Abstract: Described herein are methods of introducing variation into plants. Also described herein are methods of producing a plant and/or seed, methods of breeding plants, methods of generating a commercially relevant trait or allele in a plant, and methods of generating a plant and/or seed library. Products produced from such methods (e.g., plants and/or seeds) are also described herein.

Abstract: This invention relates to CRISPR-Cas nucleases codon optimized for expression in plants and nucleic acid constructs encoding base editors comprising a CRISPR-Cas nuclease and a deaminase domain, wherein the nucleic acid constructs are optimized for expression in a plant. The invention further relates to methods of modifying nucleic acids using the nucleic acid constructs.

Abstract: This invention relates to recombinant nucleic constructs comprising CRISPR-Cas effector proteins, reverse transcriptases and extended guide nucleic acids and methods of use thereof for modifying nucleic acids in plants.

Abstract: The present invention relates to novel methods for discovering traits and generating cellular systems having improved phenotypes. In particular, the present invention provides methods for the development of plants having agronomically optimized phenotypes by using targeted mutagenesis with few or no off-target effects. Targeted mutagenesis is achieved by the introduction of a base editor complex or of a STEME complex comprising an array of guide RNAs targeting a nucleic acid sequence of interest. The present invention also relates to cellular systems obtained by the methods described herein and to the use of a base editor complex or the STEME complex comprising an array of guide RNAs for generating a cellular system having an agronomically important phenotype and for identification of an agronomically important phenotype.

Abstract: Described herein are methods of modifying or editing a target nucleic acid such as methods that edit adenine to cytosine, thymine, or guanine. Compositions and systems for modifying or editing a target nucleic acid are also described. Methods, compositions and systems described herein may be used for generating allelic diversity.

Abstract: Described herein are nonnaturally occurring nucleic acids that are and/or that provide a guide nucleic acid (e.g., a guide RNA). Further described herein are methods, compositions, systems (e.g., expression systems), and RNA structures (e.g., architectures), which may increase natural guide architecture (NGA) availability for Cas9 interactions.

Abstract: Described herein are methods of modifying or editing a target nucleic acid such as methods that edit cytosine to thymine and adenine to guanine and/or methods that edit cytosine to thymine, adenine, or guanine. Compositions and systems for modifying or editing a target nucleic acid are also described. Methods, compositions and systems described herein may be used for generating allelic diversity.

Abstract: The present invention relates to methods for targeted editing in a plant, a plant cell or material, which is combined with the parallel introduction of a phenotypically selectable trait. Furthermore, methods are provided not comprising a step of introducing a transgenic selection marker sequence.

Abstract: This invention relates to recombinant nucleic constructs comprising a sequence-specific DNA binding protein, DNA-dependent DNA polymerase and a DNA encoded repair template, optionally a DNA endonuclease or wherein the sequence-specific DNA binding protein comprises DNA endonuclease activity, and methods of use thereof for modifying nucleic acids in cells and organisms

Abstract: Described herein are recruitment methods and compounds, compositions, and systems for recruitment. Also described herein are methods and compositions for template editing of genomic DNA using Agrobacterium-derived T-DNA molecules and/or proteins.

Abstract: The present invention relates to optimized systems for the genome editing of eukaryotic cells, preferably plant cells. Also provided is a plant delivery system comprising at least one Cpf1 enzyme, or a plant optimized construct encoding the same, to be synergistically combined with a Cpf1 guide RNA system. Further provided is a Cpf1 guide RNA system being flanked by a Hammerhead ribozyme sequence at the 5? end and by a plant-derived Hepatitis Delta Vims (HDV)-like ribozyme sequence at the 3? end, or being embedded within a coding or non-coding region, of a sequence encoding a frame sequence. Novel plant-derived HDV-like ribozyme sequences are also provided. Further provided are methods for improved genome editing, and the use of the various systems provided herein to obtain transformed plants, plant cells, tissues, organs, or a progeny thereof, or a plant material, modified in a targeted way even at difficult to access target sites.

Abstract: This invention relates to recombinant nucleic constructs comprising a DNA binding domain, an endonuclease and a reverse transcriptase and methods of use thereof for modifying nucleic acids in plants.

Abstract: This invention relates to CRISPR-Cas nucleases codon optimized for expression in plants and nucleic acid constructs encoding base editors comprising a CRISPR-Cas nuclease and a deaminase domain, wherein the nucleic acid constructs are optimized for expression in a plant. The invention further relates to methods of modifying nucleic acids using the nucleic acid constructs.

Abstract: This invention relates to recombinant nucleic constructs comprising Type V CRISPR-Cas effector proteins, reverse transcriptases and extended guide nucleic acids and methods of use thereof for modifying nucleic acids in plants.

Abstract: The present invention relates to the targeted regulation of gene expression and more specifically to synthetic transcription factors (STFs) comprising at least one highly target specific engineered recognition domain based on a CRISPR/Cpf1 system and further comprising at least one activation or silencing domain to modulate the expression of a gene of interest, preferably to modulate the transcription of a morphogenic gene of a eukaryote, in particular a plant. Further disclosed are methods using the STFs to enhance transformation frequencies, to optimize successful genome editing approaches, to provide haploid or double haploid organisms, and/or to provide compositions suitable for general transformation, but also for breeding purposes.

Abstract: The present invention relates to the use of CRISPR/CasX systems in plants for genome engineering, and compositions used in such methods.

Abstract: The present invention relates to improved methods for precision genome editing (GE), preferably in eukaryotic cells, and particularly to methods for GE in cells with specifically altered expression of Polymerase theta and altered characteristics of at least one further enzyme involved in a non-homologous end-joining (NHEJ) DNA repair pathway. Further provided are cellular systems and tools related to the methods provided. Specifically, methods are provided, wherein Polymerase theta and NHEJ blockage and/or GE are performed in a transient way so that the endogenous Polymerase theta and cellular NHEJ machinery is easily reactivated after a targeted edit, and/or without permanent integration of certain editing tools.

Abstract: The present invention relates to the targeted regulation of gene expression and more specifically to synthetic transcription factors (STFs) comprising at least one highly target specific engineered recognition domain and further comprising at least one activation or silencing domain to modulate the expression of a gene of interest, preferably to modulate the transcription of a morphogenic gene of a eukaryote. Further disclosed are methods using the STFs to enhance transformation frequencies, to optimize successful genome editing approaches, to provide haploid or double haploid organisms, and/or to provide compositions suitable for general transformation, but also for breeding purposes.

Abstract: The present invention relates to materials and methods for creating and maintaining a cereal plant line for the production of a hybrid cereal plant, that include for example, and not limitation, using the BLue Aleurone (BLA) system.

Abstract: Materials and methods for conferring geminivirus resistance to plants or plant cells, and particularly to materials and methods for using CRISPR/Cas or CRISPR/Cpf1 systems to confer resistance to geminiviruses. Materials and methods are described to insert sequence at a double stranded break in a geminivirus genome.