Everything Seed Protein Bagels

Name: Everything Seed Protein Bagels
Prep time: 15 min
Cook time: 25 min
Total time: 40 min
Yield: 8 bagels
Ingredients: 1 cup warm water; 2 tablespoons honey; 1 packet active dry yeast; 2 cups high-protein flour; 1 cup whole wheat flour; 1/4 cup chia seeds; 1/4 cup flaxseeds; 1/4 cup pumpkin seeds; 1/4 cup sesame seeds; 1 teaspoon salt; 2 tablespoons poppy seeds; 2 tablespoons dried onion flakes; 2 tablespoons garlic powder; 1 tablespoon sea salt

Highlighted under: Healthy Bites

I love making Everything Seed Protein Bagels because they combine my favorite seeds into a deliciously chewy treat that's loaded with protein. Every bite is a satisfying blend of flavors and textures, and they are surprisingly easy to whip up! Whether I enjoy them for breakfast with cream cheese or as a sandwich for lunch, I know I’m treating myself to something wholesome and filling. Plus, they make my kitchen smell incredible as they bake!

Created by

Cassidy Moore

Last updated on 2026-02-16T09:11:37.156Z

When I first attempted to create these bagels, I was worried the seeds would make them too dense, but I was pleasantly surprised. By using a blend of different seeds, I found the perfect balance of taste and texture that made each bagel enjoyable. The trick is to not skimp on the toppings—every seed adds its own unique flavor, and together they create a symphony on your palate.

One of my favorite aspects of this recipe is the flexibility it offers. You can tweak the seed mix to suit your own preferences or whatever you have on hand. Just make sure to keep the protein-rich base intact to achieve that chewy bagel goodness. I often experiment with additional toppings, like a sprinkle of sea salt or sesame seeds, to keep things interesting!

Why You'll Love These Bagels!
Packed with protein from a variety of seeds
Flavorful and crunchy everything seasoning on the outside
Customizable toppings and spreads for every palate

The Importance of Protein-Rich Ingredients

Using high-protein flour in this bagel recipe not only enhances the bagels’ texture, giving them that delightful chewiness, but it also elevates their nutritional value significantly. This type of flour contains more gluten, which helps create a strong structure to hold the shape of the bagels while they rise and bake. If you can't find high-protein flour, consider using bread flour as a substitute. Just keep in mind that it might slightly alter the texture, making for a less chewy result.

Incorporating chia seeds, flaxseeds, and pumpkin seeds not only adds a variety of textures but also boosts the health benefits. These seeds are rich in Omega-3 fatty acids, fiber, and protein, making your bagels an even more satisfying option. For a nut-free alternative, you can replace the pumpkin seeds with sunflower seeds, maintaining that nutritional integrity without compromising flavor.

Perfecting the Bagel Shape

Shaping your bagels accurately is essential for even cooking and achieving that classic bagel aesthetic. When rolling the dough into balls, ensure you apply gentle pressure to create a smooth surface. Poking a hole in the center is crucial; aim for a diameter of about 1-1.5 inches. This ensures that your bagels bake evenly and maintain their shape during the boiling process. If the hole closes up during baking, gently reshape it to encourage that perfect bagel form.

Letting the bagels rise covered is also an important step. Make sure to allow them adequate time—about 30 minutes—so they can puff up slightly. If your kitchen is on the cooler side, consider placing them near a heater or in a slightly warm oven (turned off) for optimal rising conditions. Proper rising results in a lighter, airier bagel and enhances the final texture.

Ingredients

Gather the following ingredients to make your Everything Seed Protein Bagels:

Bagel Ingredients

1 cup warm water
2 tablespoons honey
1 packet active dry yeast
2 cups high-protein flour
1 cup whole wheat flour
1/4 cup chia seeds
1/4 cup flaxseeds
1/4 cup pumpkin seeds
1/4 cup sesame seeds
1 teaspoon salt

Everything Seasoning

2 tablespoons poppy seeds
2 tablespoons dried onion flakes
2 tablespoons garlic powder
1 tablespoon sea salt

Make sure to measure out all ingredients accurately to ensure the best results!

Instructions

Follow these steps to create perfectly baked Everything Seed Protein Bagels:

Activate the Yeast

In a bowl, combine warm water and honey, then sprinkle the yeast on top. Let it sit for about 5 minutes until frothy.

Mix the Dough

In a large mixing bowl, combine the high-protein flour, whole wheat flour, chia seeds, flaxseeds, pumpkin seeds, sesame seeds, and salt. Add the activated yeast mixture and knead until a smooth dough forms.

Shape the Bagels

Divide the dough into 8 equal portions, rolling each into a ball. Poke a hole in the center to form the bagel shape.

Let Them Rise

Place the shaped bagels on a greased baking sheet and cover with a clean towel. Let them rise for about 30 minutes.

Prepare the Topping

In a small bowl, mix the poppy seeds, onion flakes, garlic powder, and sea salt. Brush the bagels with water and sprinkle generously with the everything seasoning.

Bake

Preheat the oven to 375°F (190°C). Bake the bagels for 25 minutes, or until golden brown.

Allow the bagels to cool on a wire rack before serving. Enjoy fresh or toasted!

Pro Tips

For a sweeter touch, consider adding a tablespoon of sugar to the dough. You can also experiment with different seed combinations for varied flavor profiles.

Storage and Freezing Tips

These Everything Seed Protein Bagels can be stored at room temperature in an airtight container for up to three days. If you prefer to keep them fresher for longer, consider freezing them. Place the cooled bagels in a freezer-safe bag, separating each with parchment paper to prevent sticking, and they’ll stay fresh for up to three months. To enjoy, simply thaw at room temperature or reheat directly from the freezer in a toaster or oven for a few minutes until warm.

For the best flavor and texture, I recommend slicing the bagels before freezing. This way, you can toast them straight from the freezer, ensuring that they're ready to enjoy in minutes without the hassle of defrosting first.

Serving Suggestions

These versatile bagels can be dressed up for any meal of the day. For a hearty breakfast, slather them with cream cheese and top with cucumber slices or smoked salmon for a gourmet twist. Alternatively, try a sweet spread, like almond or peanut butter, paired with banana slices for a quick snack or filling breakfast option.

At lunchtime, consider using these bagels as the base for your favorite sandwiches. Pile on sliced turkey, avocado, and fresh greens for a nutritious, protein-packed meal. You can also experiment with different toppings such as hummus, roasted veggies, or even egg salad to keep your lunches exciting!

Questions About Recipes

→ Can I use all-purpose flour instead of high-protein flour?

Yes, but for the best texture, opt for a higher protein bread flour.

→ How can I store leftover bagels?

Store them in an airtight container at room temperature for up to 3 days or freeze for longer storage.

→ Can I add toppings to the bagels before baking?

Yes! Feel free to add other toppings such as sesame seeds or dried herbs along with the everything seasoning.

→ How do I know when the bagels are done baking?

They should be golden brown and sound hollow when tapped on the bottom.