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Differences in the genetic structure between and within two landlocked Ayu groups with different migration patterns in Lake Biwa revealed by environmental DNA analysis

Tsuji, Satsuki Shibata, Naoki Sawada, Hayato Watanabe, Katsutoshi 京都大学 DOI:10.1002/edn3.345

2023.09

概要

Ayu (Plecoglossus altivelis) is largely an annual amphidromous fish, although a landlocked population lives in Lake Biwa, the largest lake in Japan. The landlocked population comprises two migrant groups, spring migrants and autumn migrants, which run to inlet rivers from the lake at different seasons. We used environmental DNA (eDNA) analysis, which is reported to be more sensitive and cost-effective than capture surveys, to clarify the genetic structure of this landlocked Ayu population with different migration patterns in Lake Biwa. We took water samples in 11 inlet rivers in the spring and autumn for 2 years in a row and quantitatively detected a total of 265 haplotypes of the mitochondrial D-loop region. The pairwise fixation index (FST) value and haplotype diversity indicated that there were genetic differences between the two migrant groups in their respective rivers, and the FST values were negatively related to latitude and the presence of artificial fish stocking. Additionally, isolation by distance within spring migrant group was observed when the lake was divided into the east and west sides. These findings show that the landlocked Ayu population in Lake Biwa has genetic structure associated with migration patterns and geographical distance. This study demonstrates that the eDNA approach will be effective for conducting a large-scale investigation of genetic structure beyond simple presence/absence tests.

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参考文献

Akitomo, K., Kurogi, M., & Kumagai, M. (2004). Numerical study of a

thermally induced gyre system in Lake Biwa. Limnology, 5, 103–­114.

https://doi.org/10.1007/s1020​1-­0 04-­0122-­9

Andres, K. J., Sethi, S. A., Lodge, D. M., & Andrés, J. (2021). Nuclear

eDNA estimates population allele frequencies and abundance in

experimental mesocosms and field samples. Molecular Ecology, 30,

685–­697. https://doi.org/10.1111/mec.15765

Azuma, M. (1970). Studies on the variability of the landlocked Ayu-­fish

Plecoglossus altiveris T. ET S., in Lake Biwa; I. on the mode of distribution and some body form variation at early phases of development. Japanese Journal of Ecology, 20, 63–­76.

Azuma, M. (1973a). Studies on the variability of the landlocked Ayu-­fish

Plecoglossus altiveris T. ET S., in Lake Biwa; II. On the segration of

population and the variation in each population. Japanese Journal of

Ecology, 23, 126–­139.

Azuma, M. (1973b). Studies on the variability of the landlocked Ayu-­fish

Plecoglossus altiveris T. ET S., in Lake Biwa; IV. Considerations on

the grouping and features of variability. Japanese Journal of Ecology,

23, 253–­265.

Azuma, M. (1973c). Studies on the variability of the landlocked Ayu-­fish

Plecoglossus altiveris T. ET S., in Lake Biwa; III. On the differences in

the process of maturation, spawning habits, and some morphological

features of each population. Japanese Journal of Ecology, 23, 147–­159.

Baker, C. S., Steel, D., Nieukirk, S., & Klinck, H. (2018). Environmental

DNA (eDNA) from the wake of the whales: Droplet digital PCR for

detection and species identification. Frontiers in Marine Science, 5,

133. https://doi.org/10.3389/fmars.2018.00133

Bravington, M. V., Grewe, P. M., & Davies, C. R. (2016). Absolute

abundance of southern bluefin tuna estimated by close-­

kin

mark-­recapture. Nature Communications, 7, 13162. https://doi.

org/10.1038/ncomm​s13162

Callahan, B. J., McMurdie, P. J., Rosen, M. J., Han, A. W., Johnson, A. J. A.,

& Holmes, S. P. (2016). DADA2: High-­resolution sample inference

from Illumina amplicon data. Nature Methods, 13, 581–­583. https://

doi.org/10.1038/nmeth.3869

Excoffier, L., & Lischer, H. E. L. (2010). Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under

Linux and windows. Molecular Ecology Resources, 10, 564–­567.

https://doi.org/10.1111/j.1755-­0998.2010.02847.x

Feder, J. L., Roethele, J. B., Wlazlo, B., & Berlocher, S. H. (1997). Selective

maintenance of allozyme differences among sympatric host races

of the apple maggot fly. Proceedings of the National Academy of

Sciences of the United States of America, 94, 11417–­11421. https://

doi.org/10.1073/pnas.94.21.11417

Foote, C., & Larkin, P. A. (1988). The role of male choice in the assortative mating of anadromous and non-­

anadromous sockeye

salmon (Oncorhynchus Nerka). Behaviour, 106, 43–­62. https://doi.

org/10.1163/15685​3988X​0 0089

Fosså, J. H., Mortensen, P. B., & Furevik, D. M. (2002). The deep-­water

coral Lophelia pertusa in Norwegian waters: Distribution and fishery

impacts. Hydrobiologia, 471, 1–­12. https://doi.org/10.1023/A:10165​

04430684

Hansen, L. P. (1988). Effects of carlin tagging and fin clipping on survival

of Atlantic salmon (Salmo salar L.) released as smolts. Aquaculture,

70, 391–­394. https://doi.org/10.1016/0044-­8 486(88)90122​-­6

Hendry, A. P., Wenburg, J. K., Bentzen, P., Volk, E. C., & Quinn, T. P.

(2000). Rapid evolution of reproductive isolation in the wild:

Evidence from introduced walmon. Science, 290, 516–­518. https://

doi.org/10.1126/scien​ce.290.5491.516

Iguchi, K. (1996). Size-­specific spawning pattern in ayu, Plecoglossus altivelis. Ichthyological Research, 43, 193–­198.

Iguchi, K. (2011). Ecological approaches to sustain the ayu stocks.

Nippon Suisan Gakkaishi, 77, 356–­359. https://doi.org/10.2331/

suisan.77.356

Iguchi, K., & Maekawa, K. (1993). Female mate preference and male mating success of Ayu fish, Plecoglossus altivelis (Osmeridae) under a

promiscuous mating system. Ethology, 95, 193–­201. https://doi.

org/10.1111/j.1439-­0310.1993.tb004​70.x

Iguchi, K., & Nishida, M. (2000). Genetic biogeography among insular

populations of the amphidromous fish Plecoglossus altivelis assessed from mitochondrial DNA analysis. Conservation Genetics, 1,

147–­156. https://doi.org/10.2331/fishs​ci.68.sup1_345

Iguchi, K., Ohkawa, T., & Nishida, M. (2002). Genetic structure

of land-­

locked ayu within the Biwa Lake system. Fisheries

Science,

68,

138–­143.

https://doi.org/10.1046/j.1444-­2906.2002.00399.x

Jane, S. F., Wilcox, T. M., McKelvey, K. S., Young, M. K., Schwartz, M.

K., Lowe, W. H., Letcher, B. H., & Whiteley, A. R. (2015). Distance,

flow and PCR inhibition: eDNA dynamics in two headwater

streams. Molecular Ecology Resources, 15, 216–­227. https://doi.

org/10.1111/1755-­0998.12285

Jørstad, K. E. (2004). Evidence for two highly differentiated herring

groups at goose bank in the barents sea and the genetic relationship to pacific herring, Clupea pallasi. Environmental Biology

of Fishes, 69, 211–­2 21. https://doi.org/10.1023/B:EBFI.00000​

22878.90511.88

Kawanabe, H. (1985). Ecology of rivers and lakes. Kodansha Ltd.

Kawanabe, H. (1996). Asian great lakes, especially Lake Biwa.

Environmental Biology Fishes, 47, 219–­234. https://doi.org/10.1007/

BF000​0 0495

Laikre, L., Schwartz, M. K., Waples, R. S., & Ryman, N. (2010).

Compromising genetic diversity in the wild: Unmonitored large-­

scale release of plants and animals. Trends in Ecology & Evolution, 25,

520–­529. https://doi.org/10.1016/j.tree.2010.06.013

Marshall, N. T., & Stepien, C. A. (2019). Invasion genetics from eDNA

and thousands of larvae: A targeted metabarcoding assay that

distinguishes species and population variation of zebra and

26374943, 2023, 5, Downloaded from https://onlinelibrary.wiley.com/doi/10.1002/edn3.345 by Cochrane Japan, Wiley Online Library on [27/11/2023]. See the Terms and Conditions (https://onlinelibrary.wiley.com/terms-and-conditions) on Wiley Online Library for rules of use; OA articles are governed by the applicable Creative Commons License

904 quagga mussels. Ecology and Evolution, 9, 3515–­3538. https://doi.

org/10.1002/ece3.4985

Matsuyama, M., & Matsuura, S. (1985). On the ovarian maturation and

spawning of landlocked large type Ayu plecoglossus altivelis in

Lake Biwa. Bulletin of the Japanese Society of Scientific Fisheries, 51,

691–­698.

Ministry of Agriculture, Forestry and Fisheries. (2021) Annual statistics of

fishery and fish culture 2015. http://www.maff.go.jp/j/tokei/​kouhy​

ou/kaimen_gyos

Miyadi, D. (1960). Ayu-­

no-­

hanashi (stories of Ayu). Iwanami Shoten

Publishers.

Moser, D., Roesti, M., & Berner, D. (2012). Repeated lake-­stream divergence in stickleback life history within a central european

lake basin. PLoS One, 7, e50620. https://doi.org/10.1371/journ​

al.pone.0050620

Nei, M., & Tajima, F. (1981). DNA polymorphism detectable by restriction

endonucleases. Genetics, 97, 145–­163.

Nishida, M. (2001). Ayu. In H. Kawanabe, N. Mizuno, & K. Hosoya (Eds.),

Freshwater fishes of Japan (pp. 66–­79). Yama-­Kei Press.

Nishida, M., Fushiki, S., Naka, K., Mizutani, E., & Tazawa, S. (1974).

Observations of spawning ground and spawning habit of Ayu-­fish

in the Lake Biwa. Shiga Fisheries Experiment Station Research Report,

25, 31–­45.

Pirhonen, J., & Schreck, C. B. (2003). Effects of anaesthesia with MS-­222,

clove oil and CO2 on feed intake and plasma cortisol in steelhead

trout (Oncorhynchus mykiss). Aquaculture, 220, 507–­514. https://doi.

org/10.1016/S0044​-­8 486(02)00624​-­5

R Core Team. (2019) R: A language and environment for statistical computing. http://www.R-­proje​c t.org

Ricker, W. E. (1940). On the origin of kokanee. A fresh-­water type of

sockeye salmon. Transactions Royal Society Canada, 34, 121–­135.

Ruzzante, D. E., McCracken, G. R., Førland, B., MacMillan, J., Notte, D.,

Buhariwalla, C., Mills Flemming, J., & Skaug, H. (2019). Validation of

close-­kin mark–­recapture (CKMR) methods for estimating population abundance. Methods in Ecology and Evolution, 10, 1445–­1453.

https://doi.org/10.1111/2041-­210X.13243

Sakai, A. (2010). Forecast of the first ascending day and number of ascending ayu Plecoglossus altivelis altivelis in rivers flowing into Lake

Biwa. Nippon Suisan Gakkaishi, 76, 670–­677.

Sakai, A. (2011). Factors affecting size fluctuations of landlocked Ayu

Plecoglossus altivelis altivelis in Lake Biwa. Aquaculture Science, 59,

299–­3 06.

Santos, H., Burban, C., Rousselet, J., Rossi, J.-­P., Branco, M., & Kerdelhué,

C. (2011). Incipient allochronic speciation in the pine processionary moth (Thaumetopoea pityocampa, Lepidoptera, Notodontidae):

Allochronic speciation in the PPM. Journal of Evolutionary Biology,

24, 146–­158. https://doi.org/10.1111/j.1420-­9101.2010.02147.x

Shimadu, A. (1950). Ayu. Tansuigyo, 1, 22–­37.

Sigsgaard, E. E., Nielsen, I. B., Bach, S. S., Lorenzen, E. D., Robinson, D.

P., Knudsen, S. W., Pedersen, M. W., Jaidah, M. A., Orlando, L.,

Willerslev, E., Møller, P. R., & Thomsen, P. F. (2016). Population

characteristics of a large whale shark aggregation inferred from

seawater environmental DNA. Nature Ecology and Evolution, 1, 1–­5.

https://doi.org/10.1038/s4155​9-­016-­0 004

Slatkin, M. (1991). Inbreeding coefficients and coalescence times.

Genetics Research, 58, 167–­175.

Slatkin, M. (1995). A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139, 457–­462.

Stat, M., Huggett, M. J., Bernasconi, R., DiBattista, J. D., Berry, T. E.,

Newman, S. J., Harvey, E. S., & Bunce, M. (2017). Ecosystem biomonitoring with eDNA: Metabarcoding across the tree of life in a

tropical marine environment. Scientific Reports, 7, 12240. https://

doi.org/10.1038/s4159​8-­017-­12501​-­5

Stepien, C. A., Snyder, M. R., & Elz, A. E. (2019). Invasion genetics of

the silver carp Hypophthalmichthys molitrix across North America:

Differentiation of fronts, introgression, and eDNA metabarcode

detection. PLoS One, 14, e0203012. https://doi.org/10.1371/journ​

al.pone.0203012

Székely, D., Corfixen, N. L., Mørch, L. L., Knudsen, S. W., McCarthy,

M. L., Teilmann, J., Heide-­Jørgensen, M. P., & Olsen, M. T. (2021).

Environmental DNA captures the genetic diversity of bowhead

whales (Balaena mysticetus) in West Greenland. Environmental DNA,

3, 248–­260. https://doi.org/10.1002/edn3.176

Takahashi, I., & Azuma, K. (2016). Tennen-­Ayu-­no-­hon (The book of wild

Ayu). Tsukiji shokan Publishing Co., Ltd.

Tsuji, S., Maruyama, A., Miya, M., Ushio, M., Sato, H., Minamoto, T., &

Yamanaka, H. (2020). Environmental DNA analysis shows high potential as a tool for estimating intraspecific genetic diversity in a

wild fish population. Molecular Ecology Resources, 20, 1248–­1258.

https://doi.org/10.1111/1755-­0998.13165

Tsuji, S., Miya, M., Ushio, M., Sato, H., Minamoto, T., & Yamanaka, H.

(2020). Evaluating intraspecific genetic diversity using environmental DNA and denoising approach: A case study using tank

water. Environmental DNA, 2, 42–­52. https://doi.org/10.1002/

edn3.44

Tsuji, S., Shibata, N., Sawada, H., & Ushio, M. (2020). Quantitative evaluation of intraspecific genetic diversity in a natural fish population

using environmental DNA analysis. Molecular Ecology Resources, 20,

1323–­1332. https://doi.org/10.1111/1755-­0998.13200

Tsukamoto, K., Ishida, R., Naka, K., & Kajihara, T. (1987). Swiching of size

and migratory pattern in successive generations of landlocked Ayu.

American Fisheries Society Symposium, 1, 492–­506.

Tsukamoto, K., & Kajihara, T. (1987). Age determination of ayu with

otolith. Nippon Suisan Gakkaishi, 53, 1985–­1997. https://doi.

org/10.2331/suisan.53.1985

Ushio, M., Murakami, H., Masuda, R., Sado, T., Miya, M., Sakurai, S.,

Yamanaka, H., Minamoto, T., & Kondoh, M. (2018). Quantitative

monitoring of multispecies fish environmental DNA using high-­

throughput sequencing. Metabarcoding and Metagenomics, 2,

e23297. https://doi.org/10.3897/mbmg.2.23297

Xing, X., Ma, X., Hart, M. M., Wang, A., & Guo, S. (2013). Genetic diversity and evolution of chinese traditional medicinal fungus Polyporus

umbellatus (Polyporales, Basidiomycota). PLoS One, 8, e58807.

https://doi.org/10.1371/journ​al.pone.0058807

Yoshitake, K., Yoshinaga, T., Tanaka, C., Mizusawa, N., Reza, M. S.,

Tsujimoto, A., Kobayashi, T., & Watabe, S. (2019). HaCeD-­seq: A

novel method for reliable and easy estimation sbout the fish population using haplotype count from eDNA. Marine Biotechnology, 21,

813–­820. https://doi.org/10.1007/s1012​6-­019-­09926​-­6

S U P P O R T I N G I N FO R M AT I O N

Additional supporting information can be found online in the

Supporting Information section at the end of this article.

How to cite this article: Tsuji, S., Shibata, N., Sawada, H., &

Watanabe, K. (2023). Differences in the genetic structure

between and within two landlocked Ayu groups with

different migration patterns in Lake Biwa revealed by

environmental DNA analysis. Environmental DNA, 5,

894–905. https://doi.org/10.1002/edn3.345

26374943, 2023, 5, Downloaded from https://onlinelibrary.wiley.com/doi/10.1002/edn3.345 by Cochrane Japan, Wiley Online Library on [27/11/2023]. See the Terms and Conditions (https://onlinelibrary.wiley.com/terms-and-conditions) on Wiley Online Library for rules of use; OA articles are governed by the applicable Creative Commons License

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