Spaniards reported finding the plants growing in Mexico in 1525, but the earliest known description is by Francisco Hernández, physician to Philip II, who was ordered to visit Mexico in 1570 to study the "natural products of that country". They were used as a source of food by the indigenous peoples, and were both gathered in the wild and cultivated. The Aztecs used them to treat epilepsy, and employed the long hollow stem of the (Dahlia imperalis) for water pipes. The indigenous peoples variously identified the plants as "Chichipatl" (Toltecs) and "Acocotle" or "Cocoxochitl" (Aztecs). From Hernandez' perception of Aztec, to Spanish, through various other translations, the word is "water cane", "water pipe", "water pipe flower", "hollow stem flower" and "cane flower". All these refer to the hollowness of the plants' stem.

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Hernandez described two varieties of dahlias (the pinwheel-like Dahlia pinnata and the huge Dahlia imperialis) as well as other medicinal plants of New Spain. Francisco Dominguez, a Hidalgo gentleman who accompanied Hernandez on part of his seven-year study, made a series of drawings to supplement the four volume report. Three of his drawings showed plants with flowers: two resembled the modern bedding dahlia, and one resembled the species Dahlia merki; all displayed a high degree of doubleness. In 1578 the manuscript, entitled Nova Plantarum, Animalium et Mineralium Mexicanorum Historia, was sent back to the Escorial in Madrid; they were not translated into Latin by Francisco Ximenes until 1615. In 1640, Francisco Cesi, President of the Academia Linei of Rome, bought the Ximenes translation, and after annotating it, published it in 1649-1651 in two volumes as Rerum Medicarum Novae Hispaniae Thesaurus Seu Nova Plantarium, Animalium et Mineraliuím Mexicanorum Historia. The original manuscripts were destroyed in a fire in the mid-1600s.