DIversité - Adaptation - DEveloppement des plantes


Journal papers

Medina-Sauza, R. M., Solís-García, I. A., Blouin, M., Villain, L., Guevara, R., Barois, I., & Reverchon, F. (2023). Microniches harbor distinct bacterial communities at the soil-plant-earthworm interface. European Journal of Soil Biology118, 103531. https://doi.org/10.1016/j.ejsobi.2023.103531

Vi, T., Vigouroux, Y., Cubry, P., Marraccini, P., Phan, V. H., Khong, N. G., & Poncet, V. (2023). Genome-wide admixture mapping identifies wild ancestry-of-origin segments in cultivated Robusta coffee. Genome Biology and Evolution15(5), 12 p. https://doi.org/10.1093/gbe/evad065

Sarzynski, T., Bertrand, B., Rigal, C., Marraccini, P., Vaast, P., Georget, F., Campa, C., Abdallah, C., Nguyen, T. Q. C., Nguyen, H. P., Nguyen, H. T. T., Ngoc, Q. L., Ngan, G. K., Viet, T. V., Navarini, L., Lonzarich, V., Bossolasco, L., & Etienne, H. (2023). Genetic-environment interactions and climatic variables effect on bean physical characteristics and chemical composition of #Coffea arabica#. Journal of the Science of Food and Agriculture103, 4692‑4703. https://doi.org/10.1002/jsfa.12544

Meter, A., Penot, E., Vaast, P., Etienne, H., Ponçon, E., & Bertrand, B. (2023). Local value-chains dedicated to sustainable production (coffee agroforestry business-driven clusters or CaFC) : A new organizational model to foster social and environmental innovations through farm renovation [version 2; peer review : 2 approved]. Open Research Europe2, 38 p. https://doi.org/10.12688/openreseurope.14570.2

Koutouleas, A., Blunt, C., Bregar, A., Hansen, J. K., Ræbild, A., Etienne, H., & Georget, F. (2023). Effects of interspecific grafting of #Coffea arabica# and elevation on coffee growth, yield, and quality attributes in Costa Rica. Scientia Horticulturae, 320, 16 p. https://doi.org/10.1016/j.scienta.2023.112162

Kellenberger, R. T., Ponraj, U., Delahaie, B., Fattorini, R., Balk, J., Lopez-Gomollon, S., Müller, K. H., Ellis, A. G., & Glover, B. J. (2023). Multiple gene co-options underlie the rapid evolution of sexually deceptive flowers in #Gorteria diffusa#. Current Biology33(8), 1502‑1512. https://doi.org/10.1016/j.cub.2023.03.003

Kahsay, G. A., Turreira-Garcia, N., Ortiz-Gonzalo, D., Georget, F., & Skovmand Bosselmann, A. (2023). New coffee varieties as a climate adaptation strategy : Empirical evidence from Costa Rica. World Development Sustainability2, 10 p. https://doi.org/10.1016/j.wds.2023.100046

Bertrand, B., Davis, A. P., Maraval, I., Forestier, N., & Mieulet, D. (2023). Potential beverage quality of three wild coffee species (#Coffea brevipes#, C. #congensis# and #C. stenophylla#) and consideration of their agronomic use. Journal of the Science of Food and Agriculture103(7), 3602‑3612. https://doi.org/10.1002/jsfa.12347

Awada, R., Lepelley, M., Breton, D., Charpagne, A., Campa, C., Berry, V., Georget, F., Breitler, J.-C.Leran, S., Djerrab, D., Martinez-Seidel, F., Descombes, P., Crouzillat, D., Bertrand, B., & Etienne, H. (2023). Global transcriptome profiling reveals differential regulatory, metabolic and hormonal networks during somatic embryogenesis in #Coffea arabica#. BMC Genomics24, 19 p. https://doi.org/10.1186/s12864-022-09098-z



Journal papers

Poignavent, V., Hoh, F., Terral, G., Yang, Y., Gillet, F.-X., Kim, J.-H., Allemand, F., Lacombe, E., Brugidou, C., Cianferani, S., Déméné, H., & Vignols, F. (2022). A Flexible and Original Architecture of Two Unrelated Zinc Fingers Underlies the Role of the Multitask P1 in RYMV Spread. Journal of Molecular Biology, 434(16), 167715. https://doi.org/10.1016/j.jmb.2022.167715 

Vernet, A., Meynard, D., Lian, Q., Mieulet, D., Gibert, O., Bissah, M. N., Rivallan, R., Autran, D., Leblanc, O., Meunier, A. C., Frouin, J., Taillebois, J. E., Shankle, K., Khanday, I., Mercier, R., Sundaresan, V., & Guiderdoni, E. (2022). High-frequency synthetic apomixis in hybrid rice. Nature Communications13, 13 p. https://doi.org/10.1038/s41467-022-35679-3

Oliveira de Aquino, S., Kiwuka, C., Tournebize, R., Gain, C., Marraccini, P., Mariac, C., Bethume, K., Couderc, M., Cubry, P., Andrade, A. C., Lepelley, M., Darracq, O., Crouzillat, D., Anten, N. P. R., Musoli, P., Vigouroux, Y., De Kochko, A., Manel, S., François, O., & Poncet, V. (2022). Adaptive potential of #Coffea canephora# from Uganda in response to climate change. Molecular Ecology31(6), 1800‑1819. https://doi.org/10.1111/mec.16360

Mbebi, A. J., Breitler, J.-C., Bordeaux, M., Sulpice, R., McHale, M., Hao Tong, Toniutti, L., Alonso Castillo, J., Bertrand, B., & Nikoloski, Z. (2022). A comparative analysis of genomic and phenomic predictions of growth-related traits in three-way coffee hybrids. G3 - Genes Genomes Genetics12(9), 14 p. https://doi.org/10.1093/g3journal/jkac170

Koutouleas, A., Sarzynski, T., Bordeaux, M., Skovmand Bosselmann, A., Campa, C., Etienne, H., Turreira-Garcia, N., Rigal, C., Vaast, P., Cochicho Ramalho, J., Marraccini, P., & Raebild, A. (2022). Shaded-coffee : A nature-based strategy for coffee production under climate change ? A review. Frontiers in Sustainable Food Systems6, 21 p. https://doi.org/10.3389/fsufs.2022.877476

Gonin, M., Jeong, K., Coudert, Y., Lavarenne, J., Hoang, G. T., Bes, M., To, H. T. M., Thiaw, M.-R. N., Do, T. V., Moukouanga, D., Guyomarc’h, S., Bellande, K., Brossier, J.-R., Parizot, B., Nguyen, H. T., Beeckman, T., Bergougnoux, V., Rouster, J., Sallaud, C., … Gantet, P. (2022). CROWN ROOTLESS1 binds DNA with a relaxed specificity and activates #OsROP# and #OsbHLH044# genes involved in crown root formation in rice. Plant Journal111(2), 546‑566. https://doi.org/10.1111/tpj.15838

Gnapi, D. E., N’Da Pokou, D., Legnaté, H., Dapeng, Z., Montagnon, C., Bertrand, B., & N’Guetta, A. S.-P. (2022). Is the genetic integrity of wild #Coffea canephora# from Ivory Coast threatened by hybridization with introduced coffee trees from Central Africa? Euphytica, 218, 13 p. https://doi.org/10.1007/s10681-022-03004-0

Duong, B., Marraccini, P., Etienne, H., Villain, L., Hoang, T. G., Khong, N. G., Lebrun, M., & Duponnois, R. (2022). Potential of the coffee endophytic #Bacillus cereus sensu lato# strain CCBLR15 to control the plant-parasitic nematode #Radopholus duriophilus#. Biocontrol Science and Technology32(8), 971‑988. https://doi.org/10.1080/09583157.2022.2070600

de Lourdes Tapia y Figueroa, M., Beraún Tapia, J. F., Hajari, E., Escalona, M., Etienne, H., & Lorenzo, J. C. (2022). Agronomic performances of temporary immersion bioreactor-derived potato microtubers in a Peruvian low input cropping agriculture system. African Journal of Biotechnology21(3), 125‑132. https://doi.org/10.5897/AJB2021.17430

Casarin, T., Chagas Freitas, N., Terassi Pinto, R., Breitler, J.-C., Zebral Rodrigues, L. A., Marraccini, P., Etienne, H., Cardamone Diniz, L. E., Carvalho Andrade, A., & Vilela Paiva, L. (2022). Multiplex CRISPR/Cas9?mediated knockout of the #phytoene desaturase# gene in #Coffea canephora#. Scientific Reports12, 10 p. https://doi.org/10.1038/s41598-022-21566-w

Breitler, J.-C.Etienne, H., Leran, S., Marie, L., & Bertrand, B. (2022). Description of an Arabica coffee ideotype for agroforestry cropping systems : A guideline for breeding more resilient new varieties. Plants11(16), 24 p. https://doi.org/10.3390/plants11162133

Ayadi, M., Chiab, N., Charfeddine, S., Abdelhedi, R., Dabous, A., Talbi, O., Mieulet, D., Guiderdoni, E., Aifa, S., Gargouri-Bouzid, R., & Hanana, M. (2022). Improved growth and tuber quality of transgenic potato plants overexpressing either NHX antiporter, CLC chloride channel, or both. Plant Physiology and Biochemistry, 189, 45‑58. https://doi.org/10.1016/j.plaphy.2022.07.030

 Book chapters

Vi, T., Marraccini, P., De Kochko, A., Cubry, P., Khong, N. G., & Poncet, V. (2022). Sequencing-based molecular markers for wild and cultivated coffee diversity exploration and crop improvement. In G. P. (ed. ) Ramakrishna Akula (ed.) Jeszka-Skowron Magdalena (ed. ). (eds. ). (Éd.), Coffee science : Biotechnological advances, economics, and health benefits (Agritrop : 602735; p. 213‑220). CRC Press; https://doi.org/10.1201/9781003043133-20

Bertrand, B., & Rapidel, B. (2022). Conception de systèmes agroforestiers innovants à base de caféier. In C. J.-L. (ed. ) Atta-Krah Kwesi (ed.) Gascuel Chantal (ed. ), Gitz Vincent (ed. ), Hainzelin Etienne (ed. ), Quintero Marcela (ed. ), Sinclair Fergus L. (ed. ). (Éd.), & CIRAD-BIOS-UMR DIADE - FRA; CIRAD-PERSYST-UMR ABSys - FRA (Trad.), Transformations agroécologiques pour des systèmes alimentaires durables. Panorama de la recherche France-CGIAR (Agritrop : 602632; 1‑26, p. 89‑90). Agropolis International; https://www.agropolis.fr/dossier-agropolis-agroecologie



Journal papers

Rimlinger, A., Avana, M.-L., Awono, A., Chakocha, A., Gakwavu, A., Lemoine, T., Marie, L., Mboujda, F., Vigouroux, Y., Johnson, V., Vinceti, B., Carrière, S. M., & Duminil, J. (2021). Trees and their seed networks : The social dynamics of urban fruit trees and implications for genetic diversity. PloS One16(3), 13 p. https://doi.org/10.1371/journal.pone.0243017

Medina-Sauza, R. M., Álvarez-Jiménez, M., Ortíz-Huerta, Y., Ruiz-Sayago, E., Blouin, M., Villain, L., Guevara, R., Sangabriel, W., Reverchon, F., & Barois, I. (2021). Bulk and rhizosphere soil properties under two #Coffea# species influenced by the earthworm #Pontoscolex corethrurus#. Rhizosphere21, 14 p. https://doi.org/10.1016/j.rhisph.2021.100458

Kiwuka, C., Goudsmit, E., Tournebize, R., Oliveira de Aquino, S., Douma, J. C., Bellanger, L., Crouzillat, D., Stoffelen, P., Sumirat, U., Legnaté, H., Marraccini, P., De Kochko, A., Carvalho Andrade, A., Wasswa Mulumba, J., Musoli, P., Anten, N. P. R., & Poncet, V. (2021). Genetic diversity of native and cultivated Ugandan Robusta coffee (#Coffea canephora# Pierre ex A. Froehner) : Climate influences, breeding potential and diversity conservation. PloS One16(2), 19 p.  https://doi.org/10.1371/journal.pone.0245965

Gamboa-Becerra, R., Lopez-Lima, D., Villain, L., Breitler, J.-C., Carrion, G., & Desgarennes, D. (2021). Molecular and environmental triggering factors of pathogenicity of #Fusarium oxysporum# and #F. solani# isolates involved in the coffee corky-root disease. Journal of Fungi7(4), 23 p.  https://doi.org/10.3390/jof7040253

Duong, B., Nguyen, X. H., Phan, V. H., Colella, S., Trinh, Q. P., Hoang, T. G., Nguyen, T. T., Marraccini, P., Lebrun, M., & Duponnois, R. (2021). Identification and characterization of Vietnamese coffee bacterial endophytes displaying #in vitro# antifungal and nematicidal activities. Microbiological Research242, 13 p.  https://doi.org/10.1016/j.micres.2020.126613

Djerrab, D., Bertrand, B., Breitler, J.-C.Leran, S., Dechamp, E., Campa, C., Barrachina, C., Conejero, G., Etienne, H., & Sulpice, R. (2021). Photoperiod-dependent transcriptional modifications in key metabolic pathways in #Coffea arabica#. Tree Physiology41(2), 302‑316.  https://doi.org/10.1093/treephys/tpaa130

Davis, A. P., Mieulet, D., Moat, J., Sarmu, D., & Haggar, J. (2021). Arabica-like flavour in a heat-tolerant wild coffee species. Nature Plants7, 413‑418.  https://doi.org/10.1038/s41477-021-00891-4

Couttolenc-Brenis, E., Carrion, G., Villain, L., Ortega-Escalona, F., Mata-Rosas, M., & Méndez-Bravo, A. (2021). Defense response to #Hemileia vastatrix# in susceptible grafts onto resistant rootstock of #Coffea arabica# L. Agronomy (Basel), 11, 17 p.  https://doi.org/10.3390/agronomy11081621

Bertrand, B., Villegas Hincapie, A. M., Marie, L., & Breitler, J.-C. (2021). Breeding for the main agricultural farming of Arabica coffee. Frontiers in Sustainable Food Systems5, 15 p.  https://doi.org/10.3389/fsufs.2021.709901



Journal papers

Awada R , Verdier D, Froger S, Brulard E, de Faria Maraschin S, Etienne H  and Breton D (2020) An innovative automated active compound screening system allows high-throughput optimization of somatic embryogenesis in Coffea arabicaSci Rep 10:810. doi: 10.1038/s41598-020-57800-6    https://www.nature.com/articles/s41598-020-57800-6

Breitler JC , Djerrab D, Leran S, Toniutti L, Guittin C, Severac D, Pratlong M, Dereeper A, Etienne HBertrand B.  (2020). Full moonlight-induced circadian clock entrainment in Coffea arabicaBMC Plant Biol. doi: 10.1186/s12870-020-2238-4.

Couttolenc-Brenis E, Carrion GL, Villain L , Ortega-Escalona F, Ramirez-Martinez D, Mata-Rosas M, Mendez-Bravo A. (2020). Prehaustorial local resistance to coffee leaf rust in a Mexican cultivar involves expression of salicylic acid-responsive genes. Peerj, 8. doi.org/10.7717/peerj.

Duangsodsri, T. , Villain, L .Vestalys, I.R., Michalet, S., Abdallah, C. , Breitler, J.-C ., Bordeaux, M., Villegas, A.M., Raherimandimby, M., Legendre, L., Etienne, H. , Bertrand, B. , Campa, C. 2020. 5-CQA and mangiferin, two leaf biomarkers of adaptation to full sun or shade conditions in Coffea arabica L.. Metabolites , 10 , 383. https://doi.org/10.3390/metabo10100383

Duong B., Marraccini P. , Maeght J-L., Vaast P., Lebrun M., Duponnois R. (2020). Coffee microbiota and its potential use in sustainable crop management. A review. Front. Sustain. Food Syst. https://doi.org/10.3389/fsufs.2020.607935

Duong B., Nguyen X.H., Phan V.H., Colella S., Trinh Q.P., Hoang T.G., Nguyen T.T., Marraccini P. , Lebrun M., Duponnois R. (2021). Identification and characterization of Vietnamese coffee bacterial endophytes displaying in vitro antifungal and nematicidal activities. Microbiol. Res. 242: 126613. https://doi.org/10.1016/j.micres.2020.126613

Kitzberger C.S.G., Pot D., Marraccini P. , Pereira L.F.P, Scholz M.B.S. (2020). Flavor precursors and sensory attributes of coffee submitted to different post-harvest processing. AIMS Agric. Food, 5(4): 700-714. https://doi.org/10.3934/agrfood.2020.4.700

Lamelas A, Desgarennes D, Lopez-Lima D, Villain L , Alonso-Sanchez A, Artacho A, Latorre A, Moya A, Carrion G. (2020). The Bacterial Microbiome of Meloidogyne-Based Disease Complex in Coffee and Tomato. Front Plant Sci. DOI: 10.3389/fpls.2020.00136

Léran S. , Noguero M., Corratgé-Faillie C., Boursiac Y., Brachet C., Lacombe B. (2020). Functional characterization of the Arabidopsis abscisic acid transporters NPF4.5 and NPF4.6 in Xenopus Oocytes. Frontiers in Plant Science , 11: 6p.  https://doi.org/10.3389/fpls.2020.00144

Marie, L., Abdallah, C.Campa, C. , Courtel, P., Bordeaux, M., Navarini, L., Lonzarich, V., Skovmand Bosselmann, A., Turreira-Garcia, N., Alpizar, E., Georget, F., Breitler, J-C.Etienne, H.Bertrand, B. (2020). G × E interactions on yield and quality in Coffea arabica: new F1 hybrids outperform American cultivars. Euphytica 216, 78.  https://doi.org/10.1007/s10681-020-02608-8

Portaluri V, Thomas F, Guyader S, Jamin E, Bertrand B , Remaud GS, Schievano E, Mammi S, Guercia E, Navarini L. (2020). Limited genotypic and geographic variability of 16-O-methylated diterpene content in Coffea arabica green beans. Food Chemistry. 239.  DOI: 10.1016/j.foodchem.2020.12712

Pruvot-Woehl, S., Krishnan, S., Solano, W., Schilling, T., Toniutti, L.Bertrand, B. , Montagnon, C. (2020). Authentication of Coffea arabica varieties through DNA fingerprinting and its significance for the coffee sector. Journal of AOAC INTERNATIONAL qsz003 https://doi.org/10.1093/jaocint/qsz003

Roy L, Taudiere A, Papaix J, Blatrix R, Chiron G, Zriki G, Bonato O , Barnagaud JY. (2020). Evaluating the link between predation and pest control services in the mite world. Ecology and Evolution. doi.org/10.1002/ece3.6655

Scalabrin S, Toniutti L, Di Gaspero G, Scaglione D, Magris G, Vidotto M, Pinosio S, Cattonaro F, Magni F, Jurman I, Cerutti M, Suggi Liverani F, Navarini L, Del Terra L, Pellegrino G, Ruosi MR, Vitulo N, Valle G, Pallavicini A, Graziosi G, Klein PE, Bentley N, Murray S, Solano W, Al Hakimi A, Schilling T, Montagnon C, Morgante M, Bertrand B. (2020). A single polyploidization event at the origin of the tetraploid genome of Coffea arabica is responsible for the extremely low genetic variation in wild and cultivated germplasm. Sci. Rep. DOI: 10.1038/s41598-020-61216-7

Book chapters

Carrion, G., Williams, T., Mercado, G. Villain, L. 2020. Implemento de un manejo integrado de plagas y enfermedades en cafetales de la zona centro del Estado de Veracruz. In: López Morgado, R., Díaz Padilla, G. Diagnóstico, Productividad y Ambiente en Cafetales: estudios regionales y de caso. Medellín, Ver., México, INIFAP, p. 333-360.

Marraccini P. (2020) Gene Expression in Coffee. In: Cánovas F.M., Lüttge U., Risueño MC., Pretzsch H. (eds) Progress in Botany Vol. 82. Progress in Botany, vol 82. Springer, Cham. pp. 43-111. https://doi.org/10.1007/124_2020_42



Journal papers

Awada R , Campa C , Gibault E, Dechamp E , Georget F , Lepelley M, Abdallah C , Erban A, Martinez-Seidel F, Kopka J, Leran S , Conojero G, Verdeil JL, Crouzillat D, Breton D, Bertrand B , Etienne H . (2019). Unravelling the Metabolic and Hormonal Machinery During Key Steps of Somatic Embryogenesis: A Case Study in Coffee. Int J Mol Sci. doi:10.3390/ijms20194665

Duarte KE, de Souza WR, Santiago TR, Sampaio AP, Ribeiro AP, Cotta MG, da Cunha BADB, Marraccini PRR , Kobayashi AK, Molinari HBC. (2019) Identification and characterization of core abscisic acid (ABA) signaling components and their gene expression profile in response to abiotic stresses in Setaria viridis. Sci Rep. doi: 10.1038/s41598-019-40623-5.

Ferreira Torres L, Reichel T, de Aquino S, Duarte K, Alves G, Silva A, Cotta M, Costa T, Etienne H , Andrade A, Marraccini P (2019) Genome-wide analysis and expression of DREB (-like) genes in Coffea canephora and C. arabica subjected to different abiotic stresses. Tropical Plant Biology, 19 p. https://doi.org/10.1007/s12042-019-09223-5

Gallardo LH, Suárez-Villasmil L, Etienne HBertrand B , Barry-Etienne D, Menéndez-Yuffá A (2018) Similarity between nursery growth of coffee plants (Coffea arabica L.) obtained by somatic embryogenesis and by seeds. Rev. Biodivers. Neotrop. ISSN 2027-8918 e-ISSN 2256-5426 Abril-Junio 2018; 8 (3): 156- DOI: http://dx.doi.org/10.18636/bioneotropical.v8i2.356

Georget F , Marie L , Alpizar E, Courtel P, Bordeaux M, Hidalgo JM, Marraccini P , Breitler J-C , Déchamp E , Ponçon C, Etienne H , Bertrand B (2019) Starmaya: The First Arabica F1 Coffee Hybrid Produced Using Genetic Male Sterility. Front. Plant Sci. 10:1344. doi: 10.3389/fpls.2019.01344 https://www.frontiersin.org/articles/10.3389/fpls.2019.01344/full

López-Lima D., Carrión G., Sánchez-Nava P., Desgarennes D., Villain L. 2019. Fungal diversity and Fusarium oxysporum pathogenicity associated with coffee corky-root disease in Mexico. Rev. FCA UNCUYOOn line (ISSN 1853-8665)

Lorenzo ME, Bao L, Mendez L, Grille G, Bonato O , Basso C. 2019. Effect of two oviposition feeding substrates on Orius insidiosus and Orius tristicolor. Flo. Entomol. 102: 395-402.

Medina-Sauza R.M., Álvarez-Jiménez M., Delhal Al., Reverchon F., Blouin M., Guerrero-Analco J.A., Cerdán C.R., Guevara R., Villain L. , Barois I. 2019. Earthworms Building Up Soil Microbiota, a Review. Frontiers in Environmental Science 7. doi:10.3389/fenvs.2019.00081.

Toniutti L, Breitler JC , Guittin C, Doulbeau S, Etienne H, Campa C , Lambot C, Herrera Pinilla JC, Bertrand B (2019). An Altered Circadian Clock Coupled with a Higher Photosynthesis Efficiency Could Explain the Better Agronomic Performance of a New Coffee Clone When Compared with a Standard Variety. Int. J. Mol. Sci. 2019, 20, 736; doi:10.3390/ijms20030736

Book chapters

Bertrand B., Breitler J.C.Georget F. , Penot E., Bordeaux M., Marraccini P.Leran S.Campa C.Bonato O.Villain L.Etienne H. 2019. New varieties for innovative agroforestry coffee systems. In : Côte François-Xavier (ed.), Poirier-Magona Emmanuelle (ed.), Perret Sylvain (ed.), Roudier Philippe (ed.), Bruno Rapidel (ed.), Thirion Marie-Cécile (ed.). The agroecological transition of agricultural systems in the Global South. Versailles : Ed Quae, p. 161-176.  https://www.quae-open.com/produit/114/9782759230570/the-agroecological-transition-of-agricultural-systems-in-the-global-south 



Journal papers

Alves G.S.C., Torres L.F., de Aquino S.O., Reichel T., Freire L.P., Vieira N.G., Vinecky F., This D., Pot D., Etienne H., Paiva L.V., Marraccini P., Andrade A.C. (2018). Nucleotide diversity of the coding and promoter regions of DREB1D, a candidate gene for drought tolerance in Coffea species. Trop. Plant Biol. DOI: 10.1007/s12042-018-9199-x

de Aquino S.O., Carneiro F.A., Rêgo E.C.S., Alves G.S.C., Andrade A.C., Marraccini P. (2018). Functional analysis of different promoter haplotypes of the coffee (Coffea canephora) CcDREB1D gene through genetic transformation of Nicotiana tabacumPlant Cell Tiss. Organ Cult. 132(2): 279-294. DOI: 10.1007/s11240-017-1328-y

Aribi, J., Ribière, W., Villain, L., Anthony, F. (2018) Screening of wild coffee (Coffea spp.) for resistance to Meloidogyne incognita race 1. Nematropica. 48(1): 5-14.

Bonato O. , Chadoeuf J. (2018). Arthropods life cycle and temperature: Beyond isomorphy hypothesis. Journal Thermal Biology, https://doi.org/10.1016/j.jtherbio.2018.05.004

Breitler JC , Dechamp E , Campa C , Zebral Rodrigues L , Guyot R , Marraccini P , Etienne H (2018) CRISPR/Cas9-mediated efficient targeted mutagenesis has the potential to accelerate the domestication of Coffea canephoraPlant Cell Tiss Org Culthttps://doi.org/10.1007/s11240-018-1429-2.

Dussert S, Serret J, Bastos-Siqueira A, Morcillo F, Dechamps E , Rofidal V, Lashermes P, Etienne H , Joet T. (2018). Integrative analysis of the late maturation programme and desiccation tolerance mechanisms in intermediate coffee seeds. J Exp Bot. DOI: 10.1093/jxb/erx492

Echeverria-Beirute F., Murray S.C., Klein P.E., Kerth C., Miller R., Bertrand B. (2018). Rust and thinning management effect on cup quality and plant performance for two cultivars of Coffea arabica L. Journal of Agricultural and Food Chemistry, 66 (21) : p. 5281-5292.

Etienne H, Breton D, Breitler J-CBertrand BDéchamp EAwada RMarraccini PLéran S, Alpizar E, Campa C , Courtel P, Georget F, Ducos J-P (2018) Coffee Somatic Embryogenesis: How Did Research, Experience Gained and Innovations Promote the Commercial Propagation of Elite Clones From the Two Cultivated Species? Frontiers in Plant Science. doi: 10.3389/fpls.2018.01630. https://www.frontiersin.org/articles/10.3389/fpls.2018.01630/full

Gallardo LH, Suárez-Villasmil L, Etienne H , Bertrand B , Barry-Etienne D, Menéndez-Yuffá A (2018) Similarity between nursery growth of coffee plants (Coffea arabica L.) obtained by somatic embryogenesis and by seeds. Rev. Biodivers. Neotrop. ISSN 2027-8918 e-ISSN 2256-5426 Abril-Junio 2018; 8 (3): 156- DOI: http://dx.doi.org/10.18636/bioneotropical.v8i2.356


Koala, M., Sérémé, D., Vignols, F., Lacombe, E., Bantgratz, M., Neya, B. J., Brugidou, C., Barro, N., & Traoré, O. (2018). Molecular Variability and Genetic Structure of IYMV in Burkina Faso. American Journal of Plant Sciences, 9(2), Article 2. https://doi.org/10.4236/ajps.2018.92025

Kranthi Varala, Amy Marshall-Colón, Jacopo Cirrone, Matthew D. Brooks, Angelo V. Pasquino, Sophie Léran , Shipra Mittal, Tara M. Rock, Molly B. Edwards, Grace J. Kim, Sandrine Ruffel, W. Richard McCombie, Dennis Shasha, and Gloria M. Coruzzi (2018). Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants. PNAShttps://doi.org/10.1073/pnas.1721487115

Nunes RD, Orozco-Arias S, Crouzillat D, Mueller LA, Strickler SR, Descombes P, Fournier C, Moine D, Kochko de A, Yuyama PM, Vanzela ALL, Guyot R. (2018). Structure and distribution of centromeric retrotransposons at diploid and allotetraploid Coffea centromeric and pericentromeric regions. Frontiers in Plant Science ; 9 :175. doi:10.3389/fpls.2018.00175

Orozco-Arias S, Tabares-Soto R,n Ceballos D, Silva Domingues D, Garavito A, Ming R, Guyot R. (2018). Inpactor, Integrated and Parallel Analyzer and Classifier of LTR Retrotransposons and Its Application for Pineapple LTR Retrotransposons Diversity and Dynamics. Biology (Basel). 25. DOI:10.3390/biology7020032

Sant’Ana GC, Pereira LFP, Pot D, Ivamoto ST, Dominguez DS, Ferreira RV, pagiatto NF, da Silva BSR, Nogueira LM, Kitzberger CSG, Scholz MBS, de Oliveira FF, Sera GH, Padilha L, Labouisse JP, Guyot R , Charmetant P, Leroy T. (2018). Genome-wide association study reveals candidate genes influencing lipids and diterpenes contents in Coffea arabica L. Scientific Reports8. DOI: 10.1038/s41598-017-18800-1

Book chapters

Bertrand B , Penot E, Bordeaux M, Marraccini PBreitler JCLéran SCampa CBonato OVillain LEtienne H (2018) Des variétés adaptées et adoptées: pierre angulaire des innovations agroécologiques pour sauver l’agroforesterie  à base  d’Arabica en Amérique Centrale et au Mexique. In : 10-best-bet-innovations-for-adaptation-in-agriculture-A-supplement-to-the-UNFCCC-NAP-Technical-Guidelines-CGIAR-Research-Program-on-Climate-Change-Agriculture-and-Food-Security-CCAFS.  Côte F (Ed.), Versailles : Ed. Quae.

Campa C , Petitvallet A (2018) Beneficial compounds from coffee leaves. In: Achieving sustainalble cultivation of coffee, breeding and quality traits. Lashermes P, Ed. Burleigh Dodds Science Pubishing, pp 237-258.

Manson, R.H., Barrera, J.F., Villain, L., Díaz-Padilla, G., Guajardo-Panes, R.A., Morales Varela, M.A. 2018. Manejo de plagas y enfermedades frente al reto del cambio climático. In: Welsh Rodriguez, C., Pérez Akaki, P., Ortiz Ceballo, G., Zavaleta Lizarraga, L., Del Valle Cardenas, B., Sosa Fernandez, V., Barrera, J.F., Meza Pérez, E., Programa de café y cambio climático para cafetaleros de la cuenca del río Jamapa. Xalapa, Ver., México, INECOL, p. 333-360. ISBN 978-607-7579-81-6

Villain L., Lima, S.M., Phap, Q.T. 2018. Nematode parasites of coffee and cocoa. In: Richard A. Sikora, Coyne, Daniel, L., Hallmann, Johannes, Timper, Patricia, Eds. Plant parasitic nematodes in subtropical and tropical agriculture. 3rd Edition. Wallingford : CABI Publishing, p. 536-584.



Journal papers

Campa C., Urban L., Mondolot L., Fabre D., Roques S., Lizzi Y., Aarouf J., Doulbeau S., Breitler J-C., Letrez C., Toniutti L. , Bertrand B., La Fisca P., Bidel L.P.R. and Etienne H . (2017). Juvenile coffee leaves acclimated to low light are unable to cope with a moderate light increase, Frontiers in Plant Science, 8 (1126). doi.org/10.3389/fpls.2017.01126

Costa Alves GS, Ferreira Torres L, Déchamp E , Breitler J-C , Joët T, Gatineau F, Carvalho Andrade A, Bertrand BMarraccini PEtienne H (2017) Differential fine-tuning of gene expression regulation in coffee leaves by CcDREB1D  promoter haplotypes under water deficit. J Exp Bot  2017; 68 (11): 3017-3031. doi: 10.1093/jxb/erx166.

De Aquino Oliveira Sinara, de Araújo Carneiro Fernanda, Silva Rêgo Erica Cristina, Costa Alves Gabriel Sergio, Carvalho Andrade Alan, Marraccini Pierre . (2017). Functional analysis of different promoter haplotypes of the coffee (Coffea canephora) CcDREB1D gene through genetic transformation of Nicotiana tabacum. Plant Cell, Tissue and Organ Culture, 1-16. http://dx.doi.org/10.1007/s11240-017-1328-y

Dupeyron M, de Souza RF, Hamon P, de Kochko A, Crouzillat D, Couturon E, Domingues DS, Guyot R. (2017). Distribution of Divo in Coffea genomes, a poorly described family of angiosperm LTR-Retrotransposons. Molecular Genetics Genomics. Doi:  10.1007/s00438-017-1308-2

F. Echeverria-Beirute, S. C. Murray, P. Klein, C. Kerth, R. Miller, B. Bertrand (2017). Rust and Thinning Management Effect on Cup Quality and Plant Performance for Two Cultivars of Coffea arabica L. J. Agric. Food Chem. DOI: 10.1021/acs.jafc.7b03180

Georget F , Courtel P, Garcia EM, Hidalgo M, Alpizar E, Breitler JCBertrand BEtienne H. (2017). Somatic embryogenesis-derived coffee plantlets can be efficiently propagated by horticultural rooted mini-cuttings: A boost for somatic embryogenesis. Science Horticulturae. 216: 177-185. DOI: 10.1016/j.scienta.2016.12.017

Hamon P, Grover CE, Davis AP, Rakotomalala JJ, Raharimalala NE, Albert VA, Sreenath HL, Stoffelen P, Mitchell SE, Couturon E, Hamon S, de Kochko A, Crouzillat D, Rigoreau M, Sumirat U, Akaffou S, Guyot R. (2017). Genotyping by sequencing provides the first well-resolved phylogeny for coffee (Coffee) and insights into the evolution of caffeine content in its species: GBS coffee phylogeny and the evolution of caffeine content. Mol Phylogenet Evol. 2017 Feb 16;109:351-361. doi: 10.1016/j.ympev.2017.02.009. [Epub ahead of print]

Koïta K, Neya F B, Opoku N, Baissac Y, Campa C and Sankara P (2017). Phytochemical analysis of Ziziphus mucronata Willd.  extract and screening for antifungal activity against peanut pathogens, African J.  Plant Sci. , 11(10): 394-402, DOI: 10.5897/AJPS2017.1600

Koita K, Baissac I, Sanon E, Campa C , Sankara P, 2017 . Phenolics from Lippia multiflora Moldenke as potential bioactive agents against peanut pathogens, Agricultural Science Research Journal, 7(9): 267-276.

Roy L,  El Adouzi M,  Moraza ML, Chiron G, Villeneuve de Janti E, Le Peutrec G, Bonato O . 2017. Arthropod communities of laying hen houses: An integrative pilot study toward conservation biocontrol of the poultry red mite Dermanyssus gallinaeBiological Control 114 (2017) 176–194

Toniutti L., Breitler J.C.Etienne H.Campa C., Doulbeau S., Urban L., Lambot C., Pinilla J.C.H., Bertrand B. 2017. Influence of environmental conditions and genetic background of Arabica coffee (C. arabica L) on leaf rust (Hemileia vastatrix) pathogenesis. Frontiers in Plant Science, 8 (2025) : 12 p. http://dx.doi.org/10.3389/fpls.2017.02025



Journal papers

Breitler JC , Campa C , Georget F , Bertrand BEtienne H (2016) A single-step method for RNA isolation from tropical crops in the field. Sci Rep 6, 38368. https://doi.org/10.1038/srep38368

El Adouzi M, Bonato O , Roy L (2016) Detecting pyretroid resistance in predatory mites inhabiting soil and litter: An in vitro test. Pest Management Science, DOI: 10.1002/ps.4454

Etienne H , Bertrand B , Dechamp E , Maurel P, Georget F , Guyot R , Breitler JC (2016) Are genetic and epigenetic instabilities of plant embryogenic cells a fatality? The experience of coffee somatic embryogenesis. Human Genet Embryol. 6:136. http://dx.doi.org/10.4172/2161-0436.1000136

Garavito A, Montagnon C, Guyot R , Bertrand B (2016) Identification by the DArTseq Method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico. BMC Plant Biology, 16:242, DOI 10.1186/s12870-016-0933-y

Guyot R , Darré T, Dupeyron M , de Kochko A, Hamon S, Couturon E, Crouzillat D, Rigoreau M, Rakotomalala JJ, Raharimalala NE, Akaffou SD, Hamon P. (2016). Partial sequencing reveals the transposable element composition of Coffea genomes and provides evidence for distinct evolutionary strories. Mol Genet Genomics.   DOI: 10.1007/s00438-016-1235-7

Lorenzo E, Grille G, Basso C, Bonato O. (2016) Host preferences and biotic potential of Trialeurodes vaporariorum and Bemisia tabaci (Hemiptera: Aleyrodidae) in tomato and pepper. Arthropod-Plant Interactions. DOI 10.1007/s11829-016-9434-z

Ming R, Wai CM, Guyot R. (2016) Pineapple Genome: A Reference for Monocots and CAM Photosynthesis. Trends Genet. pii: S0168-9525(16)30100-7. doi:10.1016/j.tig.2016.08.008.

Rocha DM, Marques A, Anrade CG, Guyot R, Pedrosa-Harand A, Houben A, Bennetzen JL, Vanzela AL. (2016). Developmental programmed cell death during asymmetric microsporogenesis in holocentric species of Rhynchospora (Cyperaceae). J Exp Bot. DOI: 10.1093/jxb/erw300

Roncal J, Guyot R , Hamon P, Crouzillat D, Rigoreau M, Konan ON, Rakotomalala JJ, Nowak MD, Davis AP, de Kochko A. (2016). Active transposable elements recover species boundaries and geographic structure in Madagascan coffee species. Molecular Genetics and Genomics.  291(1) : 155-168 

Roy L., Bon MC, Cesarini C, Serin J, Bonato O (2016) Pinpointing the level of isolation between two cryptic species sharing the same microhabitat. A case study with a scarabaeid species complex. Zoologica Cripta, doi:10.1111/zsc.12166

Book chapters

Couturon E, Raharimalala N.E., Rakotomalala J.J., Hamon S, De Kochko A, Guyot R , Hamon P. 2016. Caféiers sauvages : un trésor en péril au coeur des forêts tropicales / Wild coffee-trees : a threatened treasure in the heart of tropical forests !. Montpellier : Association Biodiversité, Ecovalorisation et Caféiers, 117 p. ISBN 978-2-7466-9109-4

Etienne HGuyot RBertrand BBreitler JC, Jaligot E (2016) Plant fidelity in somatic embryogenesis-regenerated plants. In: Somatic Embryogenesis: Fundamental Aspects and Applications. Loyola-Vargas VM and Ochoa-Alejo N (eds.). Springer International Publishing. Pp. 121-150. 10.1007/978-3-319-33705-0_8

Bertrand BMarraccini PVillain LBreitler JCEtienne H (2016) Healthy tropical plants to mitigate the impact of climate change - as exemplified in coffee. In : Torquebiau Emmanuel (ed.), Manley, David (trad.), Cowan, Paul (trad.). Climate change and agriculture worldwide. Heidelberg : Springer, p. 83-95



Journal papers

Anzara G. K.G. R., Koffi K. K., Coulibaly S.S., Fouha Bi N.D., Baudoin J-P, Campa C. and Zoro Bi I. A . (2015) Influence of herbivorous insects on the production of Lagenaria siceraria (Molina) Standley (Cucurbitaceae), African Journal of Plant Science Vol. 9(11): 449- 456. DOI: 10.5897/AJPS2015.1316

Bertrand BBardil A, Baraille H, Dussert S, Doulbeau S, Dubois E, Severac D, Dereeper A, Etienne H (2015). The greater phenotypic homeostasis of the allopolyploid Coffea arabica improved the transcriptional homeostasis over that of both diploid parents. Plant and Cell Physiology, 56:2035-2051

Beulé T, Agbessi MD, Dussert S, Jaligot E, Guyot R (2015) Genome-wide analysis of LTR-retrotransposons in oil palm. BMC Genomics . 15;16:795. doi:10.1186/s12864-015-2023-1

Bobadilla Landey R, Cenci A, Guyot R , Bertrand B , Georget F , Dechamp E , Herrera JC, Aribi J, Lashermes P,  Etienne, H. (2015) Assessment of genetic and epigenetic changes during cell culture ageing and relations with somaclonal variation in Coffea arabicaPlant Cell, Tissue and Organ Culture 122(3) p. 517-531 ISSN: 0167-6857

Bousquet F, Robbins P, Peloquin C,  Bonato O (2015) The PISA grammar decodes diverse Human-Environment Approaches. Global Environment Change , 34: 159-171

Chaparro C, Gayraud T, de Souza RF, Domingues DS, Akaffou S, Laforga Vanzela AL, Kochko Ad, Rigoreau M, Crouzillat D, Hamon S, Hamon P, Guyot R. (2015) Terminal-repeat retrotransposons with GAG domain in plant genomes: a new testimony on the complex world of transposable elements. Genome Biol Evol. 2015 Jan 7;7(2):493-504. doi: 10.1093/gbe/evv001. PubMed PMID: 25573958; PubMed Central PMCID: PMC4350172

Dias ES, Hatt C, Hamon S, Hamon P, Rigoreau M, Crouzillat D, Carareto CM, de Kochko A, Guyot R. (2015) Large distribution and high sequence identity of a Copia-type retrotransposon in angiosperm families. Plant Mol Biol. 89(1-2):83-97, doi: 10.1007/s11103-015-0352-8.

Ming R, VanBuren R, Wai CM, Tang H, Schatz MC, Bowers JE, Lyons E, Wang ML, Chen J, Biggers E, Zhang J, Huang L, Zhang L, Miao W, Zhang J, Ye Z, Miao C, Lin Z, Wang H, Zhou H, Yim WC, Priest HD, Zheng C, Woodhouse M, Edger PP, Guyot R , et al. (2015) The pineapple genome and the evolution of CAM photosynthesis. Nat Genet . 47(12):1435-42. doi: 10.1038/ng.3435.

Roncal J, Guyot R , Hamon P, Crouzillat D, Rigoreau M,Konan ON, Rakotomalala JJ, Nowak MD, Davis AP, de Kochko A. (2015) Active transposable elements recover species boundaries and geographic structure in Madagascan coffee species. Mol Genet Genomics. 2015 Aug 1. [Epub ahead of print] PubMed PMID: 26231981.

Santos FC, Guyot R , do Valle CB, Chiari L, Techio VH, Heslop-Harrison P, Vanzela AL.(2015) Chromosomal distribution and evolution of abundant retrotransposons in plants: gypsy elements in diploid and polyploid Brachiaria forage grasses. Chromosome Res. 23(3):571-82. doi: 10.1007/s10577-015-9492-6.

Van der Vossen H., Bertrand B. , Charrier A. (2015) Next generation variety development for sustainable production of arabica coffee (Coffea arabica L.): A review. Euphytica, 204 (2) : p. 243-256

Book chapters

Bertrand B., Marraccini P., Villam L.Breitler J.C.Etienne H (2015) La bonne santé des plantes tropicales pour atténuer les effets du changement climatique: l'exemple du caféier. In : Torquebiau Emmanuel (ed.).Changement climatique et agricultures du monde. Versailles :Ed. Quae, p. 84-95. (Agricultures et défis du monde).

Clavel D., Bazile D., Bertrand B., Sounigo O., Vom Brocke K., Trouche G. (2015) Agricultural biodiversity and rural systems of seed production. In : Sourisseau Jean-Michel (ed.).Family farming and the Worlds to come. Dordrecht : Springer [Pays-Bas], p. 285-300. http://dx.doi.org/10.1007/978-94-017-9358-2_17

Dechamp E.Breitler J.C., Leroy T., Etienne H (2015) Coffee (Coffea arabica L.). In : Kan Wang (ed.). Agrobacterium Protocols. Volume 2. New-York :Springer, p. 275-291. (Methods in Molecular Biology, 1224). [20141210]. ISBN 978-1-4939-1657-3  http://dx.doi.or/10.1007/978-1-4939-1658-0_22

Rivillas C.A., Villain L.Bertrand B.. 2015. Diseases caused by nematodes. In : Alvaro L. Gaitán (ed.), Marco A. Cristancho (ed.), Bertha L. Castro Caicedo (ed.), Carlos A. Rivillas (ed.), Gabriel Cadena Gómez (ed.).Compendium of Coffee Diseases and Pests. Saint-Paul : The American Phytopathological Society, p. 37-42.


Research of the COFFEADAPT team
COFFEEADAPT team publication
Team members
Permanent and temporary staff