In my role as senior technical specialist at Biotage I am often asked about compound detection options. For most flash chromatography methods, UV is the default detection tool since many compounds do absorb some UV light.
Diode array UV detectors provide chemists choices in wavelength selection providing the ability to widen or narrow the wavelength range needed to detect specific compounds and enhance their sensitivity.
When diode array detectors don’t work it is because the compounds have no chromophore, e.g. carbohydrates, low extinction coefficients, exist in really low concentrations, or any combination of these. In these situations, alternative detectors are quite beneficial. In this post I will discuss a couple of detector options for flash chromatography.
Variable wavelength and selectable wavelength UV detectors were introduced later and improved compound detection range and sensitivity. Tunable diode array detectors further expanded the range of detectable compounds and sensitivity enabling fractionation of many previously "invisible" compounds – a major advancement in flash chromatography, Figure 1.
When flash chromatography started several decades ago, elution methods were primarily isocratic and fraction collection was time- or volume-based (using column volumes). In-line UV detectors (monochromatic, 254 nm) were introduced with the advent of automated flash chromatography and helped to determine which fractions contained a UV-absorbing compound, as many pharmaceutical-like compounds do.
However, there are limitations with UV that require other detection techniques. Currently, two alternative detectors are used for non- and poorly-absorbing compounds and include in-line evaporative light scattering (ELSD) and in-line mass detection (MS). These detectors “see” compounds otherwise invisible to UV, a real benefit to both organic synthesis and natural product chemists.
ELS and mass detectors excel when all sample compounds are UV transparent and when there are a mixture of UV and non-UV absorbing compounds in the crude mixture. The latter is more common than most chemists realize.
During some recent training exercises for some new employees, they synthesized a quinazolinone using a Biotage® Initiator+ microwave system, Figure 2.
When the reaction finished, TLC with UV detection (254 nm) showed the presence of several compounds, which is not uncommon for organic reactions. The reaction mixture was then purified using flash chromatography with diode array detection and six UV absorbing compounds were seen, Figure 3.
However, when the mix was re-purified using diode array UV with mass identification, it became apparent that more than five by-products are present, Figure 4.
A deeper dive into the data reveals the presence of 14 compounds, Figure 5.
For more edification, Figure 6 shows three mass spectrum analysis for the same run which identify masses not originally targeted.
So, it is my opinion that unless your synthesis is really straightforward and clean that relying on UV alone may not provide the purity levels you desire. For absolute certainty on the number of by-products in your reaction mixture (and your product's real purity), I suggest incorporating a mass detector with your flash system.
If you want to learn more about flash chromatography and how to be green in your lab, check out my latest webinar here: