Publications

2024

Mata-Sucre, Y., Krátká, M., Oliveira, L. ... Marques, A. Repeat-based holocentromeres of the woodrush Luzula sylvatica reveal insights into the evolutionary transition to holocentricity. Nature Communications 15, 9565 (2024). https://doi.org/10.1038/s41467-024-53944-5

Castellani, M., Zhang, M., Thangavel, G., Mata-Sucre, Y., Lux, T., Campoy, J. A., Marek, M., Huettel, B., Sun, H., Mayer, K. F. X, Schneeberger, Marques, A. (2024). Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning. Nature Plants 10, 423–438 (2024). https://doi.org/10.1038/s41477-024-01625-y

Castro N, Vilela B, Mata-Sucre Y, Marques A, Gagnon E, Lewis GP, Costa L, Souza G. Repeatome evolution across space and time: Unravelling repeats dynamics in the plant genus Erythrostemon Klotzsch (Leguminosae Juss). Mol Ecol. 2024 Sep 9:e17510. doi: 10.1111/mec.17510.

Dias, Y., Mata-Sucre, Y., Thangavel, G., Costa, L., Báez, M., Houben, A., Marques, A. and Pedrosa-Harand, A. (2024), How diverse a monocentric chromosome can be? Repeatome and centromeric organization of Juncus effusus (Juncaceae). Plant J. https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.16712

How plants with hundreds of centromeres crossover. Nat. Plants (2024). https://doi.org/10.1038/s41477-024-01646-7

Ivanković M, Brand JN, Pandolfini L, Brown T, Pippel M, Rozanski A, Schubert T, Grohme MA, Winkler S, Robledillo L, Zhang M, Codino A, Gustincich S, Vila-Farré M, Zhang S, Papantonis A, Marques A, Rink JC. A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence. Nat Commun. 2024 Sep 19;15(1):8215. https://doi.org/10.1038/s41467-024-52380-9

Mata-Sucre Y, Parteka LM, Ritz CM, Gatica-Arias A, Félix LP, Thomas WW, Souza G, Vanzela ALL, Pedrosa-Harand A, Marques A. Oligo-barcode illuminates holocentric karyotype evolution in Rhynchospora (Cyperaceae). Front Plant Sci. 2024 Feb 7;15:1330927. doi: 10.3389/fpls.2024.1330927

Souza TB, Parteka LM, Kuo YT, Nascimento THD, Schubert V, Pedrosa-Harand A, Marques A, Houben A, Vanzela ALL. Distinct patterns of satDNA distribution in holocentric chromosomes of spike-sedges (Eleocharis, Cyperaceae). Genome. 2024 Sep 16. doi: 10.1139/gen-2024-0089.

2023

Castellani, M., Zhang, M., Thangavel, G., Sucre, Y. M., Lux, T., Campoy, J. A., Marek, M., Huettel, B., Sun, H., Mayer, K. F. X., Schneeberger, K., Marques, A. (2023) Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning. bioRxiv 2023.04.28.538594; https://doi.org/10.1101/2023.04.28.538594

Castro N., Y. Mata-Sucre, J. Carvalho-Sobrinho, Marques, A., R. T. De Queiroz, Souza, G. (2023) Genomic stability in Cenostigma Tul., (Caesalpinioideae, Fabaceae): causes and consequences. Botanical Journal of the Linnean Society boad043. https://doi.org/10.1093/botlinnean/boad043.

Costa, L., Marques, A., Buddenhagen, C. E., Pedrosa-Harand, A., Souza, G. Investigating the diversification of holocentromeric satDNA Tyba in Rhynchospora (Cyperaceae), Annals of Botany, 2023; mcad036, https://doi.org/10.1093/aob/mcad036

Escudero, M., Marques, A., Lucek, K., & Hipp, A. L. (2023). Genomic hotspots of chromosome rearrangements explain conserved synteny despite high rates of chromosome evolution in a holocentric lineage. Molecular Ecology, 00, 1– 12. https://doi.org/10.1111/mec.17086

Kuo, Y.-T, Souza Câmara, A., Schubert, V., Neumann, P., Macas, J., Melzer, M., Chen, J., Fuchs, J., Abel, S., Klocke, E., Huettel, B., Himmelbach, A., Demidov, D., Dunemann, F., Mascher, M., Ishii, T., Marques, A., Houben, A. (2023) Holocentromeres can consist of merely a few megabase-sized satellite arrays. Nature Communications 14, 3502 https://doi.org/10.1038/s41467-023-38922-7

Mata-Sucre Y., W. Matzenauer, N. M. Souza Castro, B. Huettel, A. Pedrosa-Harand, Marques, A., Souza, G. (2023). Repeat-based phylogenomics shed light on unclear relationships in the monocentric genus Juncus L. (Juncaceae). Molecular Phylogenetics and Evolution 107930. https://doi.org/10.1016/j.ympev.2023.107930.

Saul, F., Scharmann, M., Wakatake, T. et al. (2023) Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis. Nat. Plants . https://doi.org/10.1038/s41477-023-01562-2

Thangavel, G., Hofstatter, P.G., Mercier, R., Marques A. Tracing the evolution of the plant meiotic molecular machinery. Plant Reproduction (2023). https://doi.org/10.1007/s00497-022-00456-1

2022

Hofstatter, P. G., Thangavel, G., Lux, T., Neumann, P., Vondrak, T., Novak, P., Zhang, M., Costa, L., Castellani, M., Scott, A., Toegelová, H., Fuchs, J., Mata-Sucre, Y., Dias, Y., Vanzela, A. L. L., Huettel, B., Almeida, C. C. S., Šimková, H., Souza, G., Pedrosa-Harand, A., Macas, J., Mayer, K. F. X., Houben, A., & Marques, A. (2022). Repeat-based holocentromeres influence genome architecture and karyotype evolution. Cell. doi:10.1016/j.cell.2022.06.045. https://www.cell.com/cell/fulltext/S0092-8674(22)00797-8

Marques, A., Hufnagel, B., Soriano, A., Péret, B. The Highly Repeat-Diverse (Peri) Centromeres of White Lupin (Lupinus albus L.). Frontiers in Plant Science 13 (2022). https://www.frontiersin.org/article/10.3389/fpls.2022.862079.

2021

Barbosa, P., Schemczssen-Graeff, Z., Marques, A., da Silva, M., Favero, G.M., Sobreiro, B.P., de Almeida, M.C., Moreira-Filho, O., Silva, D.M.Z.d.A., Porto-Foresti, F., Foresti, F., Artoni, R.F. Silencing of Transposable Elements Mediated by 5-mC and Compensation of the Heterochromatin Content by Presence of B Chromosomes in Astyanax scabripinnis. Cells 10, 1162 (2021). https://doi.org/10.3390/cells10051162

Costa L, Marques A, Buddenhagen C, Thomas WW, Huettel B, Schubert V, Dodsworth S, Houben A, Souza G, Pedrosa-Harand A. Aiming off the target: recycling target capture sequencing reads for investigating repetitive DNA. Ann Bot. 2021 Nov 9;128(7):835-848. https://doi.org/10.1093/aob/mcab063

Hofstatter, P. G., Thangavel, G., Castellani, M., Marques, A. Meiosis Progression and Recombination in Holocentric Plants: What Is Known? Frontiers in Plant Science 12, 617 (2021). https://www.frontiersin.org/article/10.3389/fpls.2021.658296

Oliveira MAS, Nunes T, Dos Santos MA, Ferreira Gomes D, Costa I, Van-Lume B, Marques, A., Oliveira RS, Simon MF, Lima GSA, Gissi DS, Almeida CCS, Souza G, Marques A. High-Throughput Genomic Data Reveal Complex Phylogenetic Relationships in Stylosanthes Sw (Leguminosae). Front Genet. 2021 Sep 23;12:727314.. https://www.frontiersin.org/article/10.3389/fgene.2021.727314

2020

Burchardt, P., Buddenhagen, C. E., Gaeta, M. L., Souza, M. D., Marques, A.*, Vanzela, A. L. L.* Holocentric Karyotype Evolution in Rhynchospora Is Marked by Intense Numerical, Structural, and Genome Size Changes. Frontiers in Plant Science 11, 1390 (2020). https://www.frontiersin.org/article/10.3389/fpls.2020.536507

Hufnagel, B., Marques, A., Soriano, A. et al. High-quality genome sequence of white lupin provides insight into soil exploration and seed quality. Nat Commun 11, 492 (2020). https://doi.org/10.1038/s41467-019-14197-9