He, Xiaoning, Dias Lopes, Chloé, Pereyra-Bistrain, Leonardo I., Huang, Ying, An, Jing, Chaouche, Rim Brik, Zalzalé, Hugo, Wang, Qingyi, Ma, Xing, Antunez-Sanchez, Javier
et al.
(2024)
Genetic–epigenetic interplay in the determination of plant 3D genome organization. Nucleic Acids Research, 52 (17). pp. 10220-10234. doi:
10.1093/nar/gkae690 ISSN 0305-1048.
Bashour, Habib, Smorodina, Eva, Pariset, Matteo, Zhong, Jahn, Akbar, Rahmad, Chernigovskaya, Maria, Lê Quý, Khang, Snapkow, Igor, Rawat, Puneet, Krawczyk, Konrad, Sandve, Geir Kjetil, Gutierrez-Marcos, José F., Gutierrez, Daniel Nakhaee-Zadeh, Andersen, Jan Terje and Greiff, Victor (2024) Biophysical cartography of the native and human-engineered antibody landscapes quantifies the plasticity of antibody developability. Communications Biology, 7 (1). 922. doi:10.1038/s42003-024-06561-3 ISSN 2399-3642.
An, Jing, Brik Chaouche, Rim, Pereyra-Bistraín, Leonardo I., Zalzalé, Hugo, Wang, Qingyi, Huang, Ying, He, Xiaoning, Dias Lopes, Chloé, Antunez-Sanchez, Javier, Bergounioux, Catherine
et al.
(2024)
An atlas of the tomato epigenome reveals that KRYPTONITE shapes TAD-like boundaries through the control of H3K9ac distribution. Proceedings of the National Academy of Sciences of the United States of America, 121 (28). e2400737121. doi:
10.1073/pnas.2400737121 ISSN 0027-8424.
Mammarella, María Florencia, Lucero, Leandro, Hussain, Nosheen, Muñoz‐Lopez, Aitor, Huang, Ying, Ferrero, Lucia, Fernandez‐Milmanda, Guadalupe L., Manavella, Pablo, Benhamed, Moussa, Crespi, Martin, Ballare, Carlos L., Gutiérrez Marcos, José, Cubas, Pilar and Ariel, Federico (2023) Long noncoding RNA‐mediated epigenetic regulation of auxin‐related genes controls shade avoidance syndrome in Arabidopsis. The EMBO Journal, 42 (24). e113941. doi:10.15252/embj.2023113941 ISSN 0261-4189.
Sundari, Dika, Perdana, Naufal Ghozi Aditya, Mose, Windi, Gutierrez-Marcos, José F. and Semiarti, Endang (2023) Detection of AtRKD4 gene and induction of somatic embryo in transformant of Phalaenopsis amabilis carrying 35S::GR::AtRKD4. Journal of Tropical Biodiversity and Biotechnology, 8 (2). 71211. doi:10.22146/jtbb.71211 ISSN 2540-9573.
Huang, Ying, An, Jing, Sircar, Sanchari, Bergis, Clara, Lopes, Chloé Dias, He, Xiaoning, Da Costa, Barbara, Tan, Feng-Quan, Bazin, Jeremie, Antunez-Sanchez, Javier
et al.
(2023)
HSFA1a modulates plant heat stress responses and alters the 3D chromatin organization of enhancer-promoter interactions. Nature Communications, 14 (1). 469. doi:
10.1038/s41467-023-36227-3 ISSN 2041-1723.
Purwestri, Yekti Asih, Lee, Yang-Seok, Meehan, Cathal, Mose, Windi, Susanto, Febri Adi, Wijayanti, Putri, Fauzia, Anisa Nazera, Nuringtyas, Tri Rini, Hussain, Nosheen, Putra, Hadi Lanang and Gutierrez-Marcos, José F. (2023) RWP-RK Domain 3 (OsRKD3) induces somatic embryogenesis in black rice. BMC Plant Biology, 23 (1). 202. doi:10.1186/s12870-023-04220-z ISSN 1471-2229.
Wibowo, Anjar Tri, Antunez-Sanchez, Javier, Dawson, Alexander, Price, Jonathan Lewis, Meehan, Cathal, Wrightsman, Travis, Collenberg, Maximillian, Bezrukov, Ilja, Becker, Claude, Benhamed, Moussa, Weigel, Detlef and Gutierrez-Marcos, José F. (2022) Predictable and stable epimutations induced during clonal plant propagation with embryonic transcription factor. PLOS Genetics, 18 (11). e1010479. doi:10.1371/journal.pgen.1010479 ISSN 1553-7404.
Roulé, Thomas, Christ, Aurelie, Hussain, Nosheen, Huang, Ying, Hartmann, Caroline, Benhamed, Moussa, Gutierrez-Marcos, José F., Ariel, Federico, Crespi, Martin and Blein, Thomas (2022) The lncRNA MARS modulates the epigenetic reprogramming of the marneral cluster in response to ABA. Molecular Plant, 15 (5). pp. 840-856. doi:10.1016/j.molp.2022.02.007 ISSN 1674-2052.
Akbar, Rahmad, Bashour, Habib, Rawat, Puneet, Robert, Philippe A., Smorodina, Eva, Cotet, Tudor-Stefan, Flem-Karlsen, Karine, Frank, Robert, Mehta, Brij Bhushan, Vu, Mai Ha, Zengin, Talip, Gutierrez-Marcos, José F., Lund-Johansen, Fridtjof, Andersen, Jan Terje and Greiff, Victor (2022) Progress and challenges for the machine learning-based design of fit-for-purpose monoclonal antibodies. mAbs, 14 (1). 2008790. doi:10.1080/19420862.2021.2008790 ISSN 1942-0870.
Wirajagat, Gde Cahyadi, Febryanti, Ni Luh Putu Kayika, Puspitasari, Fitriana, Sundari, Dika, Gutierrez-Marcos, José F. and Semiarti, Endang (2021) Detection of AtRKD4 protein during induction of somatic embryogenesis in Dendrobium lineale Rolfe transgenic orchids carrying 35S::GR::AtRKD4. Journal of Tropical Biodiversity and Biotechnology, 6 (2). 61783. doi:10.22146/jtbb.61783 ISSN 2540-9573.
Perdana, Naufal Ghozi Aditya, Mose, Windi, Lawrie, Muhammad Dylan, Gutierrez-Marcos, José and Semiarti, Endang (2021) Stable transformant of Phalaenopsis amabilis somatic embryo carrying 35S::AtRKD4 develops into normal phenotype of transgenic plant. Journal of Tropical Biodiversity and Biotechnology, 6 (2). 59210. doi:10.22146/jtbb.59210 ISSN 2540-9573.
Durr, Julius, Reyt, Guilhem, Spaepen, Stijn, Hilton, Sally, Meehan, Cathal, Qi, Wu, Kamiya, Takehiro, Flis, Paulina, Dickinson, Hugh G., Feher, Attila, Shivshankar, Umashankar, Pavagadhi, Shruti, Swarup, Sanjay, Salter, David, Bending, G. D. and Gutierrez-Marcos, José F. (2021) A novel signaling pathway required for Arabidopsis endodermal root organization shapes the Rhizosphere microbiome. Plant and Cell Physiology, 62 (2). pp. 248-261. doi:10.1093/pcp/pcaa170 ISSN 1471-9053.
Antunez-Sanchez, Javier, Naish, Matthew, Ramirez-Prado, Juan Sebastian, Ohno, Sho, Huang, Ying, Dawson, Alexander, Opassathian, Korawit, Manza-Mianza, Deborah, Ariel, Federico, Raynaud, Cécile, Wibowo, Anjar, Daron, Josquin, Ueda, Minako, Latrasse, David , Slotkin, R. Keith, Weigel, Detlef, Benhamed, Moussa and Gutierrez-Marcos, José F. (2020) A new role for histone demethylases in the maintenance of plant genome integrity. eLife, 9 . e58533. doi:10.7554/elife.58533 ISSN 2050-084X.
Frerichs, Anneke, Engelhorn, Julia, Altmüller, Janine, Gutierrez-Marcos, José F. and Werr, Wolfgang (2019) Specific chromatin changes mark lateral organ founder cells in the Arabidopsis inflorescence meristem. Journal of Experimental Botany, 70 (15). pp. 3867-3879. doi:10.1093/jxb/erz181 ISSN 0022-0957.
Mitchell, Daniel A., Fayter, Alice, Deller, Robert C., Hasan, Muhammad, Gutierrez-Marcos, José F. and Gibson, Matthew I. (2019) Data for Ice-recrystallization inhibiting polymers protect proteins against freeze-stress and enable glycerol-free cryostorage. [Dataset]
Mitchell, Daniel A., Fayter, Alice, Deller, Robert C., Hasan, Muhammad, Gutierrez-Marcos, José F. and Gibson, Matthew I. (2019) Ice-recrystallization inhibiting polymers protect proteins against freeze-stress and enable glycerol-free cryostorage. Materials Horizons, 6 (2). pp. 354-368. doi:10.1039/c8mh00727f ISSN 2051-6355.
Fernie, Alisdair R. and Gutierrez-Marcos, José F. (2019) From genome to phenome: genome-wide association studies and other approaches that bridge the genotype to phenotype gap. The Plant Journal, 97 (1). pp. 5-7. doi:10.1111/tpj.14219 ISSN 0960-7412.
Veras, Dimitri, Armstrong, David J., Blake, James A., Gutierrez-Marcos, José F., Jackson, Alan P. and Schäfer, Hendrik (2018) Dynamical and biological panspermia constraints within multi-planet exosystems. Astrobiology, 18 (9). pp. 1106-1122. doi:10.1089/ast.2017.1786 ISSN 1531-1074.
Wibowo, Anjar, Becker, Claude, Durr, Julius, Price, Jonathan, Spaepen, Stijn, Hilton, Sally, Putra, Hadi, Papareddy, Ranjith, Saintain, Quentin, Harvey, Sarah, Bending, G. D., Schulze-Lefert, Paul, Weigel, Detlef and Gutierrez-Marcos, José F. (2018) Partial maintenance of organ-specific epigenetic marks during plant asexual reproduction leads to heritable phenotypic variation. Proceedings of the National Academy of Sciences of the United States of America, 115 (39). E9145-E9152. doi:10.1073/pnas.1805371115 ISSN 0027-8424.
Durr, Julius, Papareddy, Ranjith, Nakajima, Keiji and Gutierrez-Marcos, José F. (2018) Highly efficient heritable targeted deletions of gene clusters and non-coding regulatory regions in Arabidopsis using CRISPR/Cas9. Scientific Reports, 8 (1). 4443. doi:10.1038/s41598-018-22667-1 ISSN 2045-2322.
Price, Jonathan, Harrison, M. C., Hammond, R. L., Adams, S. (Stefan), Gutierrez-Marcos, José F. and Mallon, E. B. (2018) Alternative splicing associated with phenotypic plasticity in the bumble bee Bombus terrestris. Molecular Ecology, 27 (4). pp. 1036-1043. doi:10.1111/mec.14495 ISSN 0962-1083.
Wibowo, Anjar, Becker, Claude, Marconi, Gianpiero, Durr, Julius, Price, Jonathan, Hagmann, Jorg, Papareddy, Ranjith, Putra, Hadi, Kageyama, Jorge, Becker, Jorg, Weigel, Detlef and Gutierrez-Marcos, José F. (2016) Hyperosmotic stress memory in Arabidopsis is mediated by distinct epigenetically labile sites in the genome and is restricted in the male germline by DNA glycosylase activity. eLife, 5 . e13546. doi:10.7554/eLife.13546 ISSN 2050-084X.
Costa, L. M., Marshall, E., Tesfaye, M. , Silverstein, K. A. T. , Mori, M. , Umetsu, Y. , Otterbach, S, Papareddy, Ranjith, Dickinson, H. G. , Boutiller, K. , VandenBosch, K. A., Ohki, S. and Gutierrez-Marcos, José F. (2014) Central cell-derived peptides regulate early embryo patterning in flowering plants. Science, 344 (6180). pp. 168-172. doi:10.1126/science.1243005 ISSN 0036-8075.
Bräutigam, Katharina, Vining, Kelly J., Lafon-Placette, Clément, Fossdal, Carl G., Mirouze, Marie, Jose, Gutiérrez-Marcos, Fluch, Silvia, Fraga, Mario Fernández, Guevara, M. Ángeles, Abarca, Dolores, Johnsen, Øystein, Maury, Stéphane, Strauss, Steven H., Campbell, Malcolm M., Rohde, Antje, Díaz-Sala, Carmen and Cervera, María-Teresa (2013) Epigenetic regulation of adaptive responses of forest tree species to the environment. Ecology and Evolution, Volume 3 (Number 2). pp. 399-415. doi:10.1002/ece3.461 ISSN 2045-7758.
Tesfaye, Mesfin, Silverstein, Kevin AT., Nallu, Sumitha, Wang, Lin, Botanga, Christopher J., Gomez, S. Karen, Costa, Liliana M., Harrison, Maria J., Samac, Deborah A., Glazebrook, Jane, Katagiri, Fumiaki, Gutierrez-Marcos, José F. and VandenBosch, Kathryn A. (2013) Spatio-temporal expression patterns of Arabidopsis thaliana and Medicago truncatula defensin-like genes. PLoS One, Volume 8 (Number 3). Article no. e58992. doi:10.1371/journal.pone.0058992 ISSN 1932-6203.
Becraft, Philip W. and Gutierrez-Marcos, José F. (2012) Endosperm development : dynamic processes and cellular innovations underlying sibling altruism. Wiley Interdisciplinary Reviews: Developmental Biology, Volume 1 (Number 4). pp. 579-593. doi:10.1002/wdev.31 ISSN 1759-7684.
Dickinson, Hugh, Costa, Liliana and Gutierrez-Marcos, José F. (2012) Epigenetic neofunctionalisation and regulatory gene evolution in grasses. Trends in Plant Science, Vol.17 (No.7). pp. 389-394. doi:10.1016/j.tplants.2012.04.002 ISSN 1360-1385.
Costa, Liliana M., Yuan, Jing, Rouster, Jacques, Paul, Wyatt, Dickinson, Hugh and Gutierrez-Marcos, José F. (2012) Maternal control of nutrient allocation in plant seeds by genomic imprinting. Current Biology, Vol.22 (No.2). pp. 160-165. doi:10.1016/j.cub.2011.11.059 ISSN 0960-9822.
Gutierrez-Marcos, José F. and Dickinson, H. G. (2012) Epigenetic reprogramming in plant reproductive lineages. Plant and Cell Physiology, Volume 53 (Number 5). pp. 817-823. doi:10.1093/pcp/pcs052 ISSN 0032-0781.
Gutierrez-Marcos, José F., Constância, M. and Burton, G. J. (2012) Maternal to offspring resource allocation in plants and mammals. Placenta, Volume 33 . e3-e10. doi:10.1016/j.placenta.2012.08.006 ISSN 0143-4004.
Marshall, E., Costa, L. M. and Gutierrez-Marcos, José F. (2011) Cysteine-Rich Peptides (CRPs) mediate diverse aspects of cell-cell communication in plant reproduction and development. Journal of Experimental Botany, Vol.62 (No.5). pp. 1677-1686. doi:10.1093/jxb/err002 ISSN 0022-0957.
Jahnke, Stephanie, Sarholz, Barbara, Thiemann, Alexander, Kuhr, Vera, Gutierrez-Marcos, José F., Geiger, Hartwig H., Piepho, Hans-Peter and Scholten, Stefan (2010) Heterosis in early seed development: a comparative study of F1 embryo and endosperm tissues 6 days after fertilization. Theoretical and Applied Genetics, Vol.120 (No.2). pp. 389-400. doi:10.1007/s00122-009-1207-y ISSN 0040-5752.
Gutierrez-Marcos, José F. (2009) Imprinting in plants. In: 20th International Congress on Sexual Plant Reproduction, Brasilia, Brazil, August 04-08, 2008. Published in: Chinese Science Bulletin, Vol.54 (No.14). pp. 2383-2389. doi:10.1007/s11434-009-0418-6 ISSN 1001-6538.
Springer, Nathan M. and Gutierrez-Marcos, José F. (2009) Imprinting in Maize. In: Bennetzen, J.L. and Hake, S., (eds.) Handbook of Maize: Genetics and Genomics. New York: Springer, pp. 429-440. ISBN 978-0-387-77862-4
Costa, Liliana M. and Gutierrez-Marcos, José F. (2008) Retinoblastoma makes its mark on imprinting in plants. Plos Biology, Vol.6 (No.8). pp. 1631-1633. ISSN 1544-9173 doi:10.1371/journal.pbio.0060212
Pennington, P. D., Costa, L. M., Gutierrez-Marcos, José F., Greenland, A. J. and Dickinson, H. G. (2008) When Genomes Collide: Aberrant Seed Development Following Maize Interploidy Crosses. Annals of Botany, Vol.101 (No.6). pp. 833-843. doi:10.1093/aob/mcn017 ISSN 0305-7364.
