My Healthy Cheesecake Recipe Is Sweet, Creamy, And Protein Packed

This healthy cheesecake is my lighter, protein-packed riff on my most popular dessert for years, low carb cheesecake. I swapped out the usual cream cheese for Greek yogurt, added a natural thickener to firm it up, and slathered it with my favorite strawberry sauce. Here’s why you’ll love it:
- Creamy, tangy filling with a protein boost – It tastes so rich and creamy, it’s hard to believe there’s no cream cheese in there and it’s actually good for you! And since the primary ingredient is Greek yogurt, this healthy dessert has 13.4 grams of protein per slice.
- Gluten-free almond shortbread crust – It’s similar to my almond flour pie crust and almond flour cookies, but I swapped the butter for healthier coconut oil. You’ll love the shortbread texture.
- Not too many ingredients – Just 5 for the crust and 5 for the filling! And the prep is really fast, with no specialty tools.
- Low calorie and sugar free – This healthy cheesecake recipe is just 227 calories per slice, with no refined sugar. The only sugar in my recipe is the natural sugar from Greek yogurt!
I was pretty surprised at how easy this Greek yogurt cheesecake turned out to be, because I was sure it would take half a dozen tries. It only took three! And it just might become my new top healthy dessert. Make it with me and tell me what you think!

Ingredients & Substitutions
Here I explain the best ingredients for my Greek yogurt cheesecake recipe, what each one does, and substitution options. For measurements, see the recipe card.
Shortbread Crust:
- Almond Flour – I highly recommend my Wholesome Yum Blanched Almond Flour for the best healthy cheesecake crust. It’s super fine, unlike other coarse brands that can make your crust grainy.
- Besti Monk Fruit Allulose Blend – This is a healthy cheesecake, so we’re using a natural sugar alternative! Besti is my favorite granulated sweetener for the job. Other sugar substitutes are fine for the crust (check my sweetener conversion chart), but will be more drying. Regular sugar does work if that’s your thing.
- Coconut Oil – I like this organic brand. You can also use unsalted melted butter.
- Vanilla Extract & Sea Salt
Want to a different crust?
For a graham cracker crust vibe, use my Besti Brown sweetener instead of regular, and replace 1 tablespoon of the butter with my natural Wholesome Yum Sugar Free Honey (or regular works, too).
You can also use any other crust recipe you like. I’ve got some options in my sugar-free cheesecake post, including crustless.
Filling:
- Greek Yogurt – The base of the filling, instead of cream cheese. I recommend full-fat (5%) Greek yogurt for the creamiest, richest healthy cheesecake. While 2% or fat-free yogurt will work, they will taste more bland. I’m not sure regular yogurt would give the same result because it tends to be runnier — let me know how it goes if you try!
- Eggs – Most cheesecake recipes have them, but in this one they are particularly crucial. I don’t recommend using any substitutes, sorry.
- Besti Powdered Monk Fruit Allulose Blend – PSA: The sweetener you use for the filling is super important, because many brands will leave it gritty! This includes erythritol, as well as most brands of monk fruit and stevia. I love powdered Besti here, because it dissolves smoothly into the filling and won’t crystallize. You can also use plain powdered allulose, but I’d recommend increasing the amount to 2 cups.
- Arrowroot Powder – The amount may be small, but don’t skip it! The arrowroot prevents the Greek yogurt cheesecake filling from being too runny. Cornstarch works too, but I prefer arrowroot for its higher resistant starch content.
- Vanilla Extract
Strawberry Topping:
- Fresh Strawberries – You’ll need 1/2 pound chopped finely and a pound sliced. I used fresh ones, but frozen will work as long as you thaw and drain them.
- Powdered Besti – For the same reasons I explained for the filling above, this is the best choice that will dissolve into the sauce. You can also use my Wholesome Yum Zero Sugar Strawberry Syrup, which is made with real berry puree and helps your topping taste “extra strawberry”!
- Lemon Juice – This helps the sauce stay bright red and brings out the sweetness of the berries.
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How To Make Healthy Cheesecake
I have step-by-step photos here to help you visualize the recipe. For full instructions with amounts and temperatures, see the recipe card.
Make The Crust
- Mix the dry ingredients. In a medium bowl, stir together the almond flour, Besti, and salt.
- Add the wet ingredients. In a small bowl, mix the melted coconut oil and vanilla. Pour it over the flour mixture and stir until combined. The mixture will be crumbly.
- Bake until golden. Press the dough into the bottom of a parchment lined springform pan, and pop in the oven. Let it cool for 10 minutes.


Make The Filling
- Combine the yogurt, eggs, powdered Besti, and vanilla. Just whisk them together in a large bowl, until the sweetener dissolves and the mixture is smooth.
- Add the thickener. Sprinkle the arrowroot powder over the bowl (don’t dump it all in one clump) and whisk until combined.


Assemble & Bake
- Pour the filling over the crust. Smooth the top with a spatula, and tap the pan on the counter to release any air bubbles.
- Bake your healthy cheesecake. Remove it from the oven when the center is almost set, but still jiggly. If the edges stick, gently run a knife around them after 10 minutes (leave the springform edge on).
- Cool and refrigerate. Let the baked cheesecake cool on the counter first to reach room temperature, then refrigerate for at least 4 hours or overnight, until set.
Make The Topping
- Simmer the chopped strawberries. In a saucepan over medium heat, combine the chopped strawberries, powdered Besti, and lemon juice. Simmer, mashing until the strawberries break down into a sauce.
- Stir in the sliced strawberries. Heat until soft, but don’t let them get mushy. Let the sauce cool to room temperature.



Enjoy!
You can top the entire healthy cheesecake with strawberry sauce, or serve it on the side to top individual slices. I topped the entire cake.

My Recipe Tips
- If you have time, let your Greek yogurt and eggs come to room temperature. My recipe still works if you skip this step, but it bakes more evenly if your ingredients aren’t cold.
- This filling is sweet but not super sweet — add an extra 1/2 cup of powdered Besti if you like a lot of sweetness. If you’re not sure, I recommend mixing the filling without the eggs first, then you can taste it and adjust to your liking. Once it’s good, add the eggs.
- Be careful not to overmix the filling. Too many air bubbles will mess with the texture. It can help to tap the pan on the counter to release any bubbles before baking.
- Do you really need a springform pan? Yes! I recommend it for any cheesecake, but especially this Greek yogurt cheesecake because it’s more delicate. This is my favorite springform pan.
- I didn’t use a water bath, but you can if you want a flatter top. Without it, the cheesecake might sink a little, which I like for holding the strawberry topping. If you prefer a smooth, restaurant-style top, here’s how to do it: Before baking, wrap the springform pan in foil, place it in a larger dish, and fill with hot water halfway up the sides. Then, bake the healthy cheesecake recipe. This will help prevent sinking, plus it reduces the chance of cracking.
- Be careful not to overbake. Don’t wait for the cheesecake to fully set – remove it from the oven when it’s still jiggly, like Jell-O. If you let it set completely, it will likely crack, and the texture becomes grainy instead of smooth.
- Is your filling runny? Underbaking can leave it runny, but more often than not, people reporting this have missed the step of cooling and refrigerating. This is a must to fully set the filling!
- Run the knife around the edge very gently. The edges can crumble after baking if you’re rough with them. You can actually skip this step if you opt for the water bath option (above).

Healthy Cheesecake
My healthy cheesecake recipe is rich, creamy, and sweet, all with no refined sugar, 13 grams of protein per slice, and a shortbread crust.
Ingredients
[ See substitutions ]Tap underlined ingredients to see the ones I use.
Crust:
Filling:
Strawberry Topping (Optional):
Instructions
[ See step photos See my tips ]Tap on the times in the instructions to start a kitchen timer.
Almond Crust:
-
Preheat the oven to 325 degrees F (177 degrees C). Line a 9-inch (23-cm) springform pan with parchment paper.
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In a medium bowl, stir together the almond flour, Besti, and salt.
-
In a small bowl, stir together the melted coconut oil and vanilla. Pour over the flour mixture and mix to combine. The mixture will be crumbly.
-
Press the dough into the bottom of the prepared pan. Bake for 8-10 minutes, until barely golden. Let the crust cool for at least 10 minutes.
Filling:
-
Meanwhile, in a large bowl, stir or whisk together the Greek yogurt, eggs, powdered Besti, and vanilla, until the sweetener dissolves and the mixture is smooth.
-
Sprinkle the arrowroot powder over the bowl (don’t dump it all in one clump) and whisk until combined.
Assembly:
-
Pour the filling into the pan over the crust. Smooth the top with a spatula. Tap the pan on the counter several times to release any air bubbles.
-
Bake for about 40-55 minutes, until the center is almost set, but still jiggly.
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Remove the cheesecake from the oven. If the edges are stuck to the pan, run a knife around the edge (don't remove the springform edge yet). Cool in the pan on the counter to room temperature, then refrigerate for at least 4 hours (preferably overnight), until completely set. (Do not try to remove the cake from the pan before chilling.)
Strawberry Sauce (Optional):
-
In a medium saucepan over medium heat, combine the chopped strawberries, powdered Besti, and lemon juice. Simmer for about 10 minutes, mashing the sauce as the berries soften, until the strawberries start to break down and a sauce forms.
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Stir the sliced strawberries into the sauce. Heat for 2-3 minutes, until the slices are soft, but not mushy. Remove from heat and let the sauce cool completely to room temperature.
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Serve the strawberry sauce over your healthy cheesecake.
Did you make it? Leave a review or tag me @wholesomeyum on Instagram!
Maya’s Recipe Notes
Serving size: 1 slice, or 1/12 of the entire cheesecake
- Tips: Check out my recipe tips above to prevent cracking, sinking, crumbling, or a runny filling, plus notes on sweetness level.
- Topping options: I love the strawberry topping above, but I’ve got other topping ideas you can try if you want something different.
- Make ahead: I actually recommend doing this, since the cheesecake needs a while to cool and set in the fridge.
- Store: Keep your healthy cheesecake covered in the fridge for up to 4-5 days. If you can, wait to top with sauce until the day of.
- Freeze: You can freeze this, but the texture is not very smooth after thawing. I think it’s still pretty good, but a bit more like ricotta in texture.
- Note on nutrition info: The optional strawberry topping is not included in the nutrition facts below.
I provide nutrition facts as a courtesy. Have questions about calculations or why you got a different result? Please see my nutrition policy.
Add Your Notes Your Notes
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Healthy Cheesecake

Topping Variations
I love the flavor of strawberry sauce over this healthy cheesecake recipe, but these are also wonderful:
- Other Berry Sauces – Feel free to use other fresh berries. Raspberries, blueberries, or blackberries all work great, and you won’t need to chop them. If you want it even easier, grab my Wholesome Yum Strawberry Syrup, Raspberry Syrup, or Blueberry Syrup, which are made with real fruit and ready to pour right out of the (pretty glass) bottle.
- Melted Chocolate – Drizzle with my sugar-free chocolate sauce or simply melt in some sugar-free chocolate chips. (This brand is my favorite — we go through bags of them in my family!)
- Whipped Cream – Try my sugar-free whipped cream.
- Caramel – A drizzle of sugar-free caramel sauce is my second-favorite topping.
More Healthy Dessert Recipes
I’m a big believer that you don’t have to give up dessert just to eat better! Try some of my other treats without refined sugar next:

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48 Comments
Kate
0I can’t wait to try this!! Scrolling down I found a bunch of others, too! Thank you so much!!
Maya | Wholesome Yum
0Thanks, Kate! Let me know how you like it!