He studied the botany of the Great Miami River, publishing in 1878 the Flora of the Miami River, Ohio; Morgan also showed particular interest in mycology and bryology.
Morgan was a mentor to the prominent American mycologist Curtis Gates Lloyd.
[1] Lloyds portion of the correspondence is stored in the Ada Hayden Herbarium at Iowa state university.
Morgans collection of preserved fungi can also be found at the Ada Hayden Herbarium along with Laura Morgans gouache illustrations of fungi that could not be preserved.
Morgan married scientific illustrator and collector Laura Matilda Vail in 1870.