Fermentable oligo-, di- and mono-saccharides and polyols (FODMAPs) are a large group of short-chain carbohydrates that can be poorly absorbed by the small intestine. These compounds then arrive into the large intestine and can cause abdominal symptoms and disturbed stool output in many people, especially those with Irritable Bowel Syndrome (IBS). However, when FODMAPs are consumed in recommended amounts they can act on intestinal microbiota of health people increasing the growth of beneficial bacteria. In this approach, the aim of this study was to quantify important sugars (Glucose, Fructose and Sucrose), polyols (Xylitol, Mannitol and Sorbitol) and galacto-oligosaccharides (Stachyose, Verbascose and Raffinose) in commonly consumed seeds (soybean, beans, corn, rice, chia, quinoa, sesame and linseed). Sugars and oligosaccharides were analysed by High Performance Anion Exchange Chromatography coupled with Pulsed Amperometric Detection (HPAEC-PAD), and the results were expressed as g/100g fw (fresh weight). In general, chia seeds showed the high content of total sugars (5.10 g/100g), whereas soybean gave the highest amount of total GOS (4.30 g/100g) in which verbascose (3.37 g/100g) was the main GOS. In health people the digestion of this seeds can cause beneficial effects, but in people with IBS the consumption of high-FODMAPs can increase the symptoms because the poor absorption of GOS. Thus, the consumption of corn, rice and sesame seeds is better indicated to people with IBS due to lower concentrations of GOS (1.15, 0.26, 0.64 and 2.12 g/100g, respectively). However soybean can be a source of dietary prebiotics for health people. For example, the recommended daily dose of GOS (2.5-10 g/day) is similar to GOS levels in 100g of fresh soybean (4.30 g/100g).