Methods for producing genetic modifications in a plant genome without incorporating a selectable transgene marker, and compositions thereof

A method for introducing a polynucleotide of interest into a plant genome without introducing an exogenous selectable marker into said plant genome, the method comprising providing a first guide RNA, a first polynucleotide modification template, a second guide RNA, a second polynucleotide modification template, and a Cas endonuclease to a plant cell comprising a first endogenous gene comprises an enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene, wherein said first guide RNA and Cas endonuclease are capable of forming a first complex that enables the Cas endonuclease to introduce a double strand break at a first target site located in or near said first endogenous gene in the genome of said plant cell, wherein said first polynucleotide modification template causes a deletion of the native promoter of the first endogenous gene with the insertion of a heterologous promoter and at least one nucleotide modification of said first endogenous gene to render said first endogenous gene capable of conferring herbicide resistance to a plant cell, wherein said second guide RNA and Cas endonuclease are capable of forming a second complex that enables the Cas endonuclease to introduce a double strand break at a second target site in the genome of said plant cell, wherein said second polynucleotide modification template comprises at least one polynucleotide of interest to be introduced into said plant genome, wherein the first target site and the second target site are located at two different genomic loci.