PFAS LC Column Anatomy: Which Phase, Dimensions, and Particle Type Are Best?

If you work in one of the many labs routinely testing samples for per- and polyfluoroalkyl substances (PFAS), you know that awareness and interest are growing as we continue to better understand the pervasiveness, persistence, and potential health risks associated with these “forever chemicals.” As interest grows, the need for fast, accurate, and precise testing is growing with it. This demand is driving the development of better methods, and LC column selection is the foundation for building an improved approach. Here, we’ll examine the properties that are important to consider when choosing an LC column for PFAS analysis.

Column Phase Selection

The first decision to make when determining which PFAS LC column to use is identifying an effective stationary phase. In our scouting of different phase chemistries for the analysis of short-chain PFAS (C4-C6) and above, the C18 phase proved to be the best choice. As the alkyl chain on PFAS molecules gets longer, the interactions between those chains and the C18 ligand increase, providing a great mechanism for retention and resolution. Retention is strong enough that a relatively short and narrow column can be used to quickly and effectively resolve target analytes. The example in Figure 1 shows that a 50 x 2.1 mm Raptor C18 column easily elutes and separates the compounds of interest while meeting all of EPA 537.1 method criteria for drinking water testing in less than 8 minutes (10 minute total analysis time).

Figure 1: A 50 x 2.1 mm Raptor C18 column is a great PFAS LC column choice; it meets all EPA 537.1 method criteria in a fast 10-minute total cycle time.

PeakstR (min)Conc.
Precursor IonProduct Ion
1.Perfluorobutanesulfonic acid (PFBS)2.0610298.879.9
2.Perfluoro-n-[1,2-13C2]hexanoic acid (13C2-PFHxA)3.035314.9270.0
3.Perfluorohexanoic acid (PFHxA)3.045312.9268.7
4.Tetrafluoro-2-heptafluoropropoxy-13C3-propanoic acid (13C3-HFPO-DA)3.365286.8168.7
5.Hexafluoropropylene oxide dimer acid (HFPO-DA)3.385285.0168.9
6.Perfluoroheptanoic acid (PFHpA)4.095362.8318.8
7.Perfluorohexanesulfonic acid (PFHxS)4.2210398.879.9
8.4,8-Dioxa-3H-perfluorononanoic acid (ADONA)4.245376.9250.7
9.Perfluoro-[1,2-13C2]octanoic acid (13C2-PFOA)4.885415.0370.0
10.Perfluorooctanoic acid (PFOA)4.905413.1368.9
11.Perfluorononanoic acid (PFNA)5.545462.9418.9
12.Perfluoro-1-[1,2,3,4-13C4]octanesulfonic acid (13C4-PFOS)5.5710503.080.0
13.Perfluorooctanesulfonic acid (PFOS)5.5810498.980.0
14.9-Chlorohexadecafluoro-3-oxanone-1-sulfonic acid (9Cl-PF3ONS)5.885530.8350.7
15.Perfluoro-n-[1,2-13C2]decanoic acid (13C2-PFDA)6.085514.9469.9
16.Perfluorodecanoic acid (PFDA)6.085512.9469.0
17.N-deuteriomethylperfluoro-1-octanesulfonamidoacetic acid (d3-NMeFOSAA)6.2810572.9418.8
18.N-methyl perfluorooctanesulfonamidoacetic acid (NMeFOSAA)6.3010569.8418.8
19.N-deuterioethylperfluoro-1-octanesulfonamidoacetic acid (d5-NEtFOSAA)6.5110588.9418.8
20.N-ethyl perfluorooctanesulfonamidoacetic acid (NEtFOSAA)6.5210583.8418.8
21.Perfluoroundecanoic acid (PFUnA)6.555562.9518.8
22.11-chloroeicosafluoro-3-oxaundecane-1-sulfonic acid (11Cl-PF3OUdS)6.775630.7451.0
23.Perfluorododecanoic acid (PFDoA)6.955612.7568.9
24.Perfluorotridecanoic acid (PFTrDA)7.305662.7618.8
25.Perfluorotetradecanoic acid (PFTA)7.605712.7668.7
EPA Method 537.1 on Raptor C18
ColumnRaptor C18 (cat.# 9304A52)
Dimensions:50 mm x 2.1 mm ID
Particle Size:2.7 µm
Pore Size:90 Å
Temp.:40 °C
Diluent:96:4 Methanol:water
Conc.:5-10 ng/mL
Inj. Vol.:2 µL
Mobile Phase
A:Water, 5 mM ammonium acetate
Time (min)Flow (mL/min)%A%B
Ion Mode:ESI-

When C8 PFAS were banned, other compounds with shorter alkyl chains were commercially adopted, and as the list of PFAS of interest grows, compounds with chains shorter than 4 carbons or ultrashort-chain (C2 and C3) are getting more attention. As the length of the carbon chain decreases, the influence of the polar head increases, ultimately decreasing retention on a C18 column, which has a retention mechanism based primarily on hydrophobic interaction.

For C3 PFAS compounds like perfluoropropanoic acid (PFPrA) and perfluoropropanesulfonic acid (PFPrS), a C18 phase will still work when appropriate column dimensions are selected. In Figure 2, for example, a 100 x 3 mm Raptor C18 shows great performance, easily incorporating ultrashort-chain PFAS compounds into a quick 11-minute analysis.

Figure 2: The Raptor C18 stationary phase will also effectively separate short-chain PFAS, but column dimensions must be increased to ensure adequate retention.

PeakstR (min)Conc.
Precursor IonProduct Ion
1.Perfluoropropanoic acid (PFPrA)2.7480162.9119.0
2.Perfluorobutanoic acid (PFBA)4.6980212.8169.0
3.Perfluoropropanesulfonic acid (PFPrS)5.1380248.879.6
4.Perfluorobutanesulfonic acid (PFBS)6.1480298.879.9
5.Perfluoro-n-[1,2-13C2]hexanoic acid (13C2-PFHxA)6.7550314.9270.0
6.Hexafluoropropylene oxide-dimer acid (HFPO-DA)6.9280285.0168.9
7.Ammonium 4,8-dioxa-3H-perfluorononanoate (ADONA)7.3380376.9250.7
8.Perfluorooctanoic acid (PFOA)7.7080413.1368.9
9.Perfluoro-[1,2-13C2]octanoic acid (13C2-PFOA)7.7050415.0370.0
10.Perfluorooctanesulfonic acid (PFOS)8.0180498.880.0
11.Perfluoro-[1,2,3,4-13C4]octanesulfonic acid (13C4-PFOS)8.0150503.080.0
12.9-Chlorohexadecafluoro-3-oxanonane-1-sulfonate (9Cl-PF3ONS)8.1580530.8350.7
13.11-Chloroeicosafluoro-3-oxanonane-1-sulfonate (11Cl-PF3OUdS)8.6180630.7451.0
Ultra-short Chain, Legacy, and Alternative PFAS on Raptor C18 in Reagent Water
ColumnRaptor C18 (cat.# 9304A1E)
Dimensions:100 mm x 3 mm ID
Particle Size:2.7 µm
Pore Size:90 Å
Temp.:40 °C
Conc.:80 ppt
Inj. Vol.:10 µL
Mobile Phase
A:Water, 5 mM ammonium acetate
Time (min)Flow (mL/min)%A%B
Ion Mode:ESI-
NotesA PFAS delay column (cat.# 27854) was installed between the pump mixer and the injector.

In a polypropylene vial, 250 µL of reagent water (fortified at 80 ppt) was mixed with 250 µL of 40:60 reagent water:methanol and 5 µL of internal standard solution (5 ng/mL of 13C2-PFHxA, 13C2-PFOA, 13C4-PFOS in methanol). The vial was capped with a polyethylene cap prior to analysis.

If C2 PFAS (e.g., trifluoroacetic acid) eventually make it on a list of monitored compounds, an alternate phase chemistry that targets the polar moiety of a PFAS molecule will likely be required.

Column Particle Size and Particle Type Selection

In addition to phase chemistry and column dimensions, choices about particle size and type have to be made. Ultimately, a 2.7 µm superficially porous particle (SPP), such as those used in Raptor columns, is the most versatile choice. PFAS LC columns made with these particles produce efficient chromatography that rivals the sub-2 µm fully-porous particles (FPP) without the associated ultra-high pressure, which allows labs using either UHPLC or HPLC instruments to obtain fast, efficient analyses.

However, choice in particle size and type will have a greater or lesser effect depending on your instrument setup. For instance, labs operating traditional HPLC instruments and regularly using 5 µm FPP columns may be surprised at the improvement an SPP column can offer, regardless of the particle size. With SPP columns, you could easily see improvements in chromatographic efficiency and better peak shapes while still operating in the pressure region of most HPLC instruments. Faster runs with the same equipment are a winning combination for many labs interested in increasing sample throughput without the capital expense of a UHPLC instrument.

For those labs already using UHPLC instruments, the choice of particle size, especially for SPP-packed columns, makes less of a difference in efficiency and analysis speed. Figure 3 illustrates the effect of particle size using three Raptor SPP columns and a panel of PFAS on a UHPLC system. Even though the peaks are narrowest for the 1.8 µm particle column, as dictated by general chromatographic principles, the difference in observed efficiency of 5 µm and 1.8 µm columns was not significant. However, the difference in the back pressure generated while achieving those very similar results is significant, with pressures being in the range of traditional HPLC instruments for the 5 and 2.7 µm particle columns. Using a PFAS LC column packed with these particles, you can get UHPLC performance without UHPLC pressure.

Figure 3: For SPP columns, similar chromatographic performance can be obtained with different particle sizes, but choosing 2.7 or 5 µm particle columns keeps back pressure within the limits of traditional HPLC systems. (All columns are 50 mm x 2.1 mm.)

1.8 µm Raptor C18
6500–8000 psi
View peak list and conditions

Perfluorinated Compounds (PFCs) on Raptor C18 (1.8 μm)

2.7 µm Raptor C18
4000–5500 psi
View peak list and conditions

Perfluorinated Compounds (PFCs) on Raptor C18 2.7 μm

5 µm Raptor C18
2000–3500 psi
View peak list and conditions

Perfluorinated Compounds (PFCs) on Raptor C18 (5 μm)

When it comes to generating the most efficiency—which often translates into fast run times—while keeping instrument back pressure as low as possible, a PFAS LC column containing SPP particles is the clear winner. However, many labs that have a long history using FPP columns and may prefer to continue using them. The good news is that an FPP column can be used to successfully analyze PFAS as well. The higher surface area and carbon load in an FPP column, such as a Force C18 column, results in increased chromatographic retention compared to an SPP column (Raptor C18) of similar particle size (Figure 4).

Figure 4: If an FPP column is preferred, Force C18 columns provide effective separations for PFAS analysis. (All columns are 50 mm x 2.1 mm.)

1.8 µm Raptor C18
6500–8000 psi
View peak list and conditions

Perfluorinated Compounds (PFCs) on Raptor C18 (1.8 μm)

1.8 µm Force C18
7550–9250 psi
View peak list and conditions

Perfluorinated Compounds (PFCs) on Force C18 (1.8 μm)


When choosing a PFAS LC column, a 2.7 µm Raptor C18 SPP column is a versatile choice that provides excellent resolution, short run times, and compatibility with both UHPLC and HPLC instruments. And for trace-level analysis, it can be paired with a PFAS delay column to eliminate instrument-related, background PFAS contaminants that can coelute with sample analytes, causing false positives or elevated responses. To find out more about this companion product and how to use it, explore this related article.

Restek Domestic Customer Service



Your Full Name

Your Email

Company Name


Spam Block (Please leave this blank)
Drag and Drop Attachments Here (optional)

all fields required

Thank you

Your message has been sent. We will be in touch shortly.

Message not sent

Sorry, your message could not be sent at this time. Please try again later, or contact Restek or your local Restek representative via phone.