Laboratório de

Bioinformática e Evolução Molecular

2023

BARZILAI, L. P ; SCHRAGO, C.G. Signatures of natural selection in tree topology shape of serially sampled viral phylogenies. MOL. PHYLOGEN. EVOL.

2022

COSTA, F. P. ; SCHRAGO, C.G. ; MELLO, B. . Assessing the relative performance of fast molecular dating methods for phylogenomic data. BMC GENOMICS, 23, 798, 2022.

NACIF, C. L. ; BASTOS, D. L ; MELLO, B ; LAZAR, A ; HINGST-ZAHER, E ; GEISE, L ; BONVICINO, C. R. Hidden diversity of the genus Trinomys (Rodentia: Echimyidae): phylogenetic and populational structure analyses uncover putative new lineages. Zoological Journal of the Linnean Society, p. 1-8, 2022.

LAMARCA, A. P. ; MELLO, B. ; SCHRAGO, C.G. . The performance of outgroup-free rooting under evolutionary radiations. MOLECULAR PHYLOGENETICS AND EVOLUTION, v. 169, p. 1-10, 2022.

SCHRAGO, C.G. Genomic basis of Neotropical primate adaptations. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, v. 119, p. e2213527119, 2022.

ROZA, A. S. ; SCHRAGO, C.G. ; MERMUDES, J. R. M. . Phylogeny, infrageneric classification and historical biogeography of Mesochila, with the performance of different phylogenetic inferences using morphological data compared (Coleoptera: Cicindelidae). Arthropod Systematics and Phylogeny, v. 80, p. 117-135, 2022.

COSTA-PAIVA, E. M.; MELLO, B.; BEZERRA, B. S.; COATES, C. J.; HALANYCH, K.; BROWN, F. LEME, J. M.; TRINDADE, R. I. F. Molecular dating of the blood pigment hemocyanin provides new insight into the origin of animals. Geobiology, p. 1-13, 2021.

2021

MELLO, B.; KUMAR, S.; BATTISTUZZI, F. U. Molecular Clock: Testing. In: eLS. John Wiley & Sons, Ltd: Chichester. DOI: 10.1002/9780470015902.a0029389, 2021.

BEZERRA, B. S.; BELATO, F. A.; MELLO, B.; BROWN, F.; COATES, C. J.; LEME, J. M.; TRINDADE, R. I. F.; COSTA-PAIVA, E. M. Evolution of a key enzyme of aerobic metabolism reveals Proterozoic functional subunit duplication events and an ancient origin of animals. Scientific Reports, v. 11, p. 15744, 2021.

SCHRAGO, C.G.; BARZILAI, L. P. Challenges in estimating virus divergence times in short epidemic timescales with special reference to the evolution of SARS-CoV-2 pandemic. GENETICS AND MOLECULAR BIOLOGY. vol.44, n.1, suppl.1, e20200254.

MELLO, B.; TAO, Q. ; BARBA-MONTOYA, J. ; KUMAR, S. . Molecular dating for phylogenies containing a mix of populations and species by using Bayesian and RelTime approaches. MOLECULAR ECOLOGY RESOURCES, v. 20, p. 1-38, 2020. Further information here.

2020

DIAS, G. R. ; DUPIM, E. G. ; VANDERLINDE, T. ; MELLO, B. ; CARVALHO, A. B. . A phylogenomic study of Steganinae fruit flies (Diptera: Drosophilidae): strong gene tree heterogeneity and evidence for monophyly. BMC EVOLUTIONARY BIOLOGY, v. 20, p. 1-12, 2020.

FREITAS, L. A. ; MESQUITA, R. D. ; SCHRAGO, C.G. . Survey for positively selected coding regions in the genome of the hematophagous tsetse fly Glossina morsitans identifies candidate genes associated with feeding habits and embryonic development. GENETICS AND MOLECULAR BIOLOGY, v. 43, p. 1-7, 2020.

SCHRAGO, C.G.; MELLO, B. . Employing statistical learning to derive species-level genetic diversity for mammalian species. Mammal Review, v. 50, p. 1-12, 2020.

LEOCADIO, M. ; SIMOES, M. V. P. ; SEKERKA, L. ; SCHRAGO, C.G. ; MERMUDES, J. R. M. ; WINDSOR, D. M. . Molecular systematics reveals the origins of subsociality in tortoise beetles (Coleoptera, Chrysomelidae, Cassidinae). Systematic Entomology, v. 45, p. 1-17, 2020.

FIGUEIRA-MANSUR, J. ; SCHRAGO, C.G. ; SALLES, T. S. ; ALVARENGA, E. S. L. ; VASCONCELLOS, B. M. ; MELO, A. C. A. ; MOREIRA, M. F. . hylogenetic analysis of the ATP-binding cassette proteins suggests a new ABC protein subfamily J in Aedes aegypti (Diptera: Culicidae). BMC GENOMICS, v. 21, p. 453, 2020.

2019

TAO, QIQING ; TAMURA, KOICHIRO ; MELLO, B. ; Kumar, S. . Reliable confidence intervals for RelTime estimates of evolutionary divergence times. Molecular Biology and Evolution, v. 1, p. 1-11, 2019.

CALDAS, I. V. ; SCHRAGO, C.G. . Data partitioning and correction for ascertainment bias reduce the uncertainty of placental mammal divergence times inferred from the morphological clock. Ecology and Evolution, p. 1-8, 2019.

SCHRAGO, C.G.; SEUANEZ, H. N. . Large ancestral effective population size explains the difficult phylogenetic placement of owl monkeys. AMERICAN JOURNAL OF PRIMATOLOGY, v. 81, p. 1-8, 2019.

BELATO, F. A. ; SCHRAGO, C.G. ; COATES, C. J. ; HALANYCH, K. ; COSTA-PAIVA, E. M. . Newly discovered occurrences and gene tree of the extracellular globins and linker chains from the giant hexagonal bilayer hemoglobin in metazoans. Genome Biology and Evolution, v. 11, p. 1-10, 2019.

MELLO, B. ; SCHRAGO, C.G. . The estimated pacemaker for great apes supports the hominoid slowdown hypothesis. Evolutionary Bioinformatics, v. 15, p. 1-8, 2019.

FERNANDES, N. M. ; SCHRAGO, C.G. . A multigene timescale and diversification dynamics of Ciliophora evolution. MOLECULAR PHYLOGENETICS AND EVOLUTION, v. 138, p. 1-10, 2019.

BARZILAI, L. P. ; SCHRAGO, C.G. . The range of sampling times affects Zika virus evolutionary rates and divergence times. ARCHIVES OF VIROLOGY, v. 164, p. 1-8, 2019.

LAMARCA, A. P. ; SCHRAGO, C.G. . Fast speciations and slow genes: Uncovering the root of living canids. BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, v. 128, p. 1-6, 2019.

2018

MELLO, B.. Estimating timetrees with MEGA and the TimeTree resource. MOLECULAR BIOLOGY AND EVOLUTION, v. 35, p. 2334-2342, 2018.

SCHRAGO, C.G.; MELLO, B. ; PEREIRA, A. G. ; FURTADO, C. ; SEUANEZ, H. N. . Impact of long-term chromosomal shuffling on the multispecies coalescent analysis of two anthropoid primate lineages. Ecology and Evolution, v. 8, p. 1206-1216, 2018.

ROSSI, M. F. ; MELLO, B. ;SCHRAGO, C.G. . Comparative evaluation of macroevolutionary regimes of Ruminantia and selected mammalian lineages. BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY, p. 1-11, 2018.

MELLO, B. ; VILELA, JÚLIO F. ; SCHRAGO, C. G. . Conservation phylogenetics and computational species delimitation of Neotropical primates. BIOLOGICAL CONSERVATION, v. 217, p. 397-406, 2018.

OLIVEIRA, ALBERTO ; BLEICHER, LUCAS ; SCHRAGO, C. G. ; SILVA JUNIOR, FLORIANO PAES . Conservation analysis and decomposition of residue correlation networks in the Phospholipase A2 superfamily (PLA2s): Insights into the structure-function relationships of snake venom toxins. TOXICON, v. 146, p. 1-5, 2018.

PEREIRA, A. G. ;SCHRAGO, C.G. . Incomplete lineage sorting impacts the inference of macroevolutionary regimes from molecular phylogenies when concatenation is employed: An analysis based on Cetacea. Ecology and Evolution, p. 1-7, 2018.

SAKURAGUI, C. M. ; CALAZANS, L. S. B. ; LOSS-OLIVEIRA, L ; MORAIS, E. B. ; BENKO-ISEPPON, A. M. ; VASCONCELOS, S. ; SCHRAGO, C.G. ; MAYO, S. J. . Recognition of the genus Thaumatophyllum Schott ? formerly Philodendron subg. Meconostigma (Araceae) ? based on molecular and morphological evidence. PhytoKeys, v. 98, p. 51-71, 2018.

SCHRAGO, C.G.; Aguiar, BO ; MELLO, B. . Comparative evaluation of maximum parsimony and Bayesian phylogenetic reconstruction using empirical morphological data. JOURNAL OF EVOLUTIONARY BIOLOGY, p. 1-6, 2018.

HESSAB, T. ; ARANHA, R. ; MOURA-NETO, R. ; BALDING, D. ; SCHRAGO, C.G. . Evaluating DNA evidence in a genetically complex population. Forensic Science International-Genetics, p. 1-10, 2018.

FREITAS, L. A. ; MELLO, B. ;SCHRAGO, C.G. . Multispecies coalescent analysis confirms standing phylogenetic instability in Hexapoda. JOURNAL OF EVOLUTIONARY BIOLOGY, v. 31, p. 1-7, 2018.

COSTA-PAIVA, E. M. ;SCHRAGO, C.G. ; COATES, C. J. ; HALANYCH, K. . Discovery of novel hemocyanin-like genes in Metazoans. BIOLOGICAL BULLETIN, v. 235, p. 1-10, 2018.

CAPELLAO, R. T. ; COSTA-PAIVA, E. M. ;SCHRAGO, C.G. . Appropriate assignment of fossil calibration information minimizes the difference between phylogenetic and pedigree mutation rates in humans. Life, v. 8, p. 49-60, 2018.

2017

PACHECO, M. A. ; MATTA, N. E. ; VALKIUNAS, G. ; PARKER, P. G. ; MELLO, B. ; STANLEY, C. E. ; LENTINO, M. ; GARCIA-AMADO, M. A. ; CRANFIELD, M. ; POND, S. L. K. ; ESCALANTE, A. A. . Mode and rate of evolution of haemosporidian mitochondrial genomes: timing the radiation of avian parasites. MOLECULAR BIOLOGY AND EVOLUTION, v. 35, p. 383-403, 2017.

GUTERRES, ALEXANDRO ; DE OLIVEIRA, RENATA CARVALHO ; FERNANDES, JORLAN ; DE LEMOS, ELBA REGINA SAMPAIO ; SCHRAGO, C. G. New bunya-like viruses: Highlighting their relations. Infection, Genetics and Evolution (Print), v. 49, p. 164-173, 2017.

ROSSI, M. F. ; MELLO, B. ;SCHRAGO, C.G. . Performance of hidden Markov models in recovering the standard classification of glycoside hydrolases. Evolutionary Bioinformatics, v. 13, p. 1-5, 2017.

COSTA-PAIVA, E. M. ; WHELAN, N. V. ; WAITS, D. S. ; SANTOS, S. R. ;SCHRAGO, C.G. ; HALANYCH, K. . Discovery and evolution of novel hemerythrin genes in annelid worms. BMC Evolutionary Biology (Online), v. 17, p. 85, 2017.

PEREIRA, A. G. ;SCHRAGO, C.G. . Arrival and diversification of mabuyine skinks (Squamata: Scincidae) in the Neotropics based on a fossil-calibrated timetree. PeerJ, v. 5, p. e3194, 2017.

PEREIRA, A. G. ; STERLI, J. ; MOREIRA, F. R. R. ;SCHRAGO, C.G. . Multilocus phylogeny and statistical biogeography clarify the evolutionary history of major lineages of turtles. MOLECULAR PHYLOGENETICS AND EVOLUTION, v. 112, p. 1-10, 2017.

HAMDAN, B. ; PEREIRA, A. G. ; LOSS-OLIVEIRA, L ; RODDER, D. ; SCHRAGO, C.G. . Evolutionary analysis of Chironius snakes unveils cryptic diversity and provides clues to diversification in the Neotropics. MOLECULAR PHYLOGENETICS AND EVOLUTION, p. 1-6, 2017.

COSTA-PAIVA, E. M. ;SCHRAGO, C.G. ; HALANYCH, K. . Broad phylogenetic occurrence of the oxygen-binding hemerythrins in bilaterians. Genome Biology and Evolution, v. 9, p. 1-5, 2017.

GUTERRES, ALEXANDRO ; DE OLIVEIRA, RENATA CARVALHO ; FERNANDES, JORLAN ; MAIA, RENATA MALACHINI ; TEIXEIRA, BERNARDO RODRIGUES ; OLIVEIRA, FLÁVIO CÉSAR GOMES ; BONVICINO, CIBELE RODRIGUES ; D?ANDREA, PAULO SERGIO ; SCHRAGO, C.G. ; DE LEMOS, ELBA REGINA SAMPAIO . Co-circulation of Araraquara and Juquitiba Hantavirus in Brazilian Cerrado. MICROBIAL ECOLOGY, v. 74, p. 1-7, 2017.

2016

MELLO, B.; TAO, QIQING ; TAMURA, KOICHIRO ; KUMAR, SUDHIR . Fast and Accurate Estimates of Divergence Times from Big Data. MOLECULAR BIOLOGY AND EVOLUTION, v. 34, p. 45-50, 2016.

LOSS-OLIVEIRA, L ; SAKURAGUI, C. M. ; SOARES, M. L. ; SCHRAGO, C.G. . Evolution of (Araceae) species in Neotropical biomes. PEERJ, v. 4, p. e1744, 2016.

CALVET, G. ; AGUIAR, R. S. ; MELO, A. S. O. ; SAMPAIO, S. A. ; FILIPPIS, I. ; FABRI, A. ; ARAUJO, E. S. ; SEQUEIRA, P. C. ; SANTOS, F. B. ; OLIVEIRA, L. ; TSCHOEKE, D. A. ; SCHRAGO, C.G. ; THOMPSON, F. L. ; NOGUEIRA, R. M. ; TANURI, A. ; FILIPPIS, A. M. B. . Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study. Lancet. Infectious Diseases (Print), p. 1-8, 2016.

JUSTI, S. A. ; GALVAO, C. ;SCHRAGO, C.G. . Geological Changes of the Americas and their Influence on the Diversification of the Neotropical Kissing Bugs (Hemiptera: Reduviidae: Triatominae). PLoS Neglected Tropical Diseases (Online), v. 10, p. e0004527, 2016.

2015

FERNANDES, N. M. ; PAIVA, T. S. ; SILVA-NETO, I. D. ; SCHLEGEL, M. ;SCHRAGO, C.G. . Expanded phylogenetic analyses of the class Heterotrichea (Ciliophora, Postciliodesmatophora) using five molecular markers and morphological data. Molecular Phylogenetics and Evolution (Print), 2015.

FERNANDES, N. M. ; DIAS, R. J. P. ;SCHRAGO, C.G. ; SILVA-NETO, I. D. . Redescription and Phylogenetic Position of Spiegel, 1926 (Ciliophora, Heterotrichea) from Guanabara Bay, Brazil. The Journal of Eukaryotic Microbiology, p. n/a-n/a, 2015.

DA SILVA, ANNA KAROLINE FAUSTO ; ROMANEL, ELISSON ; SILVA, TATIANE DA F. ; CASTILHOS, YAMÁ ; SCHRAGO, C.G. ; GALBIERI, RAFAEL ; BÉLOT, JEAN-LOUIS ; VASLIN, MAITE F. S. . Complete genome sequences of two new virus isolates associated with cotton blue disease resistance breaking in Brazil. Archives of Virology, v. 160, p. 1-4, 2015.

KRSTICEVIC, F. ;SCHRAGO, C.G. ; CARVALHO, A. B. . Long-Read Single Molecule Sequencing to Resolve Tandem Gene Copies: The Mst77Y Region on the Drosophila melanogaster Y Chromosome. G3: Genes, Genomes, Genetics (Bethesda), v. 5, p. 1145-1150, 2015.

TRONCOSO, LIAN ; MUNIZ, CLÁUDIA ; SIQUEIRA, JULIANA ; CURTY, GISLAINE ; SCHRAGO, CARLOS ; AUGUSTO, ANDERSON ; FEDULLO, LUIZ ; SOARES, MARCELO ; SANTOS, ANDRÉ . Characterization and comparative analysis of a simian foamy virus complete genome isolated from Brazilian capuchin monkeys. Virus Research (Print), v. 205, p. 1-6, 2015.

FREITAS, L. A. ; RUSSO, C. A. M. ; VOLOCH, C. M. ; MUTAQUIHA, O. C. F. ; MARQUES, L. P. ;SCHRAGO, C.G. . Diversification of the Genus Anopheles and a Neotropical Clade from the Late Cretaceous. Plos One, v. 10, p. e0134462, 2015.

GUTERRES, ALEXANDRO ; OLIVEIRA, RENATA CARVALHO DE ; FERNANDES, JORLAN ; SCHRAGO, C.G. ; LEMOS, ELBA REGINA SAMPAIO DE . Detection of different South American Hantaviruses. Virus Research (Print), v. 210, p. 1-5, 2015.

2014

SCHRAGO, C.G. ; MENEZES, A. N. ; FURTADO, C. ; BONVICINO, C. R. ; SEUANEZ, H. N. . Multispecies coalescent analysis of the early diversification of Neotropical primates: Phylogenetic inference under strong gene trees/species tree conflict. Genome Biology and Evolution, v. 6, 2014. PDF

SCHRAGO, C. G. . The effective population sizes of the anthropoid ancestors of the human-chimpanzee lineage provide insights on the historical biogeography of the great apes. Molecular Biology and Evolution, v. 31, p. 37-47, 2014.

SCHRAGO, C.G. . The limiting distribution of the effective population size of the ancestor of humans and chimpanzees. Journal of Theoretical Biology, v. 356, p. 1-10, 2014.

SCHRAGO, C.G. . Estimation of the ancestral effective population sizes of African great apes under different selection regimes. Genetica (Dordrecht. Online), v. 142, p. 1-7, 2014.

SCHRAGO, C.G. ; VOLOCH, C. M. . Performance of genomic data sets on the estimation of the divergence time of New World and Old World anthropoids. Genetics and Molecular Research, v. 13, p. 1425-1437, 2014. PDF

VOLOCH, C. M. ; CAPELLAO, R. T. ; MELLO, B.; SCHRAGO, C.G. . Analysis of adaptive evolution in Lyssavirus genomes reveals pervasive diversifying selection during species diversification. Viruses, 2014.

SOARES, A. E. R. ;SCHRAGO, C.G. . The influence of taxon sampling on Bayesian divergence time inference under scenarios of rate heterogeneity among lineages. Journal of Theoretical Biology, p. 1-10, 2014.

GUTERRES, A. ; DE OLIVEIRA, RENATA CARVALHO ; FERNANDES, J. ; STRECHT, L. ; CASADO, F. ; OLIVEIRA, F. C. ; DANDREA, P. S. ; BONVICINO, C. R. ;SCHRAGO, C.G. ; LEMOS, E. R. S. . Characterization of Juquitiba Virus in Oligoryzomys fornesi from Brazilian Cerrado. Viruses, v. 6, p. 1473-1482, 2014.

FERNANDES, N. M. ; SILVA-NETO, I. D. ;SCHRAGO, C.G. . Morphology and Phylogenetic Position of an Unusual Stentor polymorphus (Ciliophora: Heterotrichea) Without Symbiotic Algae. The Journal of Eukaryotic Microbiology, v. 61, p. 1-10, 2014.

LOSS-OLIVEIRA, L ; CALAZANS, L. S. B. ; MORAIS, E. B. ; MAYO, S. J. ;SCHRAGO, C.G. ; SAKURAGUI, C. M. . Floral Evolution of Philodendron Subgenus Meconostigma (Araceae). Plos One, v. 9, p. e89701, 2014. PDF

MELLO, B. ;SCHRAGO, C.G. . Assignment of Calibration Information to Deeper Phylogenetic Nodes is More Effective in Obtaining Precise and Accurate Divergence Time Estimates. Evolutionary Bioinformatics Online, v. 10, p. 79, 2014.

2013

RUSSO, CLAUDIA A. M. ; MELLO, B. ; FRAZÃO, ANNELISE ; VOLOCH, CAROLINA M. . Phylogenetic analysis and a time tree for a large drosophilid data set (Diptera: Drosophilidae). Zoological Journal of the Linnean Society, v. 169, p. 765-775, 2013.

SCHRAGO, C.G. ; VOLOCH, C. M. . The precision of the hominid timescale estimated by relaxed clock methods. Journal of Evolutionary Biology (Printed ed.), v. 26, p. 746-755, 2013.

ELSHAHAWI, S. I. ; TRINDADE-SILVA, A. E. ; HANORA, A. ; HAN, A. W. ; FLORES, M. ; VIZZONI, V. ;SCHRAGO, C.G. ; CONCEPCION, G. P. ; SOARES, C. A. ; DISTEL, D. L. ; SCHMIDT, E. W. ; HAYGOOD, M. G. . A boronated tartrolon antibiotic produced by symbiotic cellulose-degrading bacteria in shipworm gills. Proceedings of the National Academy of Sciences of the United States of America, v. 111, p. 1-10, 2013.

VOLOCH, C. M. ; VILELA, J. F. ; LOSS-OLIVEIRA, L ; SCHRAGO, C.G. . Phylogeny and chronology of the major lineages of New World hystricognath rodents: insights on the biogeography of the Eocene/Oligocene arrival of mammals in South America. BMC Research Notes, v. 6, p. 160, 2013. PDF

MENEZES, A. N. ; VIANA, M. C. ; FURTADO, C. ; SCHRAGO, C. G. ; SEUANEZ, H. N. . Positive Selection along the evolution of Primate Mitogenomes. Mitochondrion (Amsterdam. Print), v. 13, p. 01-10, 2013.

GUTERRES, ALEXANDRO ; DE OLIVEIRA, RENATA CARVALHO ; FERNANDES, JORLAN ; D'ANDREA, PAULO SÉRGIO ; BONVICINO, CIBELE R. ; BRAGAGNOLO, CAMILA ; GUIMARÃES, GUSTAVO DUCOFF ; ALMADA, GILTON LUIZ ; MACHADO, ROSANGELA ROSA ; LAVOCAT, MARÍLIA ; ELKHOURY, MAURO DA ROSA ; SCHRAGO, C.G. ; DE LEMOS, ELBA REGINA SAMPAIO . Phylogenetic Analysis of the S segment from Juquitiba hantavirus: Identification of two distinct lineages in Oligoryzomys nigripes. Infection, Genetics and Evolution (Print), v. 18, p. 01-10, 2013.

Aguiar, BO ; SCHRAGO, C, G. . Conventional simulation of biological sequences leads to a biased assessment of multi-loci phylogenetic analysis. Evolutionary Bioinformatics Online, v. 9, p. 317-325, 2013.

SCHRAGO, C.G. ; MELLO, B. ; SOARES, A. E. R. . Combining fossil and molecular data to date the diversification of New World Primates. Journal of Evolutionary Biology (Printed ed.), v. 26, p. 1-9, 2013.

VILELA, J. F. ; MELLO, B. ; VOLOCH, C. M. ;SCHRAGO, C.G. . Sigmodontine rodents diversified in South America prior to the complete rise of the Panamanian Isthmus. Journal of Zoological Systematics and Evolutionary Research, v. 52, 2013.

2012

SCHRAGO, C.G. ; MENEZES, A. N. ; MOREIRA, M. A. ; PISSINATTI, A. ; SEUANEZ, H. N. . Chronology of deep nodes in the Neotropical primate phylogeny: Insights from mitochondrial genomes. Plos ONE, v. 7, p. e51699, 2012. PDF

ROMANEL, E., SOUSA, T. M., CORREA, R. L., FARINELLI, L., HAWKINS, J. S., SCHRAGO, C.G., VASLIN, M.F.S. Global alteration of microRNAs and transposon-derived small RNAs in cotton (Gossypium hirsutum) during Cotton leafroll dwarf polerovirus (CLRDV) infection. Plant Molecular Biology 80(4-5):443-60

Soares, André E. R. ;SCHRAGO, C.G. . The influence of taxon sampling and tree shape on molecular dating: An empirical example from mammalian mitochondrial genomes. Bioinf. Biol. Ins., v.6. p. 129-143, 2012. PDF

D'Arc, M. ; SCHRAGO, C.G.; SOARES, E.A. ; PISSINATI, A. ; MENEZES, A.N. ; SOARES, M.A. ; SEUANEZ, H.N.. Molecular Evolution of ?4 integrin binding site to lentiviral envelope proteins in Neotropical Primates. Infection, Genetics and Evolution, 2012, 12: 1501-1507.

VOLOCH, C. M. ;SCHRAGO, C.G. . Impact of the partitioning scheme on divergence times inferred from mammalian genomic data sets. Evol. Bioinform., v. 8, p. 207-218, 2012. PDF

OLIVEIRA, R. C. ; GUTERRES, A. ;SCHRAGO, C.G. ; FERNANDES, J. ; TEIXEIRA, B. R. ; ZECCER, S. ; BONVICINO, C. R. ; DANDREA, P. S. ; LEMOS, E. R. S. . First record of Akodon paranaensis naturally infected with Jabora virus strain (Hantavirus) in Brazil. Memórias do Instituto Oswaldo Cruz (Impresso), v. 107, p. 424-428, 2012. PDF

MELLO, B. ;SCHRAGO, C.G. . Incorrect handling of calibration information in divergence time inference: An example from volcanic islands. Ecology and Evolution, v. 2, p. ece3.94, 2012. PDF

COSTA, R. L. ; VOLOCH, C. M. ;SCHRAGO, C.G. . Comparative evolutionary epidemiology of dengue virus serotypes. Infection, Genetics and Evolution (Print), v. 12, p. 309-314, 2012.

LOSS-OLIVEIRA, L ; Aguiar, BO ;SCHRAGO, C.G. . Testing synchrony in historical biogeography: The case of New World Primates and Hystricognathi rodents. Evol. Bioinform., v. 8, p. 127-137, 2012. PDF

2011

ZALONA, A. C. J. ; LOPES, G. S. ;SCHRAGO, C.G. ; GONCALVES, R. T. ; ZALIS, M. G. ; VARELLA, R. B. . Molecular characterization of BK polyomavirus subtypes in renal transplant recipients in Brazil. Journal of Medical Virology (Print), v. 83, p. 1401-1405, 2011.

SILVA, T. F. ; ROMANEL, E. ; ANDRADE, R. R. S. ; FARINELLI, L. ; DELUEN, C. ; CORREA, R. L. ;SCHRAGO, C.G. ; VASLIN, M.F.S. . Profile of small interfering RNAs from cotton plants infected with the polerovirus Cotton leafroll dwarf virus. BMC Molecular Biology, v. 12, p. 40, 2011.

BELLO, G. ; SOARES, M. A. ;SCHRAGO, C.G. . The use of bioinformatics for studying HIV evolutionary and epidemiological history in South America. AIDS Research and Treatment, v. 2011, p. 154945, 2011.

Cunha, H.A. ; Moraes, L.C. ; Medeiros, B.V. ; Lailson-Brito Jr,J. ; da Silva, V.M.F. ; Solé-Cava, A.M. ;SCHRAGO, C.G. . Phylogenetic status and timescale for the diversification of Steno and Sotalia dolphins. Plos One, 2011.

2010

KRSTICEVIC, F. ; SANTOS, H. L. ; JANUARIO, S. ;SCHRAGO, C.G. ; CARVALHO, A. B. . Functional copies of the Mst77F gene on the Y chromosome of Drosophila melanogaster. Genetics (Austin, Tex.), v. 184, p. 295-307, 2010.

PERINI, F. A. ; RUSSO, C. A. M. ;SCHRAGO, C.G. . The evolution of South American endemic canids: A history of rapid diversification and morphological parallelism. Journal of Evolutionary Biology, v. 23, p. 311-322, 2010.

SOARES, E. A. ; MENEZES, A. N. ;SCHRAGO, C.G. ; MOREIRA, M. A. ; BONVICINO, C. R. ; SOUSA, T. M. ; SOARES, M. A. ; SEUANEZ, H. N. . Evolution of the B30.2 (SPRY) domain of TRIM5-alpha in New World primates. Infection, Genetics and Evolution (Print), v. 10, p. 243-256, 2010.

Boldt, Angelica B.W. ; de Messias-Reason, Iara J. ; Meyer, Diogo ; SCHRAGO, C.G. ; Lang, Florian ; Lell, Bertrand ; Dietz, Klaus ; Kremsner, Peter G. ; Petzl-Erler, Maria Luiza ; Kun, Jurgen F. J. . Phylogenetic nomenclature and evolution of mannose-binding lectin (MBL2) haplotypes). BMC Genetics (Online), v. 11, p. 38, 2010.

2009

SCHRAGO, C.G. . Vestígios da criação: Robert Chambers e a recepção ao darwinismo. Ciência Hoje, v. 44, p. 40-43, 2009.

ROMANEL, E. ;SCHRAGO, C.G. ; COUÑAGO, R. M. ; RUSSO, C. A. M. ; ALVES-FERREIRA, M. . Evolution of the B3 DNA Binding Superfamily: New Insights into REM Family Gene Diversification. PLoS ONE, v. 4, p. e5791, 2009.

FONTELLA, R. ; SOARES, M. A. ;SCHRAGO, C.G. . The origin of South American HIV-1 subtype C: Lack of evidence for a Mozambican ancestry. AIDS (London), v. 23, p. 1926-1928, 2009.

VARELLA, R. B. ;SCHRAGO, C.G. ; ZALIS, M. G. . Differential evolution of Human Immunodeficiency Virus type 1 protease and reverse transcriptase genes between HAART-failing and naïve-treated individuals. Current HIV Research (Print), v. 7, p. 601-605, 2009.

2008

Soares, André E. R. ; Soares, Marcelo A. ;SCHRAGO, C.G. . Positive Selection on HIV Accessory Proteins and the Analysis of Molecular Adaptation After Interspecies Transmission. Journal of Molecular Evolution, v. 66, p. 598-604, 2008.

PINTO, M. E. ;SCHRAGO, C.G. ; MIRANDA, A. B. ; RUSSO, C. A. M. . A molecular study on the evolution of a subtype B variant of HIV frequently found in Brazil. Genetics and Molecular Research, v. 7, p. 1020-1030, 2008.

Fontella, Rachel ; Soares, Marcelo A ;SCHRAGO, C.G. . On the origin of HIV-1 subtype C in South America. AIDS (London), v. 22, p. 2001-2011, 2008.

Corrêa, Luiz Gustavo Guedes ; Riaño-Pachón, Diego Mauricio ; SCHRAGO, C.G. ; Vicentini dos Santos, Renato ; Mueller-Roeber, Bernd ; Vincentz, Michel . The Role of bZIP Transcription Factors in Green Plant Evolution: Adaptive Features Emerging from Four Founder Genes. PLoS ONE, v. 3, p. e2944, 2008.

2007

SCHRAGO, C.G. . On the time scale of New World primate diversification. American Journal of Physical Anthropology, v. 132, p. 344-354, 2007.

SANTOS, A. F. ;SCHRAGO, C.G. ; Mendonza-Sassi, R ; MARTINEZ, A. M. B. ; SILVEIRA, J. ; SOUSA, T. M. ; Lengruber, RB ; SOARES, E. A. J. M. ; SPRINZ, E. ; SOARES, M. A. . Epidemiological and evolutionary trends of HIV-1 circulating recombinant form CRF_BC in southern Brazil. Journal of Acquired Immune Deficiency Syndromes, v. 45, p. 328-333, 2007.

2006

SCHRAGO, C.G. . An empirical evaluation of standard errors of maximum likelihood phylogenetic parameters under the molecular clock via bootstrapping. Genetics and Molecular Research, v. 5, p. 233-241, 2006.

2005

VASCONCELOS, A. T. R. ; Castelletti, C. H. M ; Caruso, C. S. ; Yokaichiya, F. ; Armôa, G. R. G. ; Pereira, G. S. P. ; da Silva, I. T. ;SCHRAGO, C.G. ; Fernandes, A. L. V. ; da Silveira, A. R. ; Carneiro, A. G. ; Viana, C. J. M. ; Gramkow, D. ; RUSSO, C. A. M. . MamMiBase: a mitochondrial genome database for mammalian phylogenetic studies. Bioinformatics (Oxford), v. 21, p. 2566-2567, 2005.

Torres, MW ; CORREA, R. L. ;SCHRAGO, C.G. . Analysis of differential selective forces acting on the coat protein (P3) of the plant virus family Luteoviridae. Genetics and Molecular Research, v. 4, p. 790-802, 2005.

2004

RIBEIRO, I. P. ;SCHRAGO, C.G. ; SOARES, E. A. ; PISSINATTI, A. ; SEUANEZ, H. N. ; RUSSO, C. A. M. ; TANURI, A. ; SOARES, M. A. . CCR5 chemokine receptor gene evolution in New World monkeys (Platyrrhini, Primates): implication on resistance to lentiviruses. Infection, Genetics and Evolution, v. 5/3, p. 271-208, 2004.

2003

SCHRAGO, C.G. ; RUSSO, C. A. M. . Timing the origin of New World monkeys. Molecular Biology and Evolution, v. 20, p. 1620-1625, 2003