Most people extract the medium with a polar organic solvent like ethyl acetate or ethyl ether. See “Rhodotorulic acid, a diketopiperazine dihydroxamic acid with growth-factor activity. I. Isolation and characterization”, Curtis L. Atkin and J. B. Neilands, Biochemistry, 1968, 7 (10), pp 3734–3739 DOI: 10.1021/bi00850a054 or see the attached.