Journal Article
The complete mitochondrial genome of one breeding strain of Asian swamp eel (Monopterus albus, Zuiew 1793) using PacBio and Illumina sequencing technologies and phylogenetic analysis in synbranchiformes
Tian, H., Hu, Q., Lu, H. and Li, Z.
Record Number:
5520
Year:
2021
Journal:
Genes
Pages:
1-10
Volume:
12, 1567
Abstract:
Abstract: Asian swamp eel (Monopterus albus, Zuiew 1793) is a commercially important fish due to its nutritional value in Eastern and Southeastern Asia. One local strain of M. albus distributed in the Jianghan Plain of China has been subjected to a selection breeding program because of its preferred body color and superiority of growth and fecundity. Some members of the genus Monopterus have been reclassified into other genera recently. These classifications require further phylogenetic analyses. In this study, the complete mitochondrial genomes of the breeds of M. albus were decoded using both PacBio and Illumina sequencing technologies, then phylogenetic analyses were carried
out, including sampling of M. albus at five different sites and 14 species of Synbranchiformes with complete mitochondrial genomes. The total length of the mitogenome is 16,621 bp, which is one nucleotide shorter than that of four mitogenomes of M. albus sampled from four provinces in China, as well as one with an unknown sampling site. The gene content, gene order, and overall base compositions are almost identical to the five reported ones. The results of maximum likelihood (ML) and Bayesian inference analyses of the complete mitochondrial genome and 13 protein-coding genes (PCGs) were consistent. The phylogenetic trees indicated that the selecting breed formed the deepest
branch in the clade of all Asian swamp eels, confirmed the phylogenetic relationships of four genera of the family Synbranchidae, also providing systematic phylogenetic relationships for the order Synbranchiformes. The divergence time analyses showed that all Asian swamp eels diverged about 0.49 million years ago (MYA) and their common ancestor split from other species about 45.96 MYA in the middle of the Miocene epoch. Altogether, the complete mitogenome of this breed of M. albus would serve as an important dataset for germplasm identification and breeding programs for this species, in addition to providing great help in identifying the phylogenetic relationships of the order Synbranchiformes.
Keywords: Monopterus albus; swamp eel; mitochondrial genome; PacBio; phylogenetic analysis; Synbranchiformes
Times Cited:
1
Relevent Species:
Related Records:
Mees, G.F. (1962)
The subterranean freshwater fauna of Yardie Creek Station, North West Cape, Western Australia
Cawthorn, P. (1963)Discovery of subterranean freshwater fauna on the eastern side of North West Cape
Richards, A. M. (1963)The subterranean freshwater fauna of North West Cape, Western Australia
Rosen, D. E. and Greenwood, P. H. (1976)A fourth neotropical species of synbranchid eel and the phylogeny and systematics of synbranchiform fishes
Michaelis, F. (1985)Threatened fish. A report on the threatened fish of inland waters of Austalia
Pollard, D. A., Ingram, B. A., Harris, J. H. and Reynolds, L. F. (1990)Threatened fishes in Australia - an overview
Humphreys, W. F. and Adams, M. (1991)The subterranean aquatic fauna of the North West Cape peninsula, Western Australia
Allen, G.R. (1992)Inland Fishes of Western Australia
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Romero, A. and Vanselow, P.B.S. (2000)Threatened fishes of the world: Ophisternon candidum (Mees, 1962) Synbranchidae
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Humphreys, W.F. (2001)Milyeringa veritas (Eleotridae), a remarkably versatile cave fish from the arid tropics of northwestern Australia
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Collins, L.B. and Stevens, A. (2010)Assessment of coastal groundwater and linkages with Ningaloo Reef – final report February 2010
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Environmental Protection Authority (2012)A review of subterranean fauna assessment in Western Australia. Discussion Paper. February 2012
Humphreys, W., Tetu, S., Elbourne, L., Gillings, M., Seymour, J., Mitchell, J. and Paulsen, I. (2012)Geochemical and microbial diversity of Bundera Sinkhole, an anchialine system in the eastern Indian Ocean
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Unmack, P.J. (2013)Biogeography
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Halse, S., Scanlon, M., Cocking, J., Barron, H., Richardson, J. and Eberhard, S. (2014)Pilbara stygofauna: deep groundwater of an arid landscape contains globally significant radiation of biodiversity
Bishop, R.E., Humphreys, W.F., Cukrov, N., Zic, V., Boxshall, G.A., Cukrov, M., Iliffe, T.M., Krsinic, F., Moore, W.S., Pohlman, J.W., and Sket, B. (2015)‘Anchialine’ redefined as a subterranean estuary in a crevicular or cavernous geological setting
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Perina, G. (2019)Ancient origins of a diverse stygofaunal group: The Australian Bathynellidae (Crustacea)
Shelley, J.J., Swearer, S.E., Dempster, T., Adams, M., Le Feuvre, M.C., Hammer, M.P. and Unmack, P.J. (2020)Plio-Pleistocene sea-level changes drive speciation of freshwater fishes in north-western Australia
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White, N.E., Guzik, M.T., Austin, A.D., Moore, G.I. Humphreys, W.F., Alexander, J. and Bunce, M. (2020)Detection of rare Australian endemic blind cave eel (Ophisternon candidum) with environmental DNA: implications for threatened species management in subterranean environments
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