Ing. Petr Novák, Ph.D.
Research Scientist
Molecular cytogenetics
Institute of Plant Molecular Biology
+420 387 775 575
w3lamc.umbr.cas.cz/lamc/
petr@umbr.cas.cz
147
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Total found: 85 records
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Novák P.,
Hoštáková N.,
Neumann P.,
Macas J. (2024) DANTE and DANTE_LTR: computational pipelines implementing lineage-centered annotation of LTR-retrotransposons in plant genomes. NAR Genomics and Bioinformatics
6(3): lqae113.
DOI: 10.1093/nargab/lqae113 |
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Vigouroux M., Novák P.,
Oliveira L., Santos C., Cheema J., Wouters R.H.M., Paajanen P., Vickers M.,
Koblížková A., Vaz Patto M.,
Macas J., Steuernagel B., Martin C., Emmrich P.M.F. (2024) A chromosome-scale reference genome of grasspea (Lathyrus sativus) Scientific Data
11: 1035.
DOI: 10.1038/s41597-024-03868-y |
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Edwards A., Njaci I., Sarkar A., Jiang Z., Kaithakottil G.G., Moore C., Cheema J., Stevenson C.E.M., Rejzek M., Novák P., Vigouroux M., Vickers M., Wouters R.H.M., Paajanen P., Steurnagel B., Moore J.D., Higgins J., Swarbreck D., Martens S., Kim C.Y., Weng J.-K., Mundree S., Kilian B., Kumar S., Loose M., Yant L.,
Macas J., Wang T.L., Martin C., Emmrich P.M.F. (2023) Genomics and biochemical analyses reveal a metabolon key to β-L-ODAP biosynthesis in Lathyrus sativus Nature Communications
14: 876.
DOI: 10.1038/s41467-023-36503-2 |
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Jayakodi M., Golicz A.A., Kreplak J., Fechete L.I., ...,
Koblížková A.,
Neumann P., Novák P.,
Avila Robledillo L.,
Macas J., et al. (2023) The giant diploid faba genome unlocks variation in a global protein crop Nature
615 (7953): 652–659.
DOI: 10.1038/s41586-023-05791-5 |
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Macas J.,
Avila Robledillo L., Kreplak J., Novák P.,
Koblížková A.,
Vrbová I., Burstin J.,
Neumann P. (2023) Assembly of the 81.6 Mb centromere of pea chromosome 6 elucidates the structure and evolution of metapolycentric chromosomes PLoS Genetics
19(2): e1010633.
DOI: 10.1371/journal.pgen.1010633 |
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Neumann P.,
Oliveira L.,
Jang T., Novák P.,
Koblížková A., Schubert V., Houben A.,
Macas J. (2023) Disruption of the standard kinetochore in holocentric Cuscuta species Proceedings of the National Academy of Sciences
120: e2300877120.
DOI: 10.1073/pnas.230087712 |
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Ellis N., Vaz Patto M., Rubiales D.,
Macas J., Novák P., Kumar S., Hao X., Edwards A., Sarkar A., Emmrich P. (2022) Grasspea In: Chapman, M.A. (eds) Underutilised Crop Genomes. Compendium of Plant Genomes. Springer, Cham.
217–228.
DOI: 10.1007/978-3-031-00848-1_12 |
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Hofstatter P.G., Thangavel G., Lux T.,
Neumann P.,
Vondrak T., Novák P., Zhang M., Costa L., Castellani M., Scott A., Toegelová H., Fuchs J., Mata-Sucre Y., Dias Y., Vanzela A., Huettel B., Almeida C.C.S., Šimková H., Souza G., Pedrosa-Harand A.,
Macas J., Mayer K., Houben A., Marques A. (2022) Repeat-based holocentromeres influence genome architecture and karyotype evolution Cell
185: 1-16.
DOI: 10.1016/j.cell.2022.06.045 |
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Schley R.J., Pellicer J., Ge X.-J., Barrett C., Bellot S., Guignard M.S., Novák P., Suda J., Fraser D., Baker W.J., Dodsworth S.,
Macas J., Leitch A., Leitch I. (2022) The ecology of palm genomes: repeat-associated genome size expansion is constrained by aridity New Phytologist
236(2): 433-446.
DOI: 10.1111/nph.18323 |
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Neumann P., Oliveira L., Čížková J.,
Jang T.,
Klemme S., Novák P., Stelmach K.,
Koblížková A., Doležel J.,
Macas J. (2021) Impact of parasitic lifestyle and different types of centromere organization on chromosome and genome evolution in the plant genus Cuscuta New Phytologist
229: 2365–2377.
DOI: 10.1111/nph.17003 |
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Vondrak T.,
Oliveira L., Novák P.,
Koblížková A.,
Neumann P.,
Macas J. (2021) Complex sequence organization of heterochromatin in the holocentric plant Cuscuta europaea elucidated by the computational analysis of nanopore reads Computational and Structural Biotechnology Journal
19: 2179-2189.
DOI: 0.1016/j.csbj.2021.04.011 |
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Ainouche A., Paris A., Giraud D., Keller J., Raimondeau P., Mahé P.,
Neumann P., Novák P.,
Macas J., Ainouche M., Salmon A., Martin G.E. (2020) The Repetitive Content in Lupin Genomes In: Singh K., Kamphuis L., Nelson M. (eds) The Lupin Genome. Compendium of Plant Genomes.
161-168.
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Avila Robledillo L.,
Neumann P.,
Koblížková A., Novák P.,
Vrbová I.,
Macas J. (2020) Extraordinary sequence diversity and promiscuity of centromeric satellites in the legume tribe Fabeae Molecular biology and evolution
37: 2341-2356.
DOI: 10.1093/molbev/msaa090 |
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Hoang P.T.N., Fiebig A., Novák P.,
Macas J., Cao H., Stepanenko A., Chen G., Borisjuk N., Scholz U., Schubert I. (2020) Chromosome-scale genome assembly for the duckweed /Spirodela intermedia/, integrating cytogenetic maps, PacBio and Oxford Nanopore libraries Scientific Reports
10: 19230.
DOI: 10.1038/s41598-020-75728-9 |
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McCann J.,
Macas J., Novák P., Stuessy T.F., Villasenor J.L., Weiss-Schneeweiss H. (2020) Differential Genome Size and Repetitive DNA Evolution in Diploid Species of Melampodium sect. Melampodium (Asteraceae) Frontiers in Plant Science
11: 362.
DOI: 10.3389/fpls.2020.00362 |
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Novák P., Guignard M.S.,
Neumann P., Kelly L., Mlinarec J.,
Koblížková A., Dodsworth S., Kovařík A., Pellicer J., Wang W.,
Macas J., Leicht I.J., Leicht A. (2020) Repeat-sequence turnover shifts fundamentally in species with large genomes Nature Plants
6: 1325–1329.
DOI: 10.1038/s41477-020-00785-x |
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Novák P.,
Neumann P.,
Macas J. (2020) Global analysis of repetitive DNA from unassembled sequence reads using RepeatExplorer2 Nature Protocols
15: 3745-3776.
DOI: 10.1038/s41596-020-0400-y |
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Vondrak T.,
Avila Robledillo L., Novák P.,
Koblížková A.,
Neumann P.,
Macas J. (2020) Characterization of repeat arrays in ultra‐long nanopore reads reveals frequent origin of satellite DNA from retrotransposon‐derived tandem repeats The Plant Journal
101: 484–500.
DOI: 10.1111/tpj.14546 |
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Finke A., Mandáková T., Nawaz K., Vu G., Novák P.,
Macas J., Lysak M.A., Pečinka A. (2019) Genome invasion by a hypomethylated satellite repeat in Australian crucifer Ballantinia antipoda The Plant Journal
99: 1066–1079.
DOI: doi.org/10.1111/tpj.14380 |
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Kapustová V., Tulpová Z., Toegelová H., Novák P.,
Macas J., Karafiátová M., Doležel J., Šimková H. (2019) The Dark Matter of Large Cereal Genomes: Long Tandem Repeats International journal of molecular sciences
20 (10): 2483.
DOI: 10.3390/ijms20102483 |
