藏过程中的菌相变化[J].浙江大学学报,2011,37(5):565-572
[52]陈明霞,李和阳.九龙江口沉积物TCBS(Thiosulfate Citrate Bile Salts Sucrose)菌群的分布[J].微生物学报,2012,52(5):637-644
[53]Juvonen R,Koivula T,Haikara A.Group-specific PCR-RFLP and real-time PCR methods for detection and tentative discrimination of strictly anaerobic beer-spoilage bacteria of the class Clostridia[J].International Journal of Food Microbiology,2008,125(2):162-169
[54]潘子强,陈彦,李彬,等.冷藏真空包装脆肉鲩鱼特定腐败菌的分析[J].食品科技,2013,38(9):109-113
[55]Shendure J,Ji H.Next-generation DNA sequencing[J].Nature biotechnology,2008,26(10):1135-1145
[56]张芹,周中凯,任晓冲.高通量测序技术研究高糖饮食对小鼠肠道菌群的影响[J].食品安全质量检测学报,2015,6(5):1776-1782
[57]江艳华,王联珠,许东勤,等.基于高通量测序分析虾夷扇贝柱菌群结构及腐败优势菌[J].食品科学,2018(20):140-145
[58]曹荣,刘淇,赵玲,等.基于高通量测序的牡蛎冷藏过程中微生物群落分析[J].农业工程学报,2016,32(20):275-280