Publications

Selected (Recent)   google scholar

Wang M, Lemos B. 2017. Ribosomal DNA copy number amplification and loss in human cancers is linked to tumor genetic context, nucleolus activity, and proliferation. PLoS Genetics 13(9):e1006994.

Yu S, Lemos B. 2016. A portrait of ribosomal DNA contacts with Hi-C reveals 5S and 45S rDNA anchoring points in the folded human genome. Genome Biology and Evolution 8 (11): 3545-3558.

Gibbons JG, Branco AT, Godinho SA, Yu S, Lemos B. 2015. Concerted copy number variation balances ribosomal DNA dosage in human and mouse genomes. Proceedings of the National Academy of Sciences 112 (8): 2485-2490.

Gibbons JG, Branco AT, Yu S, Lemos B. 2014. Ribosomal DNA copy number is coupled with gene expression variation and mitochondrial abundance in humans. Nature Communications 5:4854.

Francisco F, Lemos B. 2014. How do Y-chromosomes modulate genome-wide epigenetic states: genome folding, chromatin sinks, and gene expression. Journal of Genomics 2:94-103.

2018

Deng Y, Zhang Y, Qiao R, Bonilla M, Yang X, Ren H, Lemos B. 2018. Evidence that microplastics aggravate the toxicity of organophosphorus flame retardants in mice (Mus musculus). Journal of Hazardous Materials, in press.

Yu S, Lemos B. 2018. The long-range interaction map of ribosomal DNA arrays. PLoS Genetics 14(3): e1007258.

Wang M, Branco AT, Lemos B. 2018. The Y chromosome modulates splicing and sex-biased intron retention rates in Drosophila. Genetics 208 (3), 1057-1067

Palacios-Gimenez OM, Milani D, Lemos B, Castillo E, Marti D, Ramos E, Martins C, Cabral-de-Mello D. 2018. Uncovering the evolutionary history of neo-XY sex chromosomes in the grasshopper Ronderosia bergii (Orthoptera, Melanoplinae) through satellite DNA analysis. BMC Evolutionary Biology 18:2 | DOI 10.1186/s12862-017-1113-x

2017

Wang M, Lemos B. 2017. Ribosomal DNA copy number amplification and loss in human cancers is linked to tumor genetic context, nucleolus activity, and proliferation. PLoS Genetics 13(9):e1006994 | DOI: 10.1371/journal.pgen.1006994.

Branco AT, Brito RM, Lemos B. 2017. Sex-specific adaptation and genomic responses to Y chromosome presence in female reproductive and neural tissues. Proceedings of the Royal Society B 284 (1869): 20172062 | DOI: 10.1098/rspb.2017.2062.

Deng Y, Zhang Y, Lemos B, Ren H. 2017. Tissue accumulation of microplastics in mice suggests widespread health risks from exposure. Scientific Reports 7:46687 | DOI: 10.1038/srep46687.

Nwanaji-Enwerem JC, Colicino E, Dai L, Di Q, Just AC, Hou L, Vokonas P, Vivo I, Lemos B, Lu Q, Weisskopf MG, Baccarelli AA, Schwartz JD. 2017. miRNA processing gene polymorphisms, blood DNA methylation age and long-term ambient PM2.5 exposure in elderly men. Epigenomics 9(12):1529-1542 | DOI: 10.2217/epi-2017-0094.

Palacios-Gimenez OM, Bardella VB, Lemos B, Cabral-de-Mello DC. 2017. Satellite DNAs are conserved and differentially transcribed among Gryllus cricket species. DNA Research | DOI: 10.1093/dnares/dsx044.

Branco AT, Schilling L, Silkaitis K, Dowling DK, Lemos B. 2017. Reproductive activity triggers accelerated male mortality and decreases lifespan: genetic and gene expression determinants in Drosophila. Heredity 118(3):221-228 | DOI: 10.1038/hdy.2016.89.

2016

Yu S, Lemos B. 2016. A portrait of ribosomal DNA contacts with Hi-C reveals 5S and 45S rDNA anchoring points in the folded human genome. Genome Biology and Evolution 8 (11):3545–3558.

Laarits T, Bordalo P, Lemos B. 2016. Genes under weaker stabilizing selection increase evolvability and rapid regulatory adaptation to an environmental shift. JEB 29(8):1602–1616.

Reis AHO, Vargas FR , Lemos B. 2016. Biomarkers of genome instability and cancer epigenetics. Tumor Biology 37(10):13029–13038.

Araripe LO, Tao Y, Lemos B. 2016. Interspecific Y chromosome variation is sufficient to rescue hybrid male sterility and is influenced by the grandparental origin of the chromosomes. Heredity 116 (6): 516-522.

2015

Gibbons JG, Branco AT, Godinho SA, Yu S, Lemos B. 2015. Concerted copy number variation balances ribosomal DNA dosage in human and mouse genomes. Proceedings of the National Academy of Sciences 112 (8):2485–2490.

Case LK, Wall EH, Osmanski EE, Dragon JA, Saligrama N, Zachary JF, Lemos B, Blankenhorn EP, Teuscher C. 2015. Copy number variation in Y chromosome multicopy genes is linked to a paternal parent-of-origin effect on CNS autoimmune disease in female offspring. Genome Biology 16 (1):28.

Dean R, Lemos B, Dowling DK. 2015. Context‐dependent effects of Y chromosome and mitochondrial haplotype on male locomotive activity in Drosophila. Journal of Evolutionary Biology 28 (10):1861-1871.

Yee WKW, Rogell B, Lemos B, Dowling DK. 2015. Intergenomic interactions between mitochondrial and Y‐linked genes shape male mating patterns and fertility in Drosophila melanogaster. Evolution 69 (11):2876–2890.

2014

Gibbons JG, Branco AT, Yu S, Lemos B. 2014. Ribosomal DNA copy number is coupled with gene expression variation and mitochondrial abundance in humans. Nature Communications 5:4854.

Branco AT, Lemos B. 2014. High intake of dietary sugar enhances bisphenol A (BPA) disruption and reveals ribosome-mediated pathways of toxicity. Genetics 197 (1): 147-157.

Branco AT, Lemos B. 2014. Interaction between bisphenol A and dietary sugar affects global gene transcription in Drosophila melanogasterGenomics Data 2: 308-311.

Silkaitis K, Lemos B. 2014. Sex-biased chromatin and regulatory cross-talk between sex chromosomes, autosomes, and mitochondria. Biology of Sex Differences 5 (2): 1-14.

Pyrgiotakis G, McDevitt J, Gao Y, Branco AT, Eleftheriadou M, Lemos B, Nardell E, Demokritou P. 2014. Mycobacteria inactivation using Engineered Water Nanostructures (EWNS). Nanomedicine: Nanotechnology, Biology and Medicine 10(6).

Hajjari M, Khoshnevisan A, Lemos B. 2014. Characterizing the Retinoblastoma 1 Locus: putative elements for Rb1 regulation. Frontiers in Genetics 5:2-.

Rogell B, Dean R, Lemos B, Dowling DK. 2014. Mito-nuclear interactions as drivers of gene movement on and off the X-chromosome. BMC Genomics 15 (1): 330-.

Francisco F, Lemos B. 2014. How do Y-chromosomes modulate genome-wide epigenetic states: genome folding, chromatin sinks, and gene expression. Journal of Genomics 2:94-103.

Lemos B, Branco AT, Jiang PP, Hartl DL, Meiklejohn CD. 2014. Genome-wide gene expression effects of sex chromosome imprinting in Drosophila. G3: Genes, Genomes, Genetics 4(1):1-10.

2012-2013

Branco AT, Hartl DL, Lemos B. 2013. Chromatin-associated proteins HP1 and Mod(mdg4) modify Y-linked regulatory variation in the Drosophila testis. Genetics 194(3):609-18

Branco AT, Tao Y, Hartl DL, Lemos B. 2013. Natural variation of the Y chromosome suppresses sex ratio distortion and modulates testis-specific gene expression in Drosophila simulans. Heredity 111(1):8-15

Reis AH, Vargas FR, Lemos B. 2012. More epigenetic hits than meets the eye: microRNAs and genes associated with the tumorigenesis of retinoblastoma. Frontiers in Genetics 3:284-

Zhou J, Sackton TB, Martinsen L, Lemos B, Eickbush TH, Hartl DL. 2012. Y chromosome mediates ribosomal DNA silencing and modulates chromatin state in Drosophila. Proceedings of the National Academy of Sciences 109(25): 9941-9946.

2011

Paredes S, Branco AT, Hartl DL, Maggert K, Lemos B. 2011. Ribosomal DNA deletions modulate genome-wide gene expression: “rDNA-sensitive” genes and natural variation. PLoS Genetics 7(4): e1001376. doi:10.1371/journal.pgen.1001376.

Zhou J, Lemos B, Dopman E, Hartl DL. 2011. Copy number variation: the balance between gene dosage and expression in Drosophila melanogaster. Genome Biology and Evolution.  doi:10.1093/gbe/evr023

Sackton TS, Montenegro H, Hartl DL, Lemos B. 2011. Interspecific Y chromosome introgressions disrupt testis-specific gene expression and male reproductive phenotypes in Drosophila. Proceedings of the National Academy of Sciences 108(41): 17046-17051

2008-2010

Lemos B, Branco AT, Hartl DL. 2010. Epigenetic effects of polymorphic Y chromosomes modulate chromatin components, immune response, and sexual conflict. Proceedings of the National Academy of Sciences 107(36): 15826- 15831.

Jiang PP, Hartl DL, Lemos B. 2010. Y not a dead end: Epistatic interactions between Y-linked regulatory polymorphisms and genetic background affect global gene expression in Drosophila melanogasterGenetics 186: 109-118.

Araripe L, Montenegro H, Lemos B, Hartl DL. 2010. Fine-scale genetic mapping of a hybrid male sterility factor between Drosophila simulans and D. mauritiana: the varied and ellusive functions of speciation genes”. BMC Evolutionary Biology 10:385.

Lemos B, Araripe LO, Fontanillas P, Hartl DL. 2008. Dominance and the evolutionary accumulation of cis and trans effects on gene expression. Proceedings of the National Academy of Sciences 105(38): 14471-14476.

Lemos B. 2008. Gene expression: an X chromosome look beyond additivity and non-additivity. Heredity 100:543-544.

Lemos B, Araripe LO, Hartl DL. 2008. Polymorphic Y chromosomes harbor cryptic variation with manifold functional consequences. Science 319: 91-93.

2005-2007

Landry CR¶, Lemos B¶, Rifkin SA, Dickinson WJ, Hartl DL. 2007. Genetic properties influencing the evolvability of gene expression. Science 317: 118-121. ¶first two authors contributed equally to this work

Lemos B. 2007. The opossum genome reveals further evidence for regulatory evolution in mammalian diversification. Genome Biology 8:223-226.

Lemos B, Landry CR, Fontanillas P, Renn S, Kulatinhal R, Brown KM, Hartl DL. Evolution of Genomic Expression. 2007. In Evolutionary Genomics and Proteomics, edited by Mark Pagel and Andrew Pomiankowski. Sinauer Associates, Cambridge, MA.

Lemos B, Bettencourt BR, Meiklejohn CD, Hartl DL. 2005. Evolution of proteins and gene expression levels are coupled in Drosophila and are independently associated with mRNA abundance, protein length, and number of protein-protein interactions. Molecular Biology and Evolution 22(5): 1345-1354.

Lemos B, Meiklejohn CD, Caceres M, Hartl DL. 2005. Rates of divergence in gene expression profiles of primates, mice, and flies: stabilizing selection and variability among functional categories. Evolution 59(1): 126-137.

David JR, Araripe LO, Chakir M, Legout H, Lemos B, Rohmer C, Joly D, Moreteau B. 2005. Male sterility at extreme temperatures: a significant but neglected phenomenon for understanding Drosophila climatic adaptations. Journal of Evolutionary Biology 18(4): 838-846.

Bonvicino CR, Lemos B, Weksler M. 2005. Small mammals of Chapada dos Veadeiros National Park (Cerrado of Central Brazil). Ecologic, karyologic and taxonomic considerations. Brazilian Journal of Biology 65(3): 395-406.

2002-2004

Lemos B, Meiklejohn CD, Hartl DL. 2004. Regulatory evolution across the protein interaction network. Nature Genetics 36(10): 1059-1060.

Lemos B, Yunes JA, Vargas F, Moreira MAM, Cardoso, AA, Seuánez HN. 2004. Phylogenetic footprinting reveals extensive conservation of Sonic Hedgehog (SHH) regulatory elements. Genomics 84(3): 512-524.

Bonvicino CR, Penna-Firme V, Nascimento FF, Lemos B, Stanyon R, Seuánez HN. 2003. The lowest diploid number (2n = 16) yet found in any primate: Callicebus lugens (Humboldt, 1811). Folia Primatologica 74 (3): 141-149.

Lemos B, Cerqueira R. 2002. Morphological differentiation in the white-eared opossum group (Didelphidae, Didelphis). Journal of Mammalogy 83(2):354-369.

1999-2001

Bonvicino CR, Lemos B, Seuanez HN. 2001. Molecular phylogenetics of howler monkeys (Alouatta, Platyrrhini) – A comparison with karyotypic data. Chromosoma 110 (3): 241-246.

Seuánez HN, Lima CR, Lemos B, Bonvicino CR, Moreira MAM, Canavez FC. 2001. Gene assignment in Ateles paniscus chamek (Platyrrhini, Primates). Allocation of 18 markers of human syntenic groups 1, 2, 7, 14, 15, 17 and 22. Chromosome Research 9(8): 631-639.

Lemos B, Marroig G, Cerqueira R. 2001. Evolutionary rates and stabilizing selection in large-bodied opossum skulls (Didelphimorphia : Didelphidae). Journal of Zoology 255: 181-189.

Lemos B, Weksler M, Bonvicino CR. 2000. The taxonomic status of Monodelphis umbristriata (Didelphimorphia : Didelphidae). Mammalia 64 (3): 329-337.

Cerqueira R, Lemos B. 2000. Morphometric differentiation between Neotropical black-eared opossums, Didelphis marsupialis and D. aurita (Didelphimorphia, Didelphidae). Mammalia 64 (3): 319-327.

de Moraes DA, Lemos B, Cerqueira R. 2001. Supernumerary molars in neotropical opossums (Didelphimorphia, Didelphidae). Mammalian Biology 66 (4): 193-203.

Lemos B, Canavez F, Moreira MAM. 1999. Mitochondrial DNA-like sequences in the nuclear genome of the opossum genus Didelphis (Marsupialia : Didelphidae). Journal of Heredity 90 (5): 543-547.