John Alsop Paine, Jr. (January 14, 1840 – July 24, 1912) was a Presbyterian minister, botanist, cartographer, professor of natural history and German, archaeologist, and editor.

After his ordination, from 1867 to 1869 he was a professor of natural science at the Christian missionary institution Robert College in Istanbul.

[4] From 1870 to 1871 Paine taught natural history and German at Lake Forest University in Illinois.

[2] From 1872 to 1874 he was an archaeologist and naturalist with the American Palestine Exploration Society working in the Vilayet of Syria in the region immediately to the east of the Jordan River and the Dead Sea.

He married the widow Emma Sophia Newton née Gillette in Gloversville, New York in October 1877.