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NTIS 바로가기생태와 환경 = Korean journal of ecology and environment, v.54 no.3, 2021년, pp.199 - 208
김근식 (국립생태원 멸종위기종복원센터) , 김근용 (아쿠아진텍(주)) , 윤주덕 (국립생태원 멸종위기종복원센터)
Environmental DNA (eDNA) metabarcoding is effective method with high detection sensitivity for evaluating fish biodiversity and detecting endangered fish from natural water samples. We compared the richness of operational taxonomic units(OTUs) and composition of freshwater fishes according to filter...
Akamatsu, Y., G. Kume, M. Gotou, T. Kono, T. Fujii, R. Inui and Y. Kurita. 2020. Using environmental DNA analyses to assess the occurrence and abundance of the endangered amphidromous fish Plecoglossus altivelis ryukyuensis. Biodiversity Data Journal 8: e39679. https://doi.org/10.3897/bdj.8.e39679
Akre, T.S., L.D. Parker, E. Ruther, J.E. Maldonado, L. Lemmon and N.R. McInerney. 2019. Concurrent visual encounter sampling validates eDNA selectivity and sensitivity for the endangered wood turtle (Glyptemys insculpta). PLoS ONE 14: e0215586. https://doi.org/10.1371/journal.pone.0215586
Altschul, S.F., W. Gish, W. Miller, E.W. Myers and D.J. Lipman. 1990. Basic local alignment search tool. Journal of Molecular Biology 215: 403-410. https://doi.org/10.1016/S0022-2836(05)80360-2
Anderson, M.J. 2005. PERMANOVA: a FORTRAN Computer Program for Permutational Multivariate Analysis of Aariance. Department of Statistics, University of Auckland, Auckland.
Bergman, P.S., G. Schumer, S. Blankenship and E. Campbell. 2016. Detection of adult green sturgeon using environmental DNA analysis. PLoS ONE 11: e0153500. https://doi.org/10.1371/journal.pone.0153500
Bolyen, E., J.R. Rideout, M.R. Dillon, N.A. Bokulich, C.C. Abnet, G.A. Al-Ghalith, H. Alexander, E.J. Alm, M. Arumugam, F. Asnicar, Y. Bai, J.E. Bisanz, K. Bittinger, A. Brejnrod, C.J. Brislawn, C.T. Brown, B.J. Callahan, A.M. Caraballo-Rodriguez, J. Chase, E.K. Cope, R. Da Silva, C. Diener, P.C. Dorrestein, G.M. Douglas, D.M. Durall, C. Duvallet, C.F. Edwardson, M. Ernst, M. Estaki, J. Fouquier, J.M. Gauglitz, S.M. Gibbons, D.L. Gibson, A. Gonzalez, K. Gorlick, J. Guo, B. Hillmann, S. Holmes, H. Holste, C. Huttenhower, G.A. Huttley, S. Janssen, A.K. Jarmusch, L. Jiang, B.D. Kaehler, K.B. Kang, C.R. Keefe, P. Keim, S.T. Kelley, D. Knights, I. Koester, T. Kosciolek, J. Kreps, M.G.I. Langille, J. Lee, R. Ley, Y.-X. Liu, E. Loftfield, C. Lozupone, M. Maher, C. Marotz, B.D. Martin, D. McDonald, L.J. McIver, A.V. Melnik, J.L. Metcalf, S.C. Morgan, J.T. Morton, A.T. Naimey, J.A. Navas-Molina, L.F. Nothias, S.B. Orchanian, T. Pearson, S.L. Peoples, D. Petras, M.L. Preuss, E. Pruesse, L.B. Rasmussen, A. Rivers, M.S. Robeson II, P. Rosenthal, N. Segata, M. Shaffer, A. Shiffer, R. Sinha, S.J. Song, J.R. Spear, A.D. Swafford, L.R. Thompson, P.J. Torres, P. Trinh, A. Tripathi, P.J. Turnbaugh, S. UlHasan, J.J.J. van der Hooft, F. Vargas, Y. Vazquez-Baeza, E. Vogtmann, M. von Hippel, W. Walters, Y. Wan, M. Wang, J. Warren, K.C. Weber, C.H.D. Williamson, A.D. Willis, Z.Z. Xu, J.R. Zaneveld, Y. Zhang, Q. Zhu, R. Knight and J.G. Caporaso. 2019. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology 37: 852-857. https://doi.org/10.1038/s41587-019-0209-9(2019)
Bylemans, J., E.M. Furlan, D.M. Gleeson, C.M. Hardy and R.P. Duncan. 2018. Does size matter? An experimental evaluation of the relative abundance and decay rates of aquatic environmental DNA. Environmental Science & Technology 52: 6408-6416. https://doi.org/10.1021/acs.est.8b01071
Carim, K., T. Wilcox, M. Young, K. McKelvey, M. Schwartz. 2015. Protocol for collecting eDNA samples from streams [Version 2.1]. Missoula, MT: U.S. Department of Agriculture Forest Service, Conservation NGCfWaF; 2015 July 2015.
Clarke, K.R. and W.M. Warwick. 1994. Similarity-based testing for community pattern: the 2-way layout with no replication. Marine Biology 118: 167-176. https://doi.org/10.1007/BF00699231
Clarke, K.R. and R.N. Gorley. 2006. PRIMER v6: User Manual/Tutorial(Plymouth Routines in Multivariate Ecological Research). PRIMER-E, Plymouth.
Clarke, L.J., J.M. Beard, K.M. Swadling and B.E. Deagle. 2017. Effect of marker choice and thermal cycling protocol on zooplankton DNA metabarcoding studies. Ecology and Evolution 7: 873-883. https://doi.org/10.1002/ece3.2667
Collins, R.A., J. Bakker, O.S. Wangensteen, A.Z. Soto, L. Corrigan, D.W. Sims, M.J. Genner and S. Mariani. 2019. Nonspecific amplification compromises environmental DNA metabarcoding with COI. Methods in Ecology and Evolution 10: 1985-2001. https://doi.org/10.1111/2041-210x.13276
Day, K., H. Campbell, A. Fisher, K. Gibb, B. Hill, A. Rose and S.N. Jarman. 2019. Development and validation of an environmental DNA test for the endangered Gouldian finch. Endangered Species Research 40: 171-182. https://doi.org/10.3354/ESR00987
Deiner, K., J.C. Walser, E. Machler and F. Altermatt. 2015. Choice of capture and extraction methods affect detection of freshwater biodiversity from environmental DNA. Biological Conservation 183: 53-63. https://doi.org/10.1016/j.biocon.2014.11.018
Deiner, K., M.A. Renshaw, Y. Li, B.P. Olds, D.M. Lodge and M.E. Pfrender. 2017. Long-range PCR allows sequencing of mitochondrial genomes from environmental DNA. Methods in Ecology and Evolution 8: 1888-1898. https://doi.org/10.1111/2041-210X.12836
Edgar, R.C. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461. https://doi.org/10.1093/bioinformatics/btq461
Evans, N.T., B.P. Olds, M.A. Renshaw, C.R. Turner, Y. Li, C.L. Jerde, A.R. Mahon, M.E. Pfrender, G.A. Lamberti and D.M. Lodge. 2015. Quantification of mesocosm fish and amphibian species diversity via environmental DNA metabarcoding. Molecular Ecology Resources 16: 29-41. https://doi.org/10.1111/1755-0998.12433
Evans, N.T., Y. Li, M.A. Renshaw, B.P. Olds, K. Deiner, C.R. Turner, C.L. Jerde, D.M. Lodge, G.A. Lamberti and M.E. Pfrender. 2017. Fish community assessment with eDNA metabarcoding: effects of sampling design and bioinformatic filtering. Canadian Journal of Fisheries and Aquatic Sciences 74: 1362-1374. https://doi.org/10.1139/cjfas2016-0306
Ficetola, G.F., C. Miaud, F. Pompanon and P. Taberlet. 2008. Species detection using environmental DNA from water samples. Biology Letters 4: 423-425. https://doi.org/10.1098/rsbl.2008.0118
Ficetola, G.F., J. Pansu, A. Bonin, E. Coissac, C. Giguet-Covex, M. De Barba, L. Gielly, C.M. Lopes, F. Boyer, F. Pompanon, G. Raye and P. Taberlet. 2015. Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data. Molecular Ecology Resources 15: 543-556. https://doi.org/10.1111/1755-0998.12338
Field, J.G., K.R. Clarke and M. Warwick. 1982. A practical strategy for analyzing multi-species distribution patterns. Marine Ecology Progress Series 8: 37-53. https://doi.org/10.3354/meps008037
Fitzpatrick, M.C., E.L. Preisser, A.M. Ellison and J.S. Elkinton. 2009. Observer bias and the detection of low-density populations. Ecological Applications 19: 1673-1679. https://doi.org/10.1890/09-0265.1
Fujii, K., H. Doi, S. Matsuoka, M. Nagano, H. Sato and H. Yamanaka. 2019. Environmental DNA metabarcoding for fish community analysis in backwater lakes: a comparison of capture methods. PLoS ONE 14: e0210357. https://doi.org/10.1371/journal.pone.0210357
Goldberg, C.S., C.R. Turner, K. Deiner, K.E. Klymus, P.F. Thomsen, M.A. Murphy, S.F. Spear, A. McKee, S.J. Oyler-McCance, R.S. Cornman, M.B. Laramie, A.R. Mahon, R.F. Lance, D.S. Pilliod, K.M. Strickler, L.P. Waits, A.K. Fremier, T. Takahara, J.E. Herder and P. Taberlet. 2016. Critical considerations for the application of environmental DNA methods to detect aquatic species. Methods in Ecology and Evolution 7: 1299-1307. https://doi.org/10.1111/2041-210X.12595
Grealy, A.C., M.C. McDowell, P. Scofield, D.C. Murray, D.A. Fusco, J. Haile, G.J. Prideaux and M. Bunce. 2015. A critical evaluation of how ancient DNA bulk bone metabarcoding complements traditional morphological analysis of fossil assemblages. Quaternary Science Reviews 128: 37-47. https://doi.org/10.1016/j.quascirev.2015.09.014
Hinlo, R., D. Gleeson, M. Lintermans and E. Furlan. 2017. Methods to maximise recovery of environmental DNA from water samples. PLoS ONE 12: e0179251. https://doi.org/10.1371/journal.pone.0179251
Kelly, R.P., J.A. Port, K.M. Yamahara, R.G. Martone, N. Lowell, P.F. Thomsen, M.E. Mach, M. Bennett, E. Prahler, M.R. Caldwell and L.B. Crowder. 2014. Harnessing DNA to improve environmental management. Science 344: 1455-1456. https://doi.org/10.1126/science.1251156
Knudsen, S.W., R.B. Ebert, M. Hesselsoe, F. Kuntke, J. Hassingboe, P.B. Mortensen, P.F. Thomsen, E.E. Sigsgaard, B.K. Hansen, E.E. Nielsen and P.R. Moller. 2019. Species-specific detection and quantification of environmental DNA from marine fishes in the Baltic Sea. Journal of Experimental Marine Biology and Ecology 510: 31-45. https://doi.org/10.1016/j.jembe.2018.09.004
Kumar, G., J.E. Eble and M.R. Gaither. 2019. A practical guide to sample preservation and pre-PCR processing of aquatic environmental DNA. Molecular Ecology Resources 20: 29-39. https://doi.org/10.1111/1755-0998.13107
Minamoto, T., H. Yamanaka, T. Takahara, M.N. Honjo and Z. Kawabata. 2012. Surveillance of fish species composition using environmental DNA. Limnology 13: 193-197. https://doi.org/10.1007/s10201-011-0362-4
Minamoto, T., K. Hayami, M.K. Sakata and A. Imamura. 2019. Real-time polymerase chain reaction assays for environmental DNA detection of three salmonid fish in Hokkaido, Japan: Application to winter surveys. Ecological Research 34: 237-242. https://doi.org/10.1111/1440-1703.1018
Miya, M., Y. Sato, T. Fukunaga, T. Sado, J.Y. Poulsen, K. Sato, T. Minamoto, S. Yamamoto, H. Yamanaka, H. Araki, M. Kondoh and W. Iwasaki. 2015. MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species. Royal Society Open Science 7: https://doi.org/10.1098/rsos.150088
Oliver, I. and A.J. Beattie. 1993. A possible method for the rapid assessment of biodiversity. Conservation Biology 7: 562-568. https://doi.org/10.1046/j.1523-1739.1993.07030562.x
Ruppert, K.M., R.J. Kline and M.S. Rahman. 2019. Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA. Global Ecology and Conservation 17: e00547. https://doi.org/10.1016/j.gecco.2019.e00547
Sarmento-Soares, L.M. and R.F. Martins-Pinheiro. 2008. A systematic revision of Tatia (Siluriformes: Auchenipteridae: Centromochlinae). Neotropical Ichthyology 6: 495-542. https://doi.org/10.1590/S1679-62252008000300022
Schmelzle, M.C. and A.P. Kinziger. 2016. Using occupancy modelling to compare environmental DNA to traditional field methods for regional-scale monitoring of an endangered aquatic species. Molecular Ecology Resources 16: 895-908. https://doi.org/10.1111/1755-0998.12501
Schrader, C., A. Schielke, L. Ellerbroek and R. Johne. 2012. PCR inhibitors-occurrence, properties and removal. Journal of Applied Microbiology 113: 1014-1026. https://doi.org/10.1111/j.1365-2672.2012.05384.x
Seymour, M., I. Durance, B.J. Cosby, E. Ransom-Jones, K. Deiner, S.J. Ormerod, J.K. Colbourne, G. Wilgar, G.R. Carvalho and M. de Bruyn. 2018. Acidity promotes degradation of multispecies environmental DNA in lotic mesocosms. Communications Biology 1: 4. https://doi.org/10.1038/s42003-017-0005-3
Shu, L., A. Ludwig and Z. Peng. 2020. Standards for methods utilizing environmental DNA for detection of fish species. Genes 11: 296. https://doi.org/10.3390/genes11030296
Simpfendorfer, C.A., P.M. Kyne, T.H. Noble, J. Goldsbury, R.K. Basiita, R. Lindsay, A. Shields, C. Perry and D.R. Jerry. 2016. Environmental DNA detects critically endangered largetooth sawfish in the wild. Endangered Species Research 30: 109-116. https://doi.org/10.3354/esr00731
Stoeckle, B.C., S. Beggel, A.F. Cerwenka, E. Motivans, R. Kuehn R and J. Geist. 2017. A systematic approach to evaluate the influence of environmental conditions on eDNA detection success in aquatic ecosystems. PloS ONE 12: e0189119. https://doi.org/10.1371/journal.pone.0189119
Taberlet, P., E. Coissac, M. Hajibabaei and L.H. Rieseberg. 2012. Environmental DNA. Molecular Ecology 21: 1789-1793. https://doi.org/10.1111/j.1365-294X.2012.05542.x
Taberlet, P., A. Bonin, L. Zinger and E. Coissac. 2018. Environmental DNA: For Biodiversity Research and Monitoring. Oxford University Press, Oxford.
Takahara, T., T. Minamoto, H. Yamanaka, H. Doi and Z. Kawabata. 2012. Estimation of fish biomass using environmental DNA. PLoS ONE 7: e35868. https://doi.org/10.1371/journal.pone.0035868
Takahara, T., T. Minamoto and H. Doi. 2013. Using environmental DNA to estimate the distribution of an invasive fish species in ponds. PLoS ONE 8: e56584. https://doi.org/10.1371/journal.pone.0056584
Tsuji, S., M. Ushio, S. Sakurai, T. Minamoto and H. Yamanaka. 2017. Water temperature-dependent degradation of environmental DNA and its relation to bacterial abundance. PLoS ONE 12: e0176608. https://doi.org/10.1371/journal.pone.0176608
Tsuji, S., T. Takahara, H. Doi, N. Shibata and H. Yamanaka. 2019. The detection of aquatic macroorganisms using environmental DNA analysis - A review of methods for collection, extraction, and detection. Environmental DNA 1: 99-108. https://doi.org/10.1002/edn3.21
Vasselon, V., I. Domaizon, F. Rimet, M. Kahlert and A. Bouchez. 2017. Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter? Freshwater Science 36: 162-177. https://doi.org/10.1086/690649
Wang, S., Z. Yan, B. Hanfling, X. Zheng, P. Wang, J. Fan and J. Li. 2021. Methodology of fish eDNA and its applications in ecology and environment. Science of the Total Environment 755: 1-17. https://doi.org/10.1016/j.scitotenv.2020.142622
Weltz, K., J.M. Lyle, J. Ovenden, J.A.T. Morgan and D.A. Moreno. 2017. Application of environmental DNA to detect an endangered marine skate species in the wild. PLoS ONE 12: e0178124. https://doi.org/10.1371/journal.pone.0178124
Zhang, S., J. Zhao and M. Yao. 2020. A comprehensive and comparative evaluation of primers for metabarcoding eDNA from fish. Methods in Ecology and Evolution 11: 1609-1625. https://doi.org/10.1111/2041-210X.13485
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