The key difference between mastigomycotina and zygomycota is that mastigomycotina is a polyphyletic group of fungi that produce flagellated cells and have rhizoids while zygomycota is a division of fungi that produce characteristic resistant spherical spores called zygospores during the sexual reproduction.
Fungi are filamentous eukaryotic organisms belonging to Kingdom Fungi. They produce both sexual and asexual spores. They can be saprophytes or parasites. There are different types of fungal groups. The major groups are mastigomycotina, zygomycota, ascomycota, basidiomycota and deuteromycota. Mastigomycotina consists of zoosporic fungi in which many are solely aquatic. Zygomycota fungi are conjugative fungi that produce characteristic zygospores. Ascomycota fungi are sac fungi that produce a sac-like structure called ascus. Basidiomycota fungi produce a club-shaped structure called a basidium. Deuteromycota fungi are fungi imperfecti, meaning that they have only the asexual or mycelial state.