Methods and compositions for the production of monocot plants with increased starch content in stems are provided. In accordance with the invention, novel promoters and regulatory elements with specific temporal and spatial expression patterns are disclosed together with methods for the production of plants having desirable stem composition at harvest.

A method for editing a plant genome includes coating a microparticle with at least one type of nucleic acid and/or at least one type of protein, introducing a deletion, insertion, or substitution into a target site in the genome of a plant by bombarding a shoot apex of the plant with the coated microparticle using a gene gun, growing the shoot apex bombarded with the coated microparticle to obtain a plant body, and selecting a genome-edited plant body from the plant body. The shoot apex of the plant is selected from the group consisting of a shoot apex of an embryo of a fully mature seed, a shoot apex of a young bud of a tuber, and a shoot apex of a terminal bud or a lateral bud.

A method to transforming a plant includes coating a microparticle having a diameter of 0.3 to 0.9 m with at least one type of nucleic acid, bombarding a shoot apex of the plant with the coated microparticle using a gene gun, growing the shoot apex bombarded with the coated microparticle to obtain a plant body, and selecting a transformed plant body from the plant body. The shoot apex is selected from the group consisting of a shoot apex of an embryo of a fully mature seed, a shoot apex of a young bud of a tuber, and a shoot apex of a terminal bud or a lateral bud.

The invention provides methods of engineering plants having lignin deposition or xylan deposition that is substantially localized to the vessels of xylem tissue in the plant. The invention also provides methods of engineering plants to increase production of a desired biosynthetic product, e.g., to have increased secondary cell wall deposition or increased wax/cutin accumulation. The engineered plants of the present invention have use in bioenergy production, e.g., by improving the density and the digestibility of biomass derived from the plant and to improve water usage requirements.

Provided are isolated polypeptides comprising the amino acid sequence at least 80% homologous to SEQ ID NO:68, 51-66, 69-100, 379-656, 707-715, 720-723, 742-754, 764-771 or 772 with the proviso that the amino acid sequence is not as set forth by SEQ ID NO: 765 or 771, isolated polynucleotides comprising the nucleic acid sequence at least 80% identical to SEQ ID NOs:18, 1-16, 19-50, 101-378, 657-672, 674-706, 716-719, 724-741 and 755-763 with the proviso that the nucleic acid sequence is not as set forth by SEQ ID NO:756 or 762, and isolated polynucleotides selected from the group consisting of SEQ ID NOs:779-792 and methods of using same for increasing oil content, yield, growth rate, biomass, vigor, abiotic stress tolerance and/or nitrogen use efficiency of a plant.

Disclosed herein are methods of altering tissue succulence in plants. In some examples, a disclosed method includes overexpressing a modified helix-loop-helix transcription factor CEB1 in a plant cell, thereby altering plant succulence. The disclosed methods can be used to improve the drought and salinity tolerance of plants, such as in plants in arid or saline environments, and also enhance the ability of plants to perform. Also disclosed are CEB1 nucleic acids and transgenic plants containing such nucleic acids.

The present invention is directed to promoter sequences and promoter control elements, polynucleotide constructs comprising the promoters and control elements, and methods of identifying the promoters, control elements, or fragments thereof. The invention further relates to the use of the present promoters or promoter control elements to modulate transcript levels.

The disclosure describes promoter sequences, specifically S-Adenosyl-Homocysteine Hydrolase promoter sequences from maize and sorghum, which are useful for expression of transgenes in plants. The disclosure further describes isolated polynucleotides, recombinant DNA constructs, transformed host cells, transgenic plants and transgenic seeds, and corresponding methods of use of the promoter sequences.

Expression vectors and expression cassettes containing a tissue specific 5 transcription regulatory element, optionally linked to a translation regulatory element, optionally linked to an intron transcription regulatory element, operably linked to a heterologous polynucleotide encoding a protein or RNA of interest are described. The 5 transcription regulatory elements control expression in root tissue cells, phloem tissue cells, or fruit and/or abscission zone tissue cells. These sequences are obtained from citrus plants. Methods of use of these expression vectors and expression cassettes are described, as well as genetically altered plants and parts thereof that contain these expression vectors and/or cassettes.

This invention relates to methods and compositions for providing a benefit to a plant by associating the plant with a beneficial endophyte of the genus Penicillium, including benefits to a plant derived from a seed or other plant element treated with said endophyte. For example, this invention provides purified endophytes, synthetic combinations comprising endophytes, and methods of making and using the same. In particular, this invention relates to compositions and methods of improving soybean and maize plants.