Nucleus is the structure where Eukaryotes store their genetic material while nucleoid is the place where Prokaryotes store their genetic material.
• Nucleus is large and well organized, whereas nucleoid is small and poorly organized.
• Nucleus is surrounded by a double layered membrane called “nuclear membrane” and separates from other cell organelles. Such membrane cannot be found in nucleoid.
• Nucleus contains many chromosomes while nucleoid generally has only one circular DNA molecule.
• Nucleolus and nucloeplasm are present inside the nucleus, whereas they are absent in nucleiod.