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6. Date palm transcriptome analysis provides new insights on changes in response to high salt stress of colonized roots with the endophytic fungus Piriformospora indica.

Author

Ahmad, Manzoor, Aziz, Mughair Abdul, Sabeem, Miloofer, Kutty, M. Sangeeta, Sivasankaran, Sathesh K., Brini, Faical, Ting Ting Xiao, Blilou, Ikram, and Masmoudi, Khaled

Subjects
DATE palm, GENE expression, PRINCIPAL components analysis, ATP-binding cassette transporters, ABSCISIC acid
Abstract

Salinity is a significant threat that causes considerable yield losses in date palm. The root endophytic fungus Piriformospora indica has proven effective in providing salt stress tolerance to host plants. However, the underlying molecular mechanism facilitating the date palm's response to P. indica inoculation, and its involvement in the salt stress tolerance, remains unknown. In this study, the colonization of P. indica on date palm seedlings exposed to saline conditions was observed through confocal microscopy, and its impact on gene expressions was evaluated using the transcriptomic analysis. Our findings show that P. indica colonization reinforced the cortical cells, prevented them from plasmolysis and cell death under salinity. The RNAseq analysis produced clean reads ranging from 62,040,451 to 3,652,095 across the treatment groups, successfully assembling into 30,600 annotated genes. Out of them, the number of differentially expressed genes (DEGs) varied across the treatments: i.e., 2523, 2031, and 1936 DEGs were upregulated, while 2323, 959, and 3546 were downregulated in Salt, Fungi, and Fungi+Salt groups, respectively. Furthermore, principal component analysis based on transcriptome profiles revealed discrete clustering of samples from different treatment groups. KEGG and GO pathways enrichment analysis highlighted variation in the number and types of enriched pathways among the treatments. Our study indicated variations in gene expression related to plant hormone biosynthesis and signal transduction (auxin, abscisic acid, gibberellin, and ethylene), ABC transporters, sodium/hydrogen exchanger, cation HKT transporter, transcription factors such as WRKY and MYBs, and the plant immune system (lipoxygenase and jasmonate) of the date palm seedlings. By characterizing the transcriptome of date palm roots under salt stress and with colonization of P. indica, the present findings provide valuable perspectives on the molecular mechanisms responsible for inducing salinity stress tolerance in plants. [ABSTRACT FROM AUTHOR]

Published
2024
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8. PlantACT! - how to tackle the climate crisis

Author

King Abdullah University of Science and Technology, European Commission, Hirt, Heribert [0000-0003-3119-9633], Al-Babili, Salim [0000-0003-4823-2882], Almeida-Trapp, Marilia [0000-0002-9980-322X], Aranda, Manuel [0000-0001-6673-016X], Bartels, D. [0000-0003-0505-3083], Bennett, Malcom [0000-0003-0475-390X], Blilou, Ikram [0000-0001-8003-3782], Boer, Damian [0000-0003-1240-2253], Boulouis, Alix [0000-0002-2552-3938], Bowler, Chris [0000-0003-3835-6187], Brunel-Muguet, Sophie [0000-0001-6940-4618], Chardon, Fabien [0000-0001-7909-3884], Colcombet, Jean [0000-0002-0176-3857], Colot, Vincent [0000-0002-6382-1610], Daszkowska-Golec, Agata [0000-0001-9479-0813], Dinneny, Jose R. [0000-0002-3998-724X], Field, Ben [0000-0003-2142-4606], Gardener, Catherine H. [0000-0001-8528-3772], Gojon, Alain [0000-0001-5412-8606], Gomès, Eric [0000-0003-2582-1203], Gomez-Alvarez, Eva María [0000-0002-1284-7212], Gutiérrez Armenta, Crisanto [0000-0001-8905-8222], Havaux, Michel [0000-0002-6434-393X], Hayes, Scott [0000-0001-8943-6238], Heard, Edith [0000-0001-8052-7117], Alghamdi, Amal Khalaf [0000-0002-3491-5271], Laplaze, Laurent [0000-0002-6568-6504], Lauersen, Kyle J. [0000-0002-5538-7201], Leonhardt, Nathalie [0000-0002-5392-9732], Johnson, Xenie [0000-0003-3424-7047], Jones, Jonathan [0000-0002-4953-261X], Kollist, Hannes [0000-0002-6895-3583], Kopriva, Stanislav [0000-0002-7416-6551], Krapp, Anne [0000-0003-2034-5615], Masson, Mauricio Lopez-Portillo [0000-0003-3895-6254], McCabe, Matthew F. [0000-0002-1279-5272], Merendino, Livia [0000-0003-1593-5442], Molina, Antonio [0000-0003-3137-7938], Moreno Ramirez, Jose L. [0000-0002-0907-1361], Mueller-Roeber, Bernd [0000-0002-1410-464X], Nicolas, Michael [0000-0002-7311-5306], Nir, Ido [0000-0002-6223-6700], Pardo, José M. [0000-0003-4510-8624], Reichheld, Jean-Philippe [0000-0001-6884-0602], Rodriguez, Pedro [0000-0002-5886-9425], Rouached, Hatem [0000-0002-7751-0477], Saad, Maged M. [0000-0002-5655-8674], Schlögelhofer, Peter [0000-0002-0909-3587], De Smet, Ive [0000-0003-4607-8893], Stanschewski, Clara [0000-0002-3596-9108], Stra, Alice [0000-0002-0856-6039], Tester, Mark [0000-0002-5085-8801], Weber, A. [0000-0003-0970-4672], Weigel, Detlef [0000-0002-2114-7963], Wigge, Philip [0000-0003-4822-361X], Wrzaczek, Michael [0000-0002-5946-9060], Wulff, Brande B.H. [0000-0003-4044-4346], Hirt, Heribert, Al-Babili, Salim, Almeida-Trapp, Marilia, Martin, Antoine, Aranda, Manuel, Bartels, D., Bennett, Malcom, Blilou, Ikram, Boer, Damian, Boulouis, Alix, Bowler, Chris, Brunel-Muguet, Sophie, Chardon, Fabien, Colcombet, Jean, Colot, Vincent, Daszkowska-Golec, Agata, Dinneny, Jose R., Field, Ben, Froehlich, Katja, Gardener, Catherine H., Gojon, Alain, Gomès, Eric, Gomez-Alvarez, Eva María, Gutiérrez Armenta, Crisanto, Havaux, Michel, Hayes, Scott, Heard, Edith, Hodges, Michael, Alghamdi, Amal Khalaf, Laplaze, Laurent, Lauersen, Kyle J., Leonhardt, Nathalie, Johnson, Xenie, Jones, Jonathan, Kollist, Hannes, Kopriva, Stanislav, Krapp, Anne, Masson, Mauricio Lopez-Portillo, McCabe, Matthew F., Merendino, Livia, Molina, Antonio, Moreno Ramirez, Jose L., Mueller-Roeber, Bernd, Nicolas, Michael, Nir, Ido, Orduna, Izamar Olivas, Pardo, José M., Reichheld, Jean-Philippe, Rodriguez, Pedro, Rouached, Hatem, Saad, Maged M., Schlögelhofer, Peter, Singh, Kirti A., De Smet, Ive, Stanschewski, Clara, Stra, Alice, Tester, Mark, Walsh, Catherine, Weber, A., Weigel, Detlef, Wigge, Philip, Wrzaczek, Michael, Wulff, Brande B.H., Young, Iain M., King Abdullah University of Science and Technology, European Commission, Hirt, Heribert [0000-0003-3119-9633], Al-Babili, Salim [0000-0003-4823-2882], Almeida-Trapp, Marilia [0000-0002-9980-322X], Aranda, Manuel [0000-0001-6673-016X], Bartels, D. [0000-0003-0505-3083], Bennett, Malcom [0000-0003-0475-390X], Blilou, Ikram [0000-0001-8003-3782], Boer, Damian [0000-0003-1240-2253], Boulouis, Alix [0000-0002-2552-3938], Bowler, Chris [0000-0003-3835-6187], Brunel-Muguet, Sophie [0000-0001-6940-4618], Chardon, Fabien [0000-0001-7909-3884], Colcombet, Jean [0000-0002-0176-3857], Colot, Vincent [0000-0002-6382-1610], Daszkowska-Golec, Agata [0000-0001-9479-0813], Dinneny, Jose R. [0000-0002-3998-724X], Field, Ben [0000-0003-2142-4606], Gardener, Catherine H. [0000-0001-8528-3772], Gojon, Alain [0000-0001-5412-8606], Gomès, Eric [0000-0003-2582-1203], Gomez-Alvarez, Eva María [0000-0002-1284-7212], Gutiérrez Armenta, Crisanto [0000-0001-8905-8222], Havaux, Michel [0000-0002-6434-393X], Hayes, Scott [0000-0001-8943-6238], Heard, Edith [0000-0001-8052-7117], Alghamdi, Amal Khalaf [0000-0002-3491-5271], Laplaze, Laurent [0000-0002-6568-6504], Lauersen, Kyle J. [0000-0002-5538-7201], Leonhardt, Nathalie [0000-0002-5392-9732], Johnson, Xenie [0000-0003-3424-7047], Jones, Jonathan [0000-0002-4953-261X], Kollist, Hannes [0000-0002-6895-3583], Kopriva, Stanislav [0000-0002-7416-6551], Krapp, Anne [0000-0003-2034-5615], Masson, Mauricio Lopez-Portillo [0000-0003-3895-6254], McCabe, Matthew F. [0000-0002-1279-5272], Merendino, Livia [0000-0003-1593-5442], Molina, Antonio [0000-0003-3137-7938], Moreno Ramirez, Jose L. [0000-0002-0907-1361], Mueller-Roeber, Bernd [0000-0002-1410-464X], Nicolas, Michael [0000-0002-7311-5306], Nir, Ido [0000-0002-6223-6700], Pardo, José M. [0000-0003-4510-8624], Reichheld, Jean-Philippe [0000-0001-6884-0602], Rodriguez, Pedro [0000-0002-5886-9425], Rouached, Hatem [0000-0002-7751-0477], Saad, Maged M. [0000-0002-5655-8674], Schlögelhofer, Peter [0000-0002-0909-3587], De Smet, Ive [0000-0003-4607-8893], Stanschewski, Clara [0000-0002-3596-9108], Stra, Alice [0000-0002-0856-6039], Tester, Mark [0000-0002-5085-8801], Weber, A. [0000-0003-0970-4672], Weigel, Detlef [0000-0002-2114-7963], Wigge, Philip [0000-0003-4822-361X], Wrzaczek, Michael [0000-0002-5946-9060], Wulff, Brande B.H. [0000-0003-4044-4346], Hirt, Heribert, Al-Babili, Salim, Almeida-Trapp, Marilia, Martin, Antoine, Aranda, Manuel, Bartels, D., Bennett, Malcom, Blilou, Ikram, Boer, Damian, Boulouis, Alix, Bowler, Chris, Brunel-Muguet, Sophie, Chardon, Fabien, Colcombet, Jean, Colot, Vincent, Daszkowska-Golec, Agata, Dinneny, Jose R., Field, Ben, Froehlich, Katja, Gardener, Catherine H., Gojon, Alain, Gomès, Eric, Gomez-Alvarez, Eva María, Gutiérrez Armenta, Crisanto, Havaux, Michel, Hayes, Scott, Heard, Edith, Hodges, Michael, Alghamdi, Amal Khalaf, Laplaze, Laurent, Lauersen, Kyle J., Leonhardt, Nathalie, Johnson, Xenie, Jones, Jonathan, Kollist, Hannes, Kopriva, Stanislav, Krapp, Anne, Masson, Mauricio Lopez-Portillo, McCabe, Matthew F., Merendino, Livia, Molina, Antonio, Moreno Ramirez, Jose L., Mueller-Roeber, Bernd, Nicolas, Michael, Nir, Ido, Orduna, Izamar Olivas, Pardo, José M., Reichheld, Jean-Philippe, Rodriguez, Pedro, Rouached, Hatem, Saad, Maged M., Schlögelhofer, Peter, Singh, Kirti A., De Smet, Ive, Stanschewski, Clara, Stra, Alice, Tester, Mark, Walsh, Catherine, Weber, A., Weigel, Detlef, Wigge, Philip, Wrzaczek, Michael, Wulff, Brande B.H., and Young, Iain M.

Abstract

Greenhouse gas (GHG) emissions have created a global climate crisis which requires immediate interventions to mitigate the negative effects on all aspects of life on this planet. As current agriculture and land use contributes up to 25% of total GHG emissions, plant scientists take center stage in finding possible solutions for a transition to sustainable agriculture and land use. In this article, the PlantACT! (Plants for climate ACTion!) initiative of plant scientists lays out a road map of how and in which areas plant scientists can contribute to finding immediate, mid-term, and long-term solutions, and what changes are necessary to implement these solutions at the personal, institutional, and funding levels.

Published
2023

9. Dynamics of ribosome composition and ribosomal protein phosphorylation in immune signaling in Arabidopsis thaliana

Author

Siodmak, Anna, primary, Martinez-Seidel, Federico, additional, Rayapuram, Naganand, additional, Bazin, Jeremie, additional, Alhoraibi, Hanna, additional, Gentry-Torfer, Dione, additional, Tabassum, Naheed, additional, Sheikh, Arsheed H, additional, Kise, José Kenyi González, additional, Blilou, Ikram, additional, Crespi, Martin, additional, Kopka, Joachim, additional, and Hirt, Heribert, additional

Published
2023
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10. Disruption of the rice 4-DEOXYOROBANCHOL HYDROXYLASE unravels specific functions of canonical strigolactones

Author

Chen, Guan-Ting Erica, primary, Wang, Jian You, additional, Votta, Cristina, additional, Braguy, Justine, additional, Jamil, Muhammad, additional, Kirschner, Gwendolyn K., additional, Fiorilli, Valentina, additional, Berqdar, Lamis, additional, Balakrishna, Aparna, additional, Blilou, Ikram, additional, Lanfranco, Luisa, additional, and Al-Babili, Salim, additional

Published
2023
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11. Salinity stress-induced phosphorylation of INDETERMINATE-DOMAIN 4 (IDD4) by MPK6 regulates plant growth adaptation in Arabidopsis

Author

Rawat, Anamika, primary, Völz, Ronny, additional, Sheikh, Arsheed, additional, Mariappan, Kiruthiga G., additional, Kim, Soon-Kap, additional, Rayapuram, Naganand, additional, Alwutayd, Khairiah M., additional, Alidrissi, Louai K., additional, Benhamed, Moussa, additional, Blilou, Ikram, additional, and Hirt, Heribert, additional

Published
2023
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16. The Arabidopsis SHORTROOT network coordinates shoot apical meristem development with auxin-dependent lateral organ initiation

Author

European Commission, Ministerio de Ciencia e Innovación (España), Agencia Estatal de Investigación (España), Bahafid, Elmehdi, Bradtmöller, Imke, Thies, Ann M, Nguyen, Thi Ton, Gutierrez, Crisanto, Desvoyes, Bénédicte, Stahl, Yvonne, Blilou, Ikram, Simon, Rüdiger G W, European Commission, Ministerio de Ciencia e Innovación (España), Agencia Estatal de Investigación (España), Bahafid, Elmehdi, Bradtmöller, Imke, Thies, Ann M, Nguyen, Thi Ton, Gutierrez, Crisanto, Desvoyes, Bénédicte, Stahl, Yvonne, Blilou, Ikram, and Simon, Rüdiger G W

Abstract

Plants produce new organs post-embryonically throughout their entire life cycle. This is due to stem cells present in the shoot and root apical meristems, the SAM and RAM, respectively. In the SAM, stem cells are located in the central zone where they divide slowly. Stem cell daughters are displaced laterally and enter the peripheral zone, where their mitotic activity increases and lateral organ primordia are formed. How the spatial arrangement of these different domains is initiated and controlled during SAM growth and development, and how sites of lateral organ primordia are determined in the peripheral zone is not yet completely understood. We found that the SHORT-ROOT (SHR) transcription factor together with its target transcription factors SCARECROW (SCR), SCARECROW-LIKE23 (SCL23) and JACKDAW (JKD), promotes formation of lateral organs and controls shoot meristem size. SHR, SCR, SCL23, and JKD are expressed in distinct, but partially overlapping patterns in the SAM. They can physically interact and activate expression of key cell cycle regulators such as CYCLIND6;1 (CYCD6;1) to promote the formation of new cell layers. In the peripheral zone, auxin accumulates at sites of lateral organ primordia initiation and activates SHR expression via the auxin response factor MONOPTEROS (MP) and auxin response elements in the SHR promoter. In the central zone, the SHR-target SCL23 physically interacts with the key stem cell regulator WUSCHEL (WUS) to promote stem cell fate. Both SCL23 and WUS expression are subject to negative feedback regulation from stem cells through the CLAVATA signaling pathway. Together, our findings illustrate how SHR-dependent transcription factor complexes act in different domains of the shoot meristem to mediate cell division and auxin dependent organ initiation in the peripheral zone, and coordinate this activity with stem cell maintenance in the central zone of the SAM.

Published
2023

17. PlantACT! – how to tackle the climate crisis

Author

Hirt, Heribert, Al-Babili, Salim, Almeida-Trapp, Marilia, Martin, Antoine, Aranda, Manuel, Bartels, Dorothea, Bennett, Malcolm, Blilou, Ikram, Boer, Damian, Boulouis, Alix, Bowler, Chris, Brunel-Muguet, Sophie, Chardon, Fabien, Colcombet, Jean, Colot, Vincent, Daszkowska-Golec, Agata, Dinneny, Jose R., Field, Ben, Froehlich, Katja, Gardener, Catherine H., Gojon, Alain, Gomès, Eric, Gomez-Alvarez, Eva María, Gutierrez, Crisanto, Havaux, Michel, Hayes, Scott, Heard, Edith, Hodges, Michael, Alghamdi, Amal Khalaf, Laplaze, Laurent, Lauersen, Kyle J., Leonhardt, Nathalie, Johnson, Xenie, Jones, Jonathan, Kollist, Hannes, Kopriva, Stanislav, Krapp, Anne, Masson, Mauricio Lopez Portillo, McCabe, Matthew F., Merendino, Livia, Molina, Antonio, Moreno Ramirez, Jose L., Mueller-Roeber, Bernd, Nicolas, Michael, Nir, Ido, Orduna, Izamar Olivas, Pardo, Jose M., Reichheld, Jean Philippe, Rodriguez, Pedro L., Rouached, Hatem, Saad, Maged M., Schlögelhofer, Peter, Singh, Kirti A., De Smet, Ive, Stanschewski, Clara, Stra, Alice, Tester, Mark, Walsh, Catherine, Weber, Andreas P.M., Weigel, Detlef, Wigge, Philip, Wrzaczek, Michael, Wulff, Brande B.H., Young, Iain M., Hirt, Heribert, Al-Babili, Salim, Almeida-Trapp, Marilia, Martin, Antoine, Aranda, Manuel, Bartels, Dorothea, Bennett, Malcolm, Blilou, Ikram, Boer, Damian, Boulouis, Alix, Bowler, Chris, Brunel-Muguet, Sophie, Chardon, Fabien, Colcombet, Jean, Colot, Vincent, Daszkowska-Golec, Agata, Dinneny, Jose R., Field, Ben, Froehlich, Katja, Gardener, Catherine H., Gojon, Alain, Gomès, Eric, Gomez-Alvarez, Eva María, Gutierrez, Crisanto, Havaux, Michel, Hayes, Scott, Heard, Edith, Hodges, Michael, Alghamdi, Amal Khalaf, Laplaze, Laurent, Lauersen, Kyle J., Leonhardt, Nathalie, Johnson, Xenie, Jones, Jonathan, Kollist, Hannes, Kopriva, Stanislav, Krapp, Anne, Masson, Mauricio Lopez Portillo, McCabe, Matthew F., Merendino, Livia, Molina, Antonio, Moreno Ramirez, Jose L., Mueller-Roeber, Bernd, Nicolas, Michael, Nir, Ido, Orduna, Izamar Olivas, Pardo, Jose M., Reichheld, Jean Philippe, Rodriguez, Pedro L., Rouached, Hatem, Saad, Maged M., Schlögelhofer, Peter, Singh, Kirti A., De Smet, Ive, Stanschewski, Clara, Stra, Alice, Tester, Mark, Walsh, Catherine, Weber, Andreas P.M., Weigel, Detlef, Wigge, Philip, Wrzaczek, Michael, Wulff, Brande B.H., and Young, Iain M.

Abstract

Greenhouse gas (GHG) emissions have created a global climate crisis which requires immediate interventions to mitigate the negative effects on all aspects of life on this planet. As current agriculture and land use contributes up to 25% of total GHG emissions, plant scientists take center stage in finding possible solutions for a transition to sustainable agriculture and land use. In this article, the PlantACT! (Plants for climate ACTion!) initiative of plant scientists lays out a road map of how and in which areas plant scientists can contribute to finding immediate, mid-term, and long-term solutions, and what changes are necessary to implement these solutions at the personal, institutional, and funding levels.

Published
2023

18. RETINOBLASTOMA-RELATED interactions with key factors of the RNA-directed DNA methylation (RdDM) pathway and its influence on root development

Author

León-Ruiz, Jesús, Espinal-Centeno, Annie, Blilou, Ikram, Scheres, Ben, Arteaga-Vázquez, Mario, Cruz-Ramírez, Alfredo, León-Ruiz, Jesús, Espinal-Centeno, Annie, Blilou, Ikram, Scheres, Ben, Arteaga-Vázquez, Mario, and Cruz-Ramírez, Alfredo

Abstract

Main Conclusion: Our study presents evidence for a novel mechanism for RBR function in transcriptional gene silencing by interacting with key players of the RdDM pathway in Arabidopsis and several plant clades. Abstract: Transposable elements and other repetitive elements are silenced by the RNA-directed DNA methylation pathway (RdDM). In RdDM, POLIV-derived transcripts are converted into double-stranded RNA (dsRNA) by the activity of RDR2 and subsequently processed into 24 nucleotide short interfering RNAs (24-nt siRNAs) by DCL3. 24-nt siRNAs serve as guides to direct AGO4–siRNA complexes to chromatin-bound POLV-derived transcripts generated from the template/target DNA. The interaction between POLV, AGO4, DMS3, DRD1, RDM1 and DRM2 promotes DRM2-mediated de novo DNA methylation. The Arabidopsis Retinoblastoma protein homolog (RBR) is a master regulator of the cell cycle, stem cell maintenance, and development. We in silico predicted and explored experimentally the protein–protein interactions (PPIs) between RBR and members of the RdDM pathway. We found that the largest subunits of POLIV and POLV (NRPD1 and NRPE1), the shared second largest subunit of POLIV and POLV (NRPD/E2), RDR1, RDR2, DCL3, DRM2, and SUVR2 contain canonical and non-canonical RBR binding motifs and several of them are conserved since algae and bryophytes. We validated experimentally PPIs between Arabidopsis RBR and several of the RdDM pathway proteins. Moreover, seedlings from loss-of-function mutants in RdDM and RBR show similar phenotypes in the root apical meristem. We show that RdDM and SUVR2 targets are up-regulated in the 35S:AmiGO–RBR background.

Published
2023

19. Disruption of the rice 4-DEOXYOROBANCHOL HYDROXYLASE unravels specific functions of canonical strigolactones.

Author

Guan-Ting Erica Chen, Jian You Wang, Votta, Cristina, Braguy, Justine, Jami, Muhammad, Kirschner, Gwendolyn K., Fiorilli, Valentina, Berqdar, Lamis, Balakrishna, Aparna, Blilou, Ikram, Lanfranco, Luisa, and Al-Babili, Salim

Subjects
STRIGOLACTONES, CYTOCHROME P-450, RICE, WITCHWEEDS, PLANT species
Abstract

Strigolactones (SLs) regulate many developmental processes, including shoot-branching/tillering, and mediate rhizospheric interactions. SLs originate from carlactone (CL) and are structurally diverse, divided into a canonical and a noncanonical subfamily. Rice contains two canonical SLs, 4-deoxyorobanchol (4DO) and orobanchol (Oro), which are common in different plant species. The cytochrome P450 OsMAX1-900 forms 4DO from CL through repeated oxygenation and ring closure, while the homologous enzyme OsMAX1-1400 hydroxylates 4DO into Oro. To better understand the biological function of 4DO and Oro, we generated CRISPR/Cas9 mutants disrupted in OsMAX1-1400 or in both OsMAX1-900 and OsMAX1-1400. The loss of OsMAX1-1400 activity led to a complete lack of Oro and an accumulation of its precursor 4DO. Moreover, Os1400 mutants showed shorter plant height, panicle and panicle base length, but no tillering phenotype. Hormone quantification and transcriptome analysis of Os1400 mutants revealed elevated auxin levels and changes in the expression of auxin-related, as well as of SL biosynthetic genes. Interestingly, the Os900/1400 double mutant lacking both Oro and 4DO did not show the observed Os1400 architectural phenotypes, indicating their being a result of 4DO accumulation. Treatment of wild-type plants with 4DO confirmed this assumption. A comparison of the Striga seed germinating activity and the mycorrhization of Os900, Os900/1400, and Os1400 loss-of-function mutants demonstrated that the germination activity positively correlates with 4DO content while disrupting OsMAX1-1400 has a negative impact on mycorrhizal symbiosis. Taken together, our paper deciphers the biological function of canonical SLs in rice and reveals their particular contributions to establishing architecture and rhizospheric communications. [ABSTRACT FROM AUTHOR]

Published
2023
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20. The Arabidopsis D27‐LIKE1 is a cis / cis / trans ‐β‐carotene isomerase that contributes to Strigolactone biosynthesis and negatively impacts ABA level

Author

Yang, Yu, primary, Abuauf, Haneen, additional, Song, Shanshan, additional, Wang, Jian You, additional, Alagoz, Yagiz, additional, Moreno, Juan C., additional, Mi, Jianing, additional, Ablazov, Abdugaffor, additional, Jamil, Muhammad, additional, Ali, Shawkat, additional, Zheng, Xiongjie, additional, Balakrishna, Aparna, additional, Blilou, Ikram, additional, and Al‐Babili, Salim, additional

Published
2023
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24. ZAXINONE SYNTHASE 2 regulates growth and arbuscular mycorrhizal symbiosis in rice

Author

Ablazov, Abdugaffor, primary, Votta, Cristina, additional, Fiorilli, Valentina, additional, Wang, Jian You, additional, Aljedaani, Fatimah, additional, Jamil, Muhammad, additional, Balakrishna, Aparna, additional, Balestrini, Raffaella, additional, Liew, Kit Xi, additional, Rajan, Chakravarthy, additional, Berqdar, Lamis, additional, Blilou, Ikram, additional, Lanfranco, Luisa, additional, and Al-Babili, Salim, additional

Published
2022
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26. Analysis of the Arabidopsiscoilinmutant reveals a positive role of AtCOILIN in plant immunity

Author

Abulfaraj, Aala A, primary, Alhoraibi, Hanna M, additional, Mariappan, Kiruthiga, additional, Bigeard, Jean, additional, Zhang, Huoming, additional, Almeida-Trapp, Marilia, additional, Artyukh, Olga, additional, Abdulhakim, Fatimah, additional, Parween, Sabiha, additional, Pflieger, Delphine, additional, Blilou, Ikram, additional, Hirt, Heribert, additional, and Rayapuram, Naganand, additional

Published
2022
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28. A PLETHORA/PIN-FORMED/auxin network mediates prehaustorium formation in the parasitic plant Striga hermonthica

Author

Xiao, Ting Ting, Kirschner, Gwendolyn K., Kountche, Boubacar A., Jamil, Muhammad, Maria, Savina, Lube, Vinicius, Mironova, Victoria, Babili, Salim Al, Blilou, Ikram, Xiao, Ting Ting, Kirschner, Gwendolyn K., Kountche, Boubacar A., Jamil, Muhammad, Maria, Savina, Lube, Vinicius, Mironova, Victoria, Babili, Salim Al, and Blilou, Ikram

Abstract

07 juni 2022, Contains fulltext : 252378.pdf (Publisher’s version ) (Open Access)

Published
2022

29. The Arabidopsis D27‐LIKE1 is a cis/cis/trans‐β‐carotene isomerase that contributes to Strigolactone biosynthesis and negatively impacts ABA level.

Author

Yang, Yu, Abuauf, Haneen, Song, Shanshan, Wang, Jian You, Alagoz, Yagiz, Moreno, Juan C., Mi, Jianing, Ablazov, Abdugaffor, Jamil, Muhammad, Ali, Shawkat, Zheng, Xiongjie, Balakrishna, Aparna, Blilou, Ikram, and Al‐Babili, Salim

Subjects
ISOMERASES, ABSCISIC acid, CAROTENES, BIOSYNTHESIS, PLANT hormones, ARABIDOPSIS, STRIGOLACTONES
Abstract

SUMMARY: The enzyme DWARF27 (D27) catalyzes the reversible isomerization of all‐trans‐ into 9‐cis‐β‐carotene, initiating strigolactone (SL) biosynthesis. Genomes of higher plants encode two D27‐homologs, D27‐like1 and ‐like2, with unknown functions. Here, we investigated the enzymatic activity and biological function of the Arabidopsis D27‐like1. In vitro enzymatic assays and expression in Synechocystis sp. PCC6803 revealed an unreported 13‐cis/15‐cis/9‐cis‐ and a 9‐cis/all‐trans‐β‐carotene isomerization. Although disruption of AtD27‐like1 did not cause SL deficiency phenotypes, overexpression of AtD27‐like1 in the d27 mutant restored the more‐branching phenotype, indicating a contribution of AtD27‐like1 to SL biosynthesis. Accordingly, generated d27 d27like1 double mutants showed a more pronounced branching phenotype compared to d27. The contribution of AtD27‐like1 to SL biosynthesis is likely a result of its formation of 9‐cis‐β‐carotene that was present at higher levels in AtD27‐like1 overexpressing lines. By contrast, AtD27‐like1 expression correlated negatively with the content of 9‐cis‐violaxanthin, a precursor of ABA, in shoots. Consistently, ABA levels were higher in shoots and also in dry seeds of the d27like1 and d27 d27like1 mutants. Transgenic lines expressing GUS driven by the AtD27LIKE1 promoter and transcript analysis of hormone‐treated Arabidopsis seedlings revealed that AtD27LIKE1 is expressed in different tissues and affects ABA and auxin. Taken together, our work reports a cis/cis‐β‐carotene isomerase that affects the content of both cis‐carotenoid‐derived plant hormones, ABA and SLs. Significance Statement: AtD27LIKE1 is involved in the biosynthesis of the two carotenoid‐derived plant hormones ABA and strigolactones (SLs), by feeding SL biosynthesis at the same time as negatively impacting ABA content. [ABSTRACT FROM AUTHOR]

Published
2023
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32. RETINOBLASTOMA RELATED (RBR) interaction with key factors of the RNA-directed DNA methylation (RdDM) pathway

Author

León-Ruiz Jesús, Espinal-Centeno Annie, Blilou Ikram, Scheres Ben, Arteaga-Vázquez Mario, and Cruz-Ramírez Alfredo

Abstract

SummaryTransposable elements and other repetitive elements are silenced by the RNA-directed DNA methylation pathway (RdDM). In RdDM, POLIV-derived transcripts are converted into double stranded RNA (dsRNA) by the activity of RDR2 and subsequently processed into 24 nucleotide short interfering RNAs (24 -nt siRNAs) by DCL3. 24-nt siRNAs are recruited by AGO4 and serve as guides to direct AGO4 - siRNA complexes to chromatin bound POLV-derived transcripts generated from the template/target DNA. The interaction between POLV, AGO4, DMS3, DRD1, RDM1 and DRM2 promotes DRM2-mediated de novo DNA methylation.The Arabidopsis Retinoblastoma protein homolog is a master regulator of cell cycle, stem cell maintenance and development. In silico exploration of RBR protein partners revealed that several members of the RdDM pathway contain a motif that confers high affinity binding to RBR, including the largest subunits of POLIV and POLV (NRPD1 and NRPE1), the shared second largest subunit of POLIV and POLV (NRPD/E2), RDR1, RDR2, DCL3, DRM2 and SUVR2. We demonstrate that RBR binds to DRM2, DRD1 and SUVR2. We also report that seedlings from loss -of-function mutants in RdDM and in RBR show similar phenotypes in the root apical meristem. Furthermore, we show that RdDM and SUVR2 targets are up-regulated in the 35S::AmiGO-RBR background.Our results suggest a novel mechanism for RBR function in transcriptional gene silencing based on the interaction with key players of the RdDM pathway and opens several new hypotheses, including the convergence of RBR-DRM2 on the transcriptional control of TEs and several cell/tissue and stage -specific target genes.

Published
2022

35. The genome of single-petal jasmine (Jasminum sambac) provides insights into heat stress tolerance and aroma compound biosynthesis.

Author

Xiangyu Qi, Huadi Wang, Shuangshuang Chen, Jing Feng, Huijie Chen, Ziyi Qin, Blilou, Ikram, and Yanming Deng

Subjects
JASMINE, BIOSYNTHESIS, GENOMES, GENOMICS, OLIVE, CULTIVARS
Abstract

Jasmine [Jasminum sambac (L.) Aiton] is a commercially important cultivated plant species known for its fragrant flowers used in the perfume industry, medicine and cosmetics. In the present study, we obtained a draft genome for the J. sambac cultivar 'Danbanmoli' (JSDB, a single-petal phenotype). We showed that the final genome of J. sambac was 520.80 Mb in size (contig N50 = 145.43 kb; scaffold N50 = 145.53 kb) and comprised 35,363 genes. Our analyses revealed that the J. sambac genome has undergone only an ancient whole-genome duplication (WGD) event. We estimated that the lineage that has given rise to J. sambac diverged from the lineage leading to Osmanthus fragrans and Olea europaea approximately 31.1 million years ago (Mya). On the basis of a combination of genomic and transcriptomic analyses, we identified 92 transcription factors (TFs) and 206 genes related to heat stress response. Base on a combination of genomic, transcriptomic and metabolomic analyses, a range of aroma compounds and genes involved in the benzenoid/ phenylpropanoid and terpenoid biosynthesis pathways were identified. In the newly assembled J. sambac genome, we identified a total of 122 MYB, 122 bHLH and 69 WRKY genes. Our assembled J. sambac JSDB genome provides fundamental knowledge to study the molecular mechanism of heat stress tolerance, and improve jasmine flowers and dissect its fragrance. [ABSTRACT FROM AUTHOR]

Published
2022
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