Comparative phylogeography of three "varzea" forest bird lineages: surveying new biogeographic patterns for Amazonia

• Grant number: 15/12551-7
• Support Opportunities: Scholarships abroad - Research Internship - Doctorate
• Start date: May 20, 2016
• End date: May 19, 2017
• Field of knowledge: Biological Sciences - Genetics - Animal Genetics
• Principal Investigator: Cristina Yumi Miyaki
• Grantee: Gregory Thom e Silva
• Supervisor: Michael Hickerson
• Host Institution: Instituto de Biociências (IB). Universidade de São Paulo (USP). São Paulo , SP, Brazil
• Institution abroad: City University of New York, New York (CUNY), United States
• Associated to the scholarship: 14/00113-2 - Comparative phylogeography of four Amazonian lineages of birds: accessing biogeographic patterns based on ultra-conserved elements, BP.DR

Abstract

Approximate Bayesian computation (ABC) associated with population genetics provide a rigorous statistical phylogeography method to test competing a priori hypotheses. Many alternative diversification hypotheses were proposed to explain the high Amazonian biodiversity, although most are unable to be properly tested or distinguished with likelihood based methods, due to the complexity of the scenarios and the similarity of expected genetic patterns among hypotheses. Thus, the use of ABC methods could contribute to better understand the process that affected biogeographic patterns in Amazonia. Despite the growing number of phylogeography studies on terrestrial vertebrates the application of ABC methods to explicit test diversification hypothesis for Amazonian organisms are scant. The goal of this internship proposal is to analyze sequences of 2560 Ultra Conserved Elements and 98 introns with ABC approaches to test alternative diversification scenarios of three bird species (Thamnophilus nigrocinereus/cryptoleucus, Myrmoborus lugubris and Myrmotherula assimilis) restricted to flooded forests ("varzea"). We aim to: 1) Describe in a temporal and spatial context how the diversification patterns of the three species complexes were formed; 2) Test alternative diversification models for each of the three species complexes; 3) Compare the phylogeography patterns in order to propose a paleobiogeographic model which encompasses the diversification scenario of the three species complexes. (AU)

Scientific publications

(6)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

DO AMARAL, FABIO RAPOSO; MALDONADO-COELHO, MARCOS; ALEIXO, ALEXANDRE; LUNA, LEILTON W.; DO REGO, PERICLES SENA; ARARIPE, JULIANA; SOUZA, THAINARA O.; SILVA, WEBER A. G.; THOM, GREGORY. Recent chapters of Neotropical history overlooked in phylogeography: Shallow divergence explains phenotype and genotype uncoupling in Antilophia manakins. Molecular Ecology, v. 27, n. 20, p. 4108-4120, OCT 2018. (13/50297-0, 17/25720-7, 14/00113-2, 15/18287-0, 15/12551-7, 16/11439-1, 11/23155-4, 11/50143-7)

DO AMARAL, FABIO RAPOSO; THOM, GREGORY; LIMA-RIBEIRO, MATHEUS S.; ALVARADO-SERRANO, DIEGO F.; MONTESANTI, JULIA A. C.; PELLEGRINO, KATIA C. M.; MIYAKI, CRISTINA Y.; HICKERSON, MICHAEL J.; MALDONADO-COELHO, MARCOS. ugged relief and climate promote isolation and divergence between two neotropical cold-associated bird. Evolution, v. 75, n. 10, AUG 2021. (11/50143-7, 16/11439-1, 15/12551-7, 18/17869-3, 13/50297-0, 17/25720-7, 15/18287-0, 11/23155-4)

THOM, GREGORY; XUE, ALEXANDER T.; SAWAKUCHI, ANDRE O.; RIBAS, CAMILA C.; HICKERSON, MICHAEL J.; ALEIXO, ALEXANDRE; MIYAKI, CRISTINA. Quaternary climate changes as speciation drivers in the Amazon floodplains. SCIENCE ADVANCES, v. 6, n. 11, MAR 2020. (13/50297-0, 17/25720-7, 14/00113-2, 18/17869-3, 12/50260-6, 15/12551-7)

CHOUERI, ERIK L.; GUBILI, CHRYSOULA; BORGES, SERGIO H.; THOM, GREGORY; SAWAKUCHI, ANDRE O.; SOARES, EMILIO A. A.; RIBAS, CAMILA C.. Phylogeography and population dynamics of Antbirds (Thamnophilidae) from Amazonian fluvial islands. Journal of Biogeography, v. 44, n. 10, p. 2284-2294, OCT 2017. (15/12551-7, 14/00113-2, 11/06609-1, 12/50260-6)

THOM, GREGORY; DO AMARAL, FABIO RAPOSO; HICKERSON, MICHAEL J.; ALEIXO, ALEXANDRE; ARAUJO-SILVA, LUCAS E.; RIBAS, CAMILA C.; CHOUERI, ERIK; MIYAKI, CRISTINA Y.. Phenotypic and Genetic Structure Support Gene Flow Generating Gene Tree Discordances in an Amazonian Floodplain Endemic Species. Systematic Biology, v. 67, n. 4, p. 700-718, JUL 2018. (11/50143-7, 15/12551-7, 13/50297-0, 14/00113-2, 11/23155-4, 12/50260-6)

THOM, GREGORY; RIBAS, CAMILA C.; SHULTZ, EDUARDO; ALEIXO, ALEXANDRE; MIYAKI, CRISTINA Y.. Population dynamics of Amazonian floodplain forest species support spatial variation on genetic diversity but not range expansions through time. Journal of Biogeography, v. 49, n. 10, p. 11-pg., 2022-09-08. (14/00113-2, 13/50297-0, 15/12551-7, 17/25720-7, 12/50260-6, 18/17869-3)