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Collani, Silvio
Publications (6 of 6) Show all publications
Collani, S., Neumann, M., Yant, L. & Schmid, M. (2019). FT Modulates Genome-Wide DNA-Binding of the bZIP Transcription Factor FD. Plant Physiology, 180(1), 367-380
Open this publication in new window or tab >>FT Modulates Genome-Wide DNA-Binding of the bZIP Transcription Factor FD
2019 (English)In: Plant Physiology, ISSN 0032-0889, E-ISSN 1532-2548, Vol. 180, no 1, p. 367-380Article in journal (Refereed) Published
Abstract [en]

The transition to flowering is a crucial step in the plant life cycle that is controlled by multiple endogenous and environmental cues, including hormones, sugars, temperature, and photoperiod. Permissive photoperiod induces the expression of FLOWERING LOCUS T (FT) in the phloem companion cells of leaves. The FT protein then acts as a florigen that is transported to the shoot apical meristem, where it physically interacts with the Basic Leucine Zipper Domain transcription factor FD and 14-3-3 proteins. However, despite the importance of FD in promoting flowering, its direct transcriptional targets are largely unknown. Here, we combined chromatin immunoprecipitation sequencing and RNA sequencing to identify targets of FD at the genome scale and assessed the contribution of FT to DNA binding. We further investigated the ability of FD to form protein complexes with FT and TERMINAL FLOWER1 through interaction with 14-3-3 proteins. Importantly, we observed direct binding of FD to targets involved in several aspects of plant development. These target genes were previously unknown to be directly related to the regulation of flowering time. Our results confirm FD as a central regulator of floral transition at the shoot meristem and provide evidence for crosstalk between the regulation of flowering and other signaling pathways, such as pathways involved in hormone signaling.

Place, publisher, year, edition, pages
American Society of Plant Biologists, 2019
National Category
Botany
Identifiers
urn:nbn:se:umu:diva-159400 (URN)10.1104/pp.18.01505 (DOI)000466860800033 ()30770462 (PubMedID)
Available from: 2019-06-10 Created: 2019-06-10 Last updated: 2019-06-10Bibliographically approved
Alagna, F., Caceres, M. E., Pandolfi, S., Collani, S., Mousavi, S., Mariotti, R., . . . Barcaccia, G. (2019). The Paradox of Self-Fertile Varieties in the Context of Self-Incompatible Genotypes in Olive. Frontiers in Plant Science, 10, Article ID 725.
Open this publication in new window or tab >>The Paradox of Self-Fertile Varieties in the Context of Self-Incompatible Genotypes in Olive
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2019 (English)In: Frontiers in Plant Science, ISSN 1664-462X, E-ISSN 1664-462X, Vol. 10, article id 725Article, review/survey (Refereed) Published
Abstract [en]

Olive, representing one of the most important fruit crops of the Mediterranean area, is characterized by a general low fruit yield, due to numerous constraints, including alternate bearing, low flower viability, male-sterility, inter-incompatibility, and self-incompatibility (SI). Early efforts to clarify the genetic control of SI in olive gave conflicting results, and only recently, the genetic control of SI has been disclosed, revealing that olive possesses an unconventional homomorphic sporophytic diallelic system of SI, dissimilar from other described plants. This system, characterized by the presence of two SI groups, prevents self-fertilization and regulates inter-compatibility between cultivars, such that cultivars bearing the same incompatibility group are incompatible. Despite the presence of a functional SI, some varieties, in particular conditions, are able to set seeds following self-fertilization, a mechanism known as pseudo-self-compatibility (PSC), as widely reported in previous literature. Here, we summarize the results of previous works on SI in olive, particularly focusing on the occurrence of self-fertility, and offer a new perspective in view of the recent elucidation of the genetic architecture of the SI system in olive. Recent advances in research aimed at unraveling the molecular bases of SI and its breakdown in olive are also presented. The clarification of these mechanisms may have a huge impact on orchard management and will provide fundamental information for the future of olive breeding programs.

Place, publisher, year, edition, pages
Frontiers Media S.A., 2019
Keywords
Olea europaea L., pseudo-self-compatibility, pollen-pistil interaction, sporophytic system, self-incompatibility
National Category
Horticulture
Identifiers
urn:nbn:se:umu:diva-161585 (URN)10.3389/fpls.2019.00725 (DOI)000473047800001 ()
Available from: 2019-07-22 Created: 2019-07-22 Last updated: 2019-07-22Bibliographically approved
Speth, C., Szabo, E. X., Martinho, C., Collani, S., zur Oven-Krockhaus, S., Richter, S., . . . Laubinger, S. (2018). Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes. eLIFE, 7, Article ID e37078.
Open this publication in new window or tab >>Arabidopsis RNA processing factor SERRATE regulates the transcription of intronless genes
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2018 (English)In: eLIFE, E-ISSN 2050-084X, Vol. 7, article id e37078Article in journal (Refereed) Published
Abstract [en]

Intron splicing increases proteome complexity, promotes RNA stability, and enhances transcription. However, introns and the concomitant need for splicing extend the time required for gene expression and can cause an undesirable delay in the activation of genes. Here, we show that the plant microRNA processing factor SERRATE (SE) plays an unexpected and pivotal role in the regulation of intronless genes. Arabidopsis SE associated with more than 1000, mainly intronless, genes in a transcription-dependent manner. Chromatin-bound SE liaised with paused and elongating polymerase II complexes and promoted their association with intronless target genes. Our results indicate that stress-responsive genes contain no or few introns, which negatively affects their expression strength, but that some genes circumvent this limitation via a novel SE-dependent transcriptional activation mechanism. Transcriptome analysis of a Drosophila mutant defective in ARS2, the metazoan homologue of SE, suggests that SE/ARS2 function in regulating intronless genes might be conserved across kingdoms.

Place, publisher, year, edition, pages
Elife Sciences Publications ltd, 2018
National Category
Biochemistry and Molecular Biology
Identifiers
urn:nbn:se:umu:diva-152270 (URN)10.7554/eLife.37078 (DOI)000444379000001 ()30152752 (PubMedID)
Available from: 2018-10-03 Created: 2018-10-03 Last updated: 2018-10-03Bibliographically approved
Capovilla, G., Delhomme, N., Collani, S., Shutava, I., Bezrukov, I., Symeonidi, E., . . . Schmid, M. (2018). PORCUPINE regulates development in response to temperature through alternative splicing. Nature plants, 4(8), 534-539
Open this publication in new window or tab >>PORCUPINE regulates development in response to temperature through alternative splicing
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2018 (English)In: Nature plants, ISSN 2055-026X, Vol. 4, no 8, p. 534-539Article in journal (Refereed) Published
Abstract [en]

Recent findings suggest that alternative splicing has a critical role in controlling the responses of plants to temperature variations. However, alternative splicing factors in plants are largely uncharacterized. Here we establish the putative splice regulator, PORCUPINE (PCP), as temperature-specific regulator of development in Arabidopsis thaliana. Our findings point to the misregulation of WUSCHEL and CLAVATA3 as the possible cause for the meristem defects affecting the pcp-1 loss-of-function mutants at low temperatures.

Place, publisher, year, edition, pages
Nature Publishing Group, 2018
National Category
Biochemistry and Molecular Biology Botany
Identifiers
urn:nbn:se:umu:diva-152230 (URN)10.1038/s41477-018-0176-z (DOI)000443861300009 ()29988152 (PubMedID)
Available from: 2018-10-25 Created: 2018-10-25 Last updated: 2018-10-25Bibliographically approved
Shanks, C. M., Hecker, A., Cheng, C.-Y., Brand, L., Collani, S., Schmid, M., . . . Kieber, J. J. (2018). Role of BASIC PENTACYSTEINE transcription factors in a subset of cytokinin signaling responses. The Plant Journal, 95(3), 458-473
Open this publication in new window or tab >>Role of BASIC PENTACYSTEINE transcription factors in a subset of cytokinin signaling responses
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2018 (English)In: The Plant Journal, ISSN 0960-7412, E-ISSN 1365-313X, Vol. 95, no 3, p. 458-473Article in journal (Refereed) Published
Abstract [en]

Cytokinin plays diverse roles in plant growth and development, generally acting by modulating gene transcription in target tissues. The type-B Arabidopsis response regulators (ARR) transcription factors have emerged as primary targets of cytokinin signaling and are required for essentially all cytokinin-mediated changes in gene expression. The diversity of cytokinin function is likely imparted by the activity of various transcription factors working with the type-B ARRs to alter specific sets of target genes. One potential set of co-regulators modulating the cytokinin response are the BARLEY B-RECOMBINANT/BASIC PENTACYSTEINE (BBR/BPC) family of plant-specific transcription factors. Here, we show that disruption of multiple BPCs results in reduced sensitivity to cytokinin. Further, the BPCs are necessary for the induction of a subset of genes in response to cytokinin. We identified direct invivo targets of BPC6 using ChIP-Seq and found an enrichment of promoters of genes differentially expressed in response to cytokinin. Further, a significant number of BPC6 regulated genes are also direct targets of the type-B ARRs. Potential cis-binding elements for a number of other transcription factors linked to cytokinin action are enriched in the BPC binding fragments, including those for the cytokinin response factors (CRFs). In addition, several BPCs interact with a subset of type-A ARRs. Consistent with these results, a significant number of genes whose expression is altered in bpc mutant roots are also mis-expressed in crf1,3,5,6 and type-A arr3,4,5,6,7,8,9,15 mutant roots. These results suggest that the BPCs are part of a complex network of transcription factors that are involved in the response to cytokinin.

Place, publisher, year, edition, pages
John Wiley & Sons, 2018
Keywords
Arabidopsis thaliana, ChIP-Seq, cytokinin, phytohormones, transcription factor
National Category
Biochemistry and Molecular Biology
Identifiers
urn:nbn:se:umu:diva-150658 (URN)10.1111/tpj.13962 (DOI)000438224100006 ()29763523 (PubMedID)
Available from: 2018-08-28 Created: 2018-08-28 Last updated: 2018-08-28Bibliographically approved
Goretti, D., Martignago, D., Landini, M., Brambilla, V., Gomez-Ariza, J., Gnesutta, N., . . . Fornara, F. (2017). Transcriptional and Post-transcriptional Mechanisms Limit Heading Date 1 (Hd1) Function to Adapt Rice to High Latitudes. PLoS Genetics, 13(1), Article ID e1006530.
Open this publication in new window or tab >>Transcriptional and Post-transcriptional Mechanisms Limit Heading Date 1 (Hd1) Function to Adapt Rice to High Latitudes
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2017 (English)In: PLoS Genetics, ISSN 1553-7390, E-ISSN 1553-7404, Vol. 13, no 1, article id e1006530Article in journal (Refereed) Published
Abstract [en]

Rice flowering is controlled by changes in the photoperiod that promote the transition to the reproductive phase as days become shorter. Natural genetic variation for flowering time has been largely documented and has been instrumental to define the genetics of the photoperiodic pathway, as well as providing valuable material for artificial selection of varieties better adapted to local environments. We mined genetic variation in a collection of rice varieties highly adapted to European regions and isolated distinct variants of the long day repressor HEADING DATE 1 (Hd1) that perturb its expression or protein function. Specific variants allowed us to define novel features of the photoperiodic flowering pathway. We demonstrate that a histone fold domain scaffold formed by GRAIN YIELD, PLANT HEIGHT AND HEADING DATE 8 (Ghd8) and several NF-YC subunits can accommodate distinct proteins, including Hd1 and PSEUDO RESPONSE REGULATOR 37 (PRR37), and that the resulting OsNF-Y complex containing Hd1 can bind a specific sequence in the promoter of HEADING DATE 3A (Hd3a). Artificial selection has locally favored an Hd1 variant unable to assemble in such heterotrimeric complex. The causal polymorphism was defined as a single conserved lysine in the CCT domain of the Hd1 protein. Our results indicate how genetic variation can be stratified and explored at multiple levels, and how its description can contribute to the molecular understanding of basic developmental processes.

Place, publisher, year, edition, pages
PUBLIC LIBRARY SCIENCE, 2017
National Category
Genetics
Identifiers
urn:nbn:se:umu:diva-132845 (URN)10.1371/journal.pgen.1006530 (DOI)000394147700012 ()28068345 (PubMedID)
Available from: 2017-04-04 Created: 2017-04-04 Last updated: 2018-06-09Bibliographically approved
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