Ancient Admixture in Freshwater Halfbeaks of the Genus
RNA-seq
diversification
introgression
mito-nuclear discordance
secondary contact
Journal
Zoological science
ISSN: 0289-0003
Titre abrégé: Zoolog Sci
Pays: Japan
ID NLM: 8702287
Informations de publication
Date de publication:
Oct 2022
Oct 2022
Historique:
received:
27
02
2022
accepted:
23
05
2022
entrez:
7
10
2022
pubmed:
8
10
2022
medline:
12
10
2022
Statut:
ppublish
Résumé
Freshwater halfbeaks of the genus
Substances chimiques
DNA, Mitochondrial
0
Water
059QF0KO0R
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
453-458Références
Alexander DH, Novembre J, Lange K (2009) Fast model-based estimation of ancestry in unrelated individuals. Genome Res 19: 1655–1664
Bouckaert RR (2010) DensiTree: making sense of sets of phylogenetic trees. Bioinformatics 26: 1372–1373
Bryant D, Bouckaert R, Felsenstein J, Rosenberg NA, Roy Choudhury A (2012) Inferring species trees directly from biallelic genetic markers: bypassing gene trees in a full coalescent analysis. Mol Biol Evol 29: 1917–1932
Herder F, Nolte AW, Pfaender J, Schwarzer J, Hadiaty RK, Schliewen UK (2006) Adaptive radiation and hybridization in Wallace's Dreamponds: evidence from sailfin silversides in the Malili Lakes of Sulawesi. Proc R Soc B 273: 2209–2217
Horoiwa M, Mandagi IF, Sutra N, Montenegro J, Tantu FY, Masengi KWA, et al. (2021) Mitochondrial introgression by ancient admixture between two distant lacustrine fishes in Sulawesi Island. PLOS ONE 16: e0245316
Huson DH, Bryant D (2006) Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23: 254–267
Huylebrouck J, Hadiaty RK, Herder F (2012)
Huylebrouck J, Hadiaty RK, Herder F (2014) Two new species of viviparous halfbeaks (Atherinomorpha: Beloniformes: Zenarchopteridae) endemic to Sulawesi Tenggara, Indonesia. Raffles Bull Zool 62: 200–209
Kobayashi H, Masengi KWA, Yamahira K (2020) A new “beakless” halfbeak of the genus
Kozlov AM, Darriba D, Flouri T, Morel B, Stamatakis A (2019) RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference. Bioinformatics 35: 4453–4455
Kraemer J, Thieme P, Hadiaty RK, Herder F (2019) Structure of the andropodium of the viviparous halfbeak genus
Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33: 1870–1874
Lischer HEL, Excoffier L (2012) PGDSpider: An automated data conversion tool for connecting population genetics and genomics programs. Bioinformatics 28: 298–299
Maddison WP (1997) Gene trees in species trees. Syst Biol 46: 523–536
Mandagi IF, Kakioka R, Montenegro J, Kobayashi H, Masengi KWA, Inomata N, et al. (2021) Species divergence and repeated ancient hybridization in a Sulawesian lake system. J Evol Biol 34: 1767–1780
Marques DA, Meier JI, Seehausen O (2019) A combination view on speciation and adaptive radiation. Trends Ecol Evol 34: 531–544
Meisner AD (2001) Phylogenetic systematics of the viviparous halfbeak genera
Mokodongan DF, Yamahira K (2015) Origin and intra-island diversification of Sulawesi endemic Adrianichthyidae. Mol Phylogenet Evol 93: 150–160
Montenegro J, Mochida K, Matsui K, Mokodongan DF, Sumarto BKA, Lawelle SA, et al. (2019) Convergent evolution of body color between sympatric freshwater fishes via different visual sensory evolution. Ecol Evol 9: 6389–6398
Nichols R (2001) Gene trees and species trees are not the same. Trends Ecol Evol 16: 358–364
Page AJ, Taylor B, Delaney AJ, Soares J, Seemann T, Keane JA, Harris SR (2016)
Pickrell JK, Pritchard JK (2012) Inference of population splits and mixtures from genome-wide allele frequency data. PLoS Genet 8: e1002967
Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81: 559–575
Richards E, Servedio M, Martin C (2019) Searching for sympatric speciation in the genomic era. BioEssays 41: 1900047
Stelbrink B, Albrecht C, Hall R, von Rintelen T (2012) The biogeography of Sulawesi revisited: is there evidence for a vicariant origin of taxa on Wallace's “anomalous island”? Evolution 66: 2252–2271
Stelbrink B, Stöger I, Hadiaty RK, Schliewen UK, Herder F (2014) Age estimates for an adaptive lake fish radiation, its mitochondrial introgression, and an unexpected sister group: Sailfin silversides of the Malili Lakes system in Sulawesi. BMC Evol Biol 14: 94
Surono (1994) Stratigraphy of the southeast Sulawesi continental terrane, Eastern Indonesia. J Geol Miner Res 4: 4–11
Sutra N, Kusumi J, Montenegro J, Kobayashi H, Fujimoto S, Masengi KWA, et al. (2019) Evidence for sympatric speciation in a Wallacean ancient lake. Evolution 73: 1898–1915
White LT, Hall R, Richard A (2014) The age of undeformed dacite intrusions within the Kolaka Fault zone, SE Sulawesi, Indonesia. J Asian Earth Sci 94: 105–112
Whitten AJ, Mustafa M, Henderson GS (2002) The Ecology of Sulawesi. Periplus, Singapore
Wilson ME, Moss SJ (1999) Cenozoic paleogeographic evolution of Sulawesi and Borneo. Paleo3 145: 303–337