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Sourdough

Sourdough Cottage Cheese Bagels (13.4 g Protein)

Make delicious sourdough cottage cheese bagels in 4 hours! They’re high-protein, with 13.4 grams of protein per bagel. (Includes an optional overnight ferment).

Prep: 20 minutes
Cook: 30 minutes
Total: 4 hours 50 minutes
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Recipe Index | Ferment | Sourdough

Sourdough Cottage Cheese Bagels (13.4 g Protein)

Make delicious sourdough cottage cheese bagels in 4 hours! They’re high-protein, with 13.4 grams of protein per bagel. (Includes an optional overnight ferment).

Easy Cottage Cheese Bagels with Sourdough Starter

If you’re looking for an extremely nutritious way to use your sourdough starter, these sourdough cottage cheese bagels are a high-protein solution! This recipe combines the tangy flavors of sourdough with the convenience of instant yeast, allowing you to whip up a batch of high-protein, chewy bagels in just four hours with minimal hands-on effort.

For those seeking an extra benefit of sourdough digestibility, there’s an optional overnight fermentation step in the fridge. The overnight fermentation enhances the bagels’ flavor and improves their digestibility.

Ingredients for sourdough cottage cheese bagels in a mixing bowl, including flour, cottage cheese, sourdough starter, and yeast.
Dough for sourdough cottage cheese bagels dusted with flour in a bowl during the dough forming process.
Sourdough cottage cheese bagel dough divided into eight equal portions, ready for shaping.

The Best Cottage Cheese to Use for Bagels

For these bagels, I recommend one of three cottage cheese options:

  • Homemade Cottage Cheese (click here for the recipe)
  • Good Culture 2% Cottage Cheese
  • Kalona Organic Whole Milk Cottage Cheese
Stretching a portion of sourdough cottage cheese bagel dough by hand to develop gluten structure.
Shaped sourdough bagel dough in hand, ready to be placed for proofing.
Gently shaping a piece of sourdough cottage cheese bagel dough to form a smooth round.
Hands holding a perfectly shaped ball of sourdough cottage cheese bagel dough.
Sourdough cottage cheese bagel dough rounds resting on a parchment-lined tray for final proofing.

The Best Flour for Making Cottage Cheese Bagels

When making any kind of homemade bagels, using organic bread flour is a game changer. Bread flour is designed explicitly for yeast-leavened baked goods, boasting a higher gluten content than all-purpose flour. This elevated gluten level is crucial for developing the best bagel texture.

The robust gluten network formed by bread flour helps the bagels hold their shape during boiling and baking, ensuring they have a nice crust and tender, chewy interior. Additionally, choosing organic bread flour means you’re opting for a product free from synthetic pesticides and additives, which can contribute to a cleaner, more wholesome bagel. All in all, organic bread flour is an essential ingredient for homemade bagels.

Hands shaping a ball of dough into a bagel by creating a hole in the center.
Two hands forming a bagel shape from dough with a baking tray of shaped dough balls in the background.
Unbaked sourdough cottage cheese bagels arranged on a parchment-lined tray, ready for boiling and baking.

Cottage Cheese Bagels No Yeast: Three ways to make this recipe with sourdough starter

  • Active, bubbly, peaking sourdough starter: The first option is to make cottage cheese bagels with an active, bubbly, peaking sourdough starter. This is the best option for making these bagels without packaged yeast. I do this all the time, and it works great; I double (sometimes triple if it’s cold) the proofing times in the recipe card when using only an active starter.
  • Sourdough discard from the fridge: The second option for making these bagels without any packaged instant yeast is to use sourdough discard from the fridge. You’ll need to start the dough the night before you plan to bake. So, in step 4 in the recipe card below, you will leave the dough covered overnight for 8-12 hours, then the following day, continue with step 5. This should allow enough time for the starter to become active in the dough. This method isn’t always successful and depends on the individual starter, how long it’s been in the fridge, and how established it is. This method also tends to result in more sour flavors.
  • Sourdough Discard + Instant Yeast: This is the method the recipe is written with. It’s the easiest and quickest. Adding instant yeast with the sourdough starter gives you all the great flavors of classic sourdough but with the reliable results of packaged yeast. You can still get long-fermentation benefits by proofing the shaped bagels overnight in the fridge before cooking. (see next paragraph for details on long overnight proofing)

My best advice for getting the best results from this recipe is to use an active peaking starter or a combination of starter discard and instant yeast.

A wooden spoon lifting a freshly boiled sourdough bagel from a pot of bubbling water.
Brushing boiled bagels with egg wash on a parchment-lined tray before baking.

Long Ferment Sourdough Discard Bagels Overnight

To long ferment these bagels overnight, you place them in the fridge after they’re shaped. Once in the fridge, you can leave them to long ferment for up to 72 hours. Then, continue with the recipe as written.

Hand dipping a boiled bagel into a plate of sesame seeds to coat the surface evenly.
Close-up of sesame-seeded and plain sourdough bagels resting on a parchment-lined tray.

Why Do You Boil Bagels?

Boiling bagels is a crucial step in achieving their distinctive texture and flavor. Here’s why this process is essential:

  • Texture: Boiling bagels before baking helps to create their characteristic chewy crust. The boiling process gelatinizes the starches on the surface of the dough, forming a barrier that traps moisture inside the bagel. This results in a chewy interior and a shiny, crisp crust.
  • Structure: Boiling helps to set the bagels’ shape. It provides an initial dough firming, allowing the bagels to retain their round shape during baking.
  • Flavor Development: The boiling water, often with added ingredients like malt syrup or honey, contributes to the bagels’ flavor. Malt syrup, for example, adds a subtle sweetness and enhances browning during baking.
  • Browning: The boiling process affects how the bagels brown in the oven. The gelatinized surface helps achieve a rich, golden-brown crust.
Hands slicing a freshly baked sourdough bagel with a serrated knife on a wooden cutting board.

Why are My Bagels so Chewy?

Boiling bagels for too long can make them excessively chewy. Boiling bagels for too long can lead to over-gelatinizing the starches on the surface, resulting in a denser and chewier texture than desired. Additionally, extended boiling times can cause the bagels to become overly puffy or misshapen as the dough expands.

Typically, bagels are boiled for about 30 seconds to 1 minute per side. This short boiling time is usually sufficient to achieve the desired texture and flavor without compromising the bagels’ quality.

Two halves of a sliced sourdough bagel held in hand, showing its soft and airy interior.

How to Store Cottage Cheese Bagels

  • Cooling: Allow your homemade bagels to cool completely on a wire rack before storing them. This prevents condensation from forming, which can make them soggy.
  • Room Temperature: Store bagels at room temperature in an airtight container or resealable plastic bag for up to 4 days.
  • Freezing: To freeze bagels, wrap each bagel individually in parchment paper or aluminum foil. Then, place them in a freezer-safe plastic bag or airtight container. This prevents freezer burn and helps maintain their quality. You can freeze bagels for up to 3 months.
  • Thawing: When you’re ready to eat them, you can thaw bagels at room temperature, or for a quicker option, toast them directly from the freezer. You can also defrost them in the microwave for a few seconds, then toast them to restore some of the crispy texture.

Things You May Need:

A product image of a counter top oven showing the front face

Breville Smart Oven Air Fryer Pro

A kitchen scale top down showing the dual scale platforms and digital measurement screen

Kitchenaid Dual Platform Scale

A package of san francisco style sourdough starter that is blue, white and green

San Francisco Style Sourdough Starter

three sourdough spurtles made of wood

Teakwood Stirring Spatula for Sourdough

Active Dry Yeast

Active Dry Yeast

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Sourdough

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5 from 16 reviews

Sourdough Cottage Cheese Bagels (13.4 g Protein)

Make these delicious sourdough cottage cheese bagels in just 4 hours! This recipe is high-protein, with 13.4 grams of protein per bagel. (Includes an optional overnight ferment).

  • Prep: 20 minutes
  • Cook: 30 minutes
  • Total Time: 4 hours 50 minutes

Ingredients

  • 720 grams bread flour (6 cups)
  • 120 grams sourdough starter discard (1 cup)
  • 1/2 teaspoon active/instant yeast*
  • 200 grams water (3/4 cups)
  • 455 grams cottage cheese (2 cups)
  • 10 grams sea salt (about 2 teaspoons)
  • 1 Tablespoon baking soda (for the water bath)
  • 1 Tablespoon honey or sugar (for the water bath)

Instructions

  1. Read the recipe notes on proofing time before starting.
  2. In a large bowl, combine the starter, instant yeast, flour, salt, cottage cheese, and water.
  3. Knead the ingredients together until a uniform, but shaggy dough ball forms.
  4. Cover the bowl with a plate or a damp towel and proof the dough for 1 hour at a warm temp.
  5. Stretch and fold the dough. wet your hands and stretch the dough up out of the bowl and fold it in on itself, do this a few times until the dough smooths out and has more tension. Scoop around the sides of the dough with your hands to form it into a nice, smooth ball. Cover and let the dough proof for 30 minutes at a warm temperature.
  6. Next, sprinkle some flour on the surface of your counter. Remove the dough from the bowl and place it on the floured surface. 
  7. Stretch the dough into a rectangle that’s a little bigger than a sheet of paper. Be gentle with the dough!! You don’t want to flatten it. Just lightly pull the sides until it’s a rectangle about the size of a sheet of paper.
  8. Divide the dough into 10 equal pieces (each piece should weigh about 160 grams).
  9. Line a baking sheet with parchment paper and sprinkle flour on top of the parchment paper.
  10. Grab a piece of dough, and fold it in, forming a small round dough ball. Place the dough ball on the floured parchment paper. Repeat for the other pieces.
  11. Lightly sprinkle the top of the dough balls with flour. Cover the dough balls with a towel and let them rise for about 30 more minutes until they puff up a good bit.
  12. Flour your hands and pick up a dough ball. Place it in your right hand. Using your thumb on the top of the dough ball and middle finger on the bottom, squeeze a hole through the center of the dough ball. Bring your index finger and ring finger through the hole in the dough to touch your thumb.
  13. Use your other hand to guide the donut-shaped dough through your right-hand palm and fingers that are held in a circular shape. This is how you create a bagel shape.
  14. Place the shaped bagels back on the floured parchment paper. (lightly sprinkle more flour if you need to)
  15. Let the shaped bagels rest for about 15 minutes until they’re nice and puffy, but don’t overproof.
  16. (optional) Place the bagel dough in the refrigerator for a final proof of 12 hours.
  17. Preheat your oven to 450° F.
  18. Gather your toppings and add them to small bowls for easy use.
  19. Bring a large pot of water to a boil. Add in the baking soda and the honey (or sugar).
  20. Using a slotted spoon, place each bagel in the boiling water for about a minute, flipping at 30 seconds.
  21. Remove the bagel from the water, place it back on the parchment paper.
  22. Brush the boiled bagels with egg white and sprinkle on the toppings.
  23. Repeat for the remaining bagels. Once they all have toppings, place the bagels in the oven.
  24. Bake for approximately 20 minutes* until golden brown. Rotate the bagels at 10 minutes for even baking.
  25. Remove and allow to cool for 30 minutes.

Notes

  • I proof my dough in my air fryer that is also a bread proofer set to 98° F. The times in this recipe are for those conditions. If you are not using a proofer, and the conditions in your home are cooler, proofing times may take longer.
  • If you want to make this recipe without any packaged yeast, you can! Double the proofing times in the recipe directions and use bubbly, peaking, active starter.
  • Bake time may vary. I usually end up baking for 35 minutes total. You can check the bagels every 5 minutes to ensure you do not overcook them. 

Did you make this recipe?

Please leave a 5-star review below if you loved it! Tag @cultured.guru on Instagram

 

Nutrition information is auto-calculated and estimated as close as possible. We are not responsible for any errors. We have tested the recipe for accuracy, but your results may vary.

author avatar
Kaitlynn Fenley Author, Educator, Food Microbiologist
Kaitlynn is a food microbiologist and fermentation expert teaching people how to ferment foods and drinks at home.
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hey i’m kaitlynn, i’m a microbiologist and together with my husband jon we are cultured guru.

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  1. Anonymous
    01|16|2025

    Made this with fresh milled red wheat berries and it was delicious! It’s hard to find a recipe for bagels fresh milled that is super soft and this is perfect! Thanks for sharing!

    Reply
    1. Kaitlynn Fenley
      01|16|2025

      Thanks for letting me know that fresh milled read wheat works great in the recipe! And thank you for leaving a review!

      Reply
  2. Kara
    01|20|2025

    I made these today and they were SO delicious! I love a good bagel and knowing these have more protein is a great feeling. Unfortunately, I’m not great at keeping a sourdough starter alive, so I used pâte fermentée in its place and it worked wonderfully! I will definitely be making these again. Thank you for an awesome recipe!

    Reply
    1. Kaitlynn Fenley
      01|20|2025

      Wonderful to hear! I’m glad you love the bagels! thanks for coming back to leave a review 🙂

      Reply
  3. Julia Pittman
    02|02|2025

    Amazing bagels. I usually make your regular bagel recipe, but this will be my new go to. Super soft and great flavor. Added bonus of the protein!

    Reply
    1. Kaitlynn Fenley
      02|02|2025

      Happy you enjoyed them! Thank you for leaving a review!

      Reply
  4. Alisha Parker
    02|03|2025

    These are moist and crispy at the same time ! Great recipe !

    Reply
  5. Sarah
    02|09|2025

    This recipe is why I now believe I was a New York City baker in a past life. I had so much fun making these as my first bagels ever and it came together so easily! Kaitlyn explained it so well I felt like a natural at it. I’ll definitely be doing these weekly from now on.

    Reply
  6. Jo
    03|01|2025

    I’m new at this I’ve made these bagels two times. 2nd time was much better I love them so does my husband. I freeze mine

    Reply
  7. Becki
    03|12|2025

    I’ve just started with sourdough and I’m loving these bagels! I’ve made them twice – both times with discard + yeast- they’ve come out great. Love that there is extra protein, but I don’t have to process the cottage cheese first and you don’t see the curds in the bagels! This is my go to from now on. Thanks!!

    Reply
    1. Kaitlynn Fenley
      03|13|2025

      woohoo! So happy you are enjoying the cottage cheese bagels!

      Reply
  8. Tami-Lynn
    03|23|2025

    I made these yesterday with active starter and the dry yeast . This recipe was simple and they cane out beautiful and delicious. I put everything bagel seasoning on them. The inside is soft with a crisp chewy crust. I will definitely make them again ! Thank you for sharing .

    Reply
    1. Kaitlynn Fenley
      03|23|2025

      Thank you for leaving a review! Glad you enjoyed!

      Reply
  9. Rebecca
    04|06|2025

    Amazing recipe! Bagels are crisp on the outside and soft on the inside. Love the added protein and sourdough for gut health. I have tried other recipes in the past that did not come out great. This is my nee go to recipe! Thank you!

    Reply
  10. Vanessa
    05|16|2025

    These turned out absolutely perfect! Thank you for the recipe and detailed instructions. I used the discard method and they weren’t too sour tasting.

    Reply
    1. Kaitlynn Fenley
      05|16|2025

      yay!! Happy to hear the discard method worked great for you. It’s probably the method I use most!

      Reply
  11. Afroze
    05|21|2025

    Excellent recipe. I followed all the instructions and my bagels turned out just like in the pics. Perfect taste and texture. Balls took more like an hour to rise even in a warm spot. I’d only suggest blending the cottage cheese before adding to the dough. While cottage cheese specks didn’t show in the baked product they did give me a lot of anxiety while kneading.

    Reply
    1. Kaitlynn Fenley
      05|21|2025

      Thank you so much for the feedback and a thorough review!

      Reply
  12. Taylor
    05|26|2025

    Made these today and the whole family loved!! Did it with active starter and dry yeast, did a long ferment over night. Very tasty and the perfect texture!
    Only thing that happened was the parchment paper stuck to the bottom of the bagels… any tips to prevent this for next time?

    Reply
  13. Jo
    05|28|2025

    Love this recipe I’ve made it like 5 times

    Reply
  14. Lisa
    06|05|2025

    I have used other Sourdough Bagel recipes and this one wins 5 stars. Especially since they are full of protein. My friends loved them!

    Reply
  15. Michaela M.
    06|05|2025

    Hi! Excited to try making these! Is it ok to let cottage cheese sit at room temp for a longer period of time? Thanks!

    Reply
  16. Lulu
    06|06|2025

    They were delicious! but I was surprised to see that 1 cup of sourdough starter discard is only 120 grams, usually it’s around 220 grams. And I noticed 10 equal pieces weighed about 150 instead of 160 grams.Could the weight for the sourdough be a typo ? Thanks!

    Reply
    1. Kaitlynn Fenley
      06|09|2025

      The weight for the sourdough is not a typo. What a cup of starter weighs depends on if you’re using fresh bubbly starter or dense discard from the fridge. One cup of fresh starter with lots of air bubbles will weigh much less than one cup of dense, cold inactive starter. You can use either fresh starter or starter from the fridge… either way, if we are using instant yest for rise, the starter is considered “discarded” into the recipe. A 150 gram and 160 gram bagel are about the same.

      Reply
      1. Lulu
        06|17|2025

        Thank you for your reply and explanation, I’ll stick with 120 grams then!

        Reply
    2. Larissa
      06|26|2025

      If I am using active bubbly starter and no packaged yeast, is it still only the the 120g of starter?

      Reply
      1. Kaitlynn Fenley
        06|27|2025

        yep!

        Reply
  17. Holly
    06|15|2025

    Ahhhh-mazing. Made it once. No notes.
    Instead of egg wash, I used milk because that can help give the golden color. Seeds seem to stay with this substitute.

    Reply
    1. Kaitlynn Fenley
      06|17|2025

      Awesome! Thanks for leaving a review and letting me know about the milk substitute!

      Reply
  18. Heather
    06|15|2025

    First time making bagels. These were amazing. Easy to follow recipe. Absolutely amazing.

    Reply
    1. Kaitlynn Fenley
      06|17|2025

      So glad your first time was great! Thanks for leaving a review!

      Reply
  19. Ana
    06|29|2025

    I can’t believe how great these instructions are – I got into sourdough this year (5 years late) and wanted to make these. My first time turned out great (I mixed yeast and the proofing took a LONG time). I do have a question – for the overnight ferment after taking it out of the fridge should I let the bagels come to room temperature before boiling and baking them?

    Reply

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