Thông tin tài nguyên

The Himalayan uplift and evolution of aquatic biodiversity across Asia: Snowtrout (Cyprininae: Schizothorax) as a test case

pmc-PMC10597529.pdf · Phiên bản 1 · 27 trang

18
Bản gốc
Trang 24 · Đoạn 61Vị trí nguồn

26. Sharma A, Dubey VK, Johnson JA, Rawal YK, Sivakumara K. Is there always space at the top? Ensemble modeling reveals climate-driven high-altitude squeeze for the vulnerable snow trout Schi- zothorax richardsonii in Himalaya. Ecol Indic. 2020; 120: 106900. https://doi.org/10.1016/j.ecolind. 2020.106900 27. Sharma A, Dubey VK, Johnson JA, Rawal YK, Sivakumara K. Introduced, invaded and forgotten: Allopatric and sympatric native snow trout life-histories indicate brown trout invasion effects in the Himalayan hinterlands. Biol Invasions. 2021; 23: 1497–1515 https://doi.org/10.1007/s10530-020- 02454-8 28. Houston DD, Evans RP, Shiozawa DK. Evaluating the genetic status of a Great Basin endemic min- now: The relict dace (Relictus solitarius). Conser Genet. 2012; 13: 727–742. https://doi.org/10.1007/ s10592-012-0321-6 29. Regmi B, Douglas MR, Edds DR, Douglas ME. Geometric morphometric analyses define riverine and lacustrine species flocks of Himalayan snowtrout (Cyprinidae: Schizothorax) in Nepal. Aquat Biol. 2021; 30: 19–31. https://doi.org/10.3354/ab00737 30. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol. 2018; 35: 1547–1549. https://doi.org/10.1093/molbev/ msy096 PMID: 29722887 31. Wang X, Gan X, Li Y, He S. Cyprininae phylogeny revealed independent origins of the Tibetan Plateau endemic polyploid cyprinids and their diversifications related to the Neogene uplift of the plateau. Sci China Life Sci. 2016; 59: 1149–1165. https://doi.org/10.1007/s11427-016-0007-7 PMID: 27646682

Trang 24 · Đoạn 62Vị trí nguồn

32. Yang L, Naylor GJP, Mayden RL. Deciphering reticulate evolution of the largest group of polyploid ver- tebrates, the subfamily Cyprininae (Teleostei: Cypriniformes). Mol Phylogenet Evol. 2022; 166: 107322. https://doi.org/10.1016/j.ympev.2021.107323 PMID: 34634450 33. Meirmans PG, Liu S, van Tienderen PH. The analysis of polyploid genetic data. J Hered. 2018; 109: 284–296. https://doi.org/10.1093/jhered/esy006 PMID: 29385510 34. Taylor JS, Braasch I, Frickey T, Meyer A, Van de Peer Y. Genome duplication, a trait shared by 22,000 species of ray-finned fish. Genome Res. 2003; 13: 382–390. https://doi.org/10.1101/gr. 640303 PMID: 12618368 35. Groth JG, Barrowclough GF. Basal divergences in birds and the phylogenetic utility of the nuclear RAG-1 gene. Mol Phylogenet Evol. 1999; 12: 115–123. https://doi.org/10.1006/mpev.1998.0603 PMID: 10381315 36. Rozas J, Ferrer-Mata A, Sa´nchez-DelBarrio JC, Guirao-Rico S, Librado P, Ramos-Onsins SE, et al. DNASP 6: DNA sequence polymorphism analysis of large datasets. Mol Biol Evol. 2017; 734: 3299– 3302. https://doi.org/10.1093/molbev/msx248 PMID: 29029172 37. Guillot G, Mortier F, Estoup A. GENELAND: A computer package for landscape genetics. Mol Ecol Notes. 2005; 5: 712–715. https://doi.org/10.1111/j.1471-8286.2005.01031.x 38. R-Studio Team. RStudio: Integrated Development for R. Boston: RStudio, PBC; 2020. http://www. rstudio.com/ 39. Excoffier L, Lischer HEL. ARLEQUIN suite ver 3.5: A new series of programs to perform population genet-

Trang 24 · Đoạn 63Vị trí nguồn

ics analyses under Linux and Windows. Mol Ecol Resour. 2010; 10: 564–567. https://doi.org/10.1111/ j.1755-0998.2010.02847.x PMID: 21565059 40. Solecki AM, Skevington JH, Buddle CM, Wheeler TA. Phylogeography of higher Diptera in glacial and postglacial grasslands in western North America. BMC Ecology. 2019; 19: 53. https://doi.org/10.1186/ s12898-019-0266-4 PMID: 31861996 41. Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, et al. IQ-TREE 2: New models and efficient methods for phylogenetic inference in the genomic era. Mol Biol Evol. 2020; 37: 1530–1534. https://doi.org/10.1093/molbev/msaa015 PMID: 32011700 42. Kalyaanamoorthy S, Minh BQ, Wong TKF, von Haeseler A, Jermiin LS. MODELFINDER: Fast model selection for accurate phylogenetic estimates. Nat Methods. 2017; 14: 587–589. https://doi.org/10. 1038/nmeth.4285 PMID: 28481363 43. Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. UFBOOT2: Improving the ultrafast boot- strap approximation. Mol Biol Evol. 2018; 35: 518–522. https://doi.org/10.1093/molbev/msx281 PMID: 29077904 44. Drummond AJ, Suchard MA, Xie D, Rambaut A. Bayesian phylogenetics with BEAUTI and the BEAST 1.7. Mol Biol Evol. 2012; 29: 1969–1973. https://doi.org/10.1093/molbev/mss075 PMID: 22367748 45. Rambaut A, Drummond AJ. TRACER V1.4. Molecular evolution, phylogenetics and epidemiology. Edin- burgh: The University of Edinburgh, Institute of Evolutionary Biology software; 2007. http://tree.bio.ed. ac.uk/software/tracer/ PLOS ONE Himalayan uplift and aquatic evolution

Trang 24 · Đoạn 64Vị trí nguồn

PLOS ONE | https://doi.org/10.1371/journal.pone.0289736 October 24, 2023 24 / 27