Multilocus phylogenetic analysis to recover evolutionary relationships among species of genus Cereus (Cactaceae; Cereeae)

• Grant number: 14/25227-0
• Support Opportunities: Regular Research Grants
• Duration: November 01, 2015 - April 30, 2018
• Field of knowledge: Biological Sciences - Genetics - Plant Genetics
• Principal Investigator: Fernando de Faria Franco
• Grantee: Fernando de Faria Franco
• Host Institution: Centro de Ciências Humanas e Biológicas (CCHB). Universidade Federal de São Carlos (UFSCAR). Sorocaba , SP, Brazil
• Associated researchers: Daniela Cristina Zappi ; Evandro Marsola de Moraes
• Associated grant(s): 17/11939-7 - The xeric side of the Brazilian Atlantic Forest: the forces shaping phylogeographic structure of cacti, PUB.ART

Abstract

In this project we intend to isolate genealogical nuclear markers for conducting phylogenetic and biogeographic analyzes with species of genus Cereus (Cactaceae; Cereeae). The strategy for data collection involves the preparation of reduced genomic libraries by RadSeq from individuals representatives of the main evolutionary lineages within Cereus, associated with next generation sequencing (NGS) using Illumina HiSeq2500 platform. To obtain the genealogical markers, contigs will be assembly using bioinformatics and a partial genome as reference. The project will be implemented in two phases. In the former, the primary data, generated by NGS, will be used to perform phylogenetic analyzes using concatenated data in a "super matrix" (Maximum Likelihood and Bayesian inference) and, furthermore, we also will perform Species Tree analysis, which deals with the stochastic variation found in the genealogies. These preliminary analyzes will be useful to establish the evolutionary relationships among the major lineages of Cereus. In the later phase, primers for the 10 most informative loci will be draw allowing the amplification and Sanger sequencing of additional representatives of both internal and external groups. This increasing in our sampling will improve our understanding about the relationships of internal groups as well as allows calibrate the phylogeny and perform biogeographic reconstructions. In this context, the data generated here will contribute to: 1) assist necessary taxonomic revisions for the genus Cereus; 2) to test biogeographic hypotheses previously established to explain the diversification of the major lineages of this genus; 3) contribute to the intense debate on the main factors to explain the diversification of recent groups in Neotropics; 4) to assist future evolutionary studies involving species of Cereus either due the isolation of nuclear loci as well as the establishing of a robust phylogeny for this group. (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)

BOMBONATO, JULIANA RODRIGUES; DO AMARAL, DANILO TRABUCO; RODRIGUES SILVA, GISLAINE ANGELICA; KHAN, GULZAR; MORAES, EVANDRO M.; DA SILVA ANDRADE, SONIA CRISTINA; EATON, DEREN A. R.; ALONSO, DIEGO PERES; MARTINS RIBOLLA, PAULO EDUARDO; TAYLOR, NIGEL; et al. The potential of genome-wide RAD sequences for resolving rapid radiations: a case study in Cactaceae. Molecular Phylogenetics and Evolution, v. 151, OCT 2020. (18/03428-5, 14/25227-0)

AMARAL, DANILO TRABUCO; BOMBONATO, JULIANA RODRIGUES; DA SILVA ANDRADE, SONIA CRISTINA; MORAES, EVANDRO MARSOLA; FRANCO, FERNANDO FARIA. The genome of a thorny species: comparative genomic analysis among South and North American Cactaceae. PLANTA, v. 254, n. 3, SEP 2021. (14/25227-0, 18/03428-5)

BOMBONATO, JULIANA RODRIGUES; SILVA BONATELLI, ISABEL APARECIDA; RODRIGUES SILVA, GISLAINE ANGELICA; MORAES, EVANDRO MARSOLA; ZAPPI, DANIELA CRISTINA; TAYLOR, NIGEL P.; FRANCO, FERNANDO FARIA. Cross-genera SSR transferability in cacti revealed by a case study using Cereus (Cereeae, Cactaceae). GENETICS AND MOLECULAR BIOLOGY, v. 42, n. 1, p. 87-94, JAN-MAR 2019. (14/25227-0)

ROMEIRO-BRITO, MONIQUE; KHAN, GULZAR; PEREZ, MANOLO F.; ZAPPI, DANIELA C.; TAYLOR, NIGEL P.; OLSTHOORN, GERARDUS; FRANCO, FERNANDO F.; MORAES, EVANDRO M.. Revisiting phylogeny, systematics, and biogeography of a Pleistocene radiation. AMERICAN JOURNAL OF BOTANY, v. 110, n. 3, p. 17-pg., 2023-03-07. (15/06160-5, 14/25227-0, 12/22943-1, 12/22477-0)

KHAN, GULZAR; FRANCO, FERNANDO F.; SILVA, GISLAINE A. R.; BOMBONATO, JULIANA R.; MACHADO, MARLON; ALONSO, DIEGO P.; RIBOLLA, PAULO E. M.; ALBACH, DIRK C.; MORAES, EVANDRO M.. Maintaining genetic integrity with high promiscuity: Frequent hybridization with low introgression in multiple hybrid zones of Melocactus (Cactaceae). Molecular Phylogenetics and Evolution, v. 142, JAN 2020. (14/26224-5, 14/25227-0)

FRANCO, FERNANDO FARIA; SILVA, FELIPE ANDRE; KHAN, GULZAR; BONATELLI, ISABEL A. S.; AMARAL, DANILO TRABUCO; ZAPPI, DANIELA C.; TAYLOR, NIGEL P.; MORAES, EVANDRO MARSOLA. Generalizations of genetic conservation principles in islands are not always likely: a case study from a Neotropical insular cactus. Botanical Journal of the Linnean Society, v. 199, n. 1, p. 18-pg., 2021-12-18. (14/25227-0)