A phylogenetic study of the Mongolian Tree Pipit (Anthus trivialis, Linnaeus, 1758) population based on mitochondrial DNA (mtDNA) genes
DOI:
https://doi.org/10.5564/pmas.v64i01.3547Keywords:
Population genetics, haplotype, Anthus trivialis, Phylogenetics, Cyt-b, ND2, D-loop, COIAbstract
Our aim was to identify nucleotide polymorphisms, assess their distribution in haplotype diversity, and construct a phylogenetic tree by analyzing mtDNA markers of the Mongolian Tree Pipits(Anthus trivialis). We conducted this study using partial gene sequencesof mitochondrial marker genes, such as COI, Cyt-b, D-loop, andND2,to determine the genetic diversity of Mongolian Tree Pipits. We successfully amplified 2307 bp of the mitochondrial DNA fragments, including 469bp of COI, 435bp of Cyt-b, 554bp of D-loop and 846bp of ND2 from total 27 individuals of Mongolian (21) and Hungarian (6) populations of Anthus trivialis.The Hd value wasthe highest for ND2 (0.96) as compared with the other gene fragments in all populations, whileit was 0.94 in the Mongolian population. Moreover, the nucleotide diversity (Pi) ranged from 0.00234 to 0.004 in all population, it was observed that the Pi was between 0.00183 and 0.00376 in the Mongolian population. The phylogenetic tree based on combined mtDNA sequences revealed two mean clades. The probability value of the node supporting the posterior between these clades is 0.65,which suggests an indicative support in relationship between the two clades. Furthermore, phylogenetic analysis showed that Mongolian Tree Pipits do share common genetic characteristics with other populations and do not form distinct clusters.
Publisher correction: Author name Sabor Sramko was revised to Gabor Sramko dated on 2024-10-07.
Downloads
87
References
B. International, "BirdLife International (2023) IUCN Red List for birds," 2023.
S. Tyler, "Family Motacillidae (pipits and wagtails)," Handbook of the birds of the world, Vol. 9. pp. 686-786, 2004.
E. C. Dickinson, N. David, and M. A. Alonso-Zarazaga, "Some comments on Schodde & Bock (2016) on gender agreement," Bulletin of the British Ornithologists’ Club, Vol. 137, No. 2, pp. 142-144, 2017. https://doi.org/10.25226/bboc.v137i2.2017.a2.
B. P. Hall, The taxonomy and identification of pipits (genus Anthus). British Museum (Natural History), 1961. https://doi.org/10.5962/p.314161.
G. Voelker, "Molecular evolutionary relationships in the Avian genusAnthus (Pipits: Motacillidae)," Molecular Phylogenetics and Evolution, Vol. 11, No. 1. pp. 84-94, 1999. https://doi.org/10.1006/mpev.1998.0555.
J.Avise, "INTRASPECIFIC PHYLOGEOGRAPHY: The Mitochondrial DNA Bridge Between Population Genetics and Systematics," 1987. https://doi.org/10.1146/annurev.ecolsys.18.1.489.
S. V. Drovetski, M. Raković, G. Semenov, I. V. Fadeev, and Y. A. Red’kin, "Limited phylogeographic signal in sex-linked and autosomal loci despite geographically, ecologically, and phenotypically concordant structure of mtDNA variation in the Holarctic avian genus Eremophila," PLoS One, Vol. 9, No. 1, p. e87570, 2014.
J. D. Thompson, D. G. Higgins, and T. J. Gibson, "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice," Nucleic acids research, Vol. 22, No. 22, pp. 4673-4680, 1994. https://doi.org/10.1093/nar/22.22.4673.
S. Kumar, G. Stecher, M. Li, C. Knyaz, and K. Tamura, "MEGA X: molecular evolutionary genetics analysis across computing platforms," Molecular biology and evolution, Vol. 35, No. 6, p. 1547, 2018. https://doi.org/10.1093/molbev/msy096.
P. Librado and J. Rozas, "DnaSP v5: a software for comprehensive analysis of DNA polymorphism data," Bioinformatics, Vol. 25, No. 11, pp. 1451-1452, 2009. https://doi.org/10.1093/bioinformatics/btp187.
Y.-X. Fu, "Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection," Genetics, Vol. 147, No. 2, pp. 915-925, 1997. https://doi.org/10.1093/genetics/147.2.915.
F. Tajima, "Statistical method for testing the neutral mutation hypothesis by DNA polymorphism," Genetics, Vol. 123, No. 3, pp. 585-595, 1989. https://doi.org/10.1093/genetics/123.3.585.
J. W. Leigh and D. Bryant, "POPART: full-feature software for haplotype network construction," Methods in ecology and evolution, Vol. 6, No. 9, pp. 1110-1116, 2015. https://doi.org/10.1111/2041-210X.12410.
M. A. Suchard, P. Lemey, G. Baele, D. L. Ayres, A. J. Drummond, and A. Rambaut, "Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10," Virus Evolution, Vol. 4, No. 1, 2018. https://doi.org/10.1093/ve/vey016.
J. Nylander, "MrModeltest2 v2. 3," Evolutionary Biology Center, Uppsala University. Uppsala, Sweden. Available from: http://www. abc. se/~ nylander, 2004.
A. Rambaut and A. Drummond, "TreeAnnotator. Version 1.8, distributed as part of the BEAST Package," Ed, 2010.
A. Rambaut, A. J. Drummond, D. Xie, G. Baele, and M. A. Suchard, "Posterior summarization in Bayesian phylogenetics using Tracer 1.7," Systematic biology,Vol. 67, No. 5, pp. 901-904, 2018. https://doi.org/10.1093/sysbio/syy032.
Moga, T. Hartel, and K. Öllerer, "Ancient oak wood-pasture as a habitat for the endangered tree pipit Anthus trivialis," Biologia, Vol. 64, No. 5, pp. 1011-1015, 2009. https://doi.org/10.2478/s11756-009-0167-7.
H. V. Norambuena, P. Van Els, C. P. Muñoz-Ramírez, and P. F. Victoriano, "First steps towards assessing the evolutionary history and phylogeography of a widely distributed Neotropical grassland bird (Motacillidae: Anthus correndera)," PeerJ, Vol. 6, p. e5886, 2018. https://doi.org/10.7717/peerj.5886.
P. Doniol-Valcroze, P. Coiffard, P. Alström, M. Robb, P. Dufour, and P.-A. Crochet, "Molecular and acoustic evidence support the species status of Anthus rubescens rubescens and Anthus [rubescens] japonicus (Passeriformes: Motacillidae)," Zootaxa, Vol. 5343, No. 2, pp. 173-192, 2023. https://doi.org/10.11646/zootaxa.5343.2.4.
P. Arctander, O. Folmer, and J. FJELDSÅ, "The phylogenetic relationships of Berthelot's Pipit Anthus berthelotii illustrated by DNA sequence data, with remarks on the genetic distance between Rock and Water Pipits Anthus spinoletta," Ibis, Vol. 138, No. 2, pp. 263-272, 1996. https://doi.org/10.1111/j.1474-919X.1996.tb04338.x.
B. Finch et al., "High levels of mitochondrial cytochrome b sequence diversity are present within the Anthus similis complex in sub-Saharan Africa," Ostrich, Vol. 84, No. 2, pp. 145-151, 2013. https://doi.org/10.2989/00306525.2013.822028.
S. R. Gadagkar, M. S. Rosenberg, and S. Kumar, "Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree," Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, Vol. 304, No. 1, pp. 64-74, 2005. https://doi.org/10.1002/jez.b.21026.
P. van Els, H. V. Norambuena, and R. S. Etienne, "From pampa to puna: Biogeography and diversification of a group of Neotropical obligate grassland birds (Anthus: Motacillidae)," Vol. 57, Ed: Wiley Online Library, 2019, pp. 485-496. https://doi.org/10.1111/jzs.12278.
G. Song et al., "Complete taxon sampling of the avian genus Pica (magpies) reveals ancient relictual populations and synchronous Late-Pleistocene demographic expansion across the Northern Hemisphere," Journal of Avian Biology, Vol. 49, No. 2, pp. jav-01612, 2018. https://doi.org/10.1111/jav.01612.
P. Zduniak and R. Yosef, "Migration and staging patterns of the Red-throated (Anthus cervinus) and Tree Pipits (Anthus trivialis) at the migratory bottleneck of Eilat, Israel," Ornis Fennica, Vol. 88, No. 3, pp. 129–137-129–137, 2011. https://doi.org/10.51812/of.133775.
Downloads
Published
How to Cite
Issue
Section
License
Copyright (c) 2024 Ulziisaikhan Tumendemberel, Sod-erdene Byambadash, Sabor Sramko, Tserendulam Batsukh
This work is licensed under a Creative Commons Attribution 4.0 International License.
Copyright on any research article in the Proceedings of the Mongolian Academy of Sciences is retained by the author(s).
The authors grant the Proceedings of the Mongolian Academy of Sciences a license to publish the article and identify itself as the original publisher.
Articles in the Proceedings of the Mongolian Academy of Sciences are Open Access articles published under a Creative Commons Attribution 4.0 International License CC BY.
This license permits use, distribution and reproduction in any medium, provided the original work is properly cited.
