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  4. Ketones and Fat Loss: The Science Behind Your Body’s Alternative Fuel
Sep 24, 2025

Ketones and Fat Loss: The Science Behind Your Body’s Alternative Fuel

By Seiji Ishii

Editor in Chief

For endurance athletes constantly seeking that edge in performance and body composition, understanding how your body burns fat can be game-changing.

Enter ketones – your body’s alternative fuel source that’s been quietly revolutionizing how we think about fat metabolism and athletic performance.

What Are Ketones, Really?

Think of ketones as your body’s backup generator. 

When glucose runs low – from fasting, low-carb eating or long training sessions – your liver converts fatty acids into three types of ketones: beta-hydroxybutyrate (BHB, the most common ketone in supplements), acetoacetate and acetone. These molecules become a clean-burning fuel source that your brain, heart and muscles can use efficiently.

But here’s where it gets interesting for fat loss – making ketones requires breaking down stored fat. Your body mines its own energy reserves to produce another fuel.

The Fat-Burning Connection

Metabolic Flexibility Enhanced

Research published in the Journal of Physiology shows that ketone availability enhances your body’s ability to switch between fuel sources – a concept called metabolic flexibility.¹ When you’re metabolically flexible, you become more efficient at accessing stored fat for energy, even during moderate-intensity exercise where you’d typically rely more heavily on glucose.

This matters because many athletes get stuck in “sugar-burning mode,” constantly needing carbohydrate fuel, even at lower intensities in the worst cases. Training your body to utilize ketones effectively helps you become a more efficient fat-burning machine, both during workouts and at rest.

Appetite Regulation That Actually Works

One of ketones’ most powerful effects on fat loss isn’t directly metabolic – it’s neurological. 

BHB crosses the blood-brain barrier and influences appetite-regulating hormones, particularly ghrelin and GLP-1.² Studies demonstrate that people in ketosis experience reduced hunger and improved satiety signals, making it easier to maintain the caloric deficit necessary for fat loss.

For endurance athletes who fight post-workout hunger or late-night snacking, this hormonal appetite modulation can be incredibly valuable.

The Performance-Fat Loss Connection

Preserving Lean Mass During Deficits

Here’s something crucial: Ketones are protein-sparing. 

Research in Metabolism journal found that ketone utilization reduces the body’s need to break down muscle protein for gluconeogenesis – the process by which your body makes glucose from non-carbohydrate sources.³ This means you can maintain training intensity and preserve hard-earned muscle mass even while in a caloric deficit.

This is a huge plus for athletes who want get leaner without sacrificing power or strength. Restricting calories can lead to both muscle loss and fat loss, but ketone utilization helps protect lean tissue.

Enhanced Fat Oxidation During Exercise

Multiple studies show that ketone supplementation or ketogenic adaptation increases fat oxidation rates during sub-maximal exercise.⁴ Result? You becomes better at burning fat as fuel during those crucial Zone 2 training sessions that form the foundation of endurance fitness.

Athletes using ketone supplements report being able to train in a fasted state more comfortably, extending the fat-burning window without a drop in performance. You’re helping your body get more efficient at accessing its largest energy store – body fat.

How Athletes Can Use Ketones

Ketone Use Strategy

You don’t need to get ketogenic through diet to leverage ketones for fat loss. Athletes use ketone supplements for targeted approaches:

  • Morning fasted training with exogenous ketone supplementation

  • Periodized low-carb phases during base-building periods

  • Intermittent fasting combined with ketone support during longer training sessions

The Reality of Adaptation

Be realistic about the timeline. Becoming “keto-adapted” takes 3-6 weeks, during which performance can dip while your body learns to burn ketones efficiently. However, research shows that once adapted, many endurance athletes maintain their previous performance levels while accessing improved fat oxidation.⁵

Quality Matters

Ketone products are not created equal. 

Look for third-party tested options, such as those carrying Informed Sport® certification. The most researched forms are beta-hydroxybutyrate salts and ketone esters, with esters providing higher ketone levels but often having a terrible taste.

The Final Say

Ketones encourage fat loss through multiple pathways – enhancing metabolic flexibility, regulating appetite hormones, preserving lean mass and directly increasing fat oxidation during exercise. For endurance athletes, this creates a powerful combination – you can improve body composition while maintaining your performance. 

The key is understanding that ketones aren’t magic. They’re a tool that works best when combined with proper training, adequate protein intake and realistic expectations about the adaptation process. Used strategically, ketones can help you access your body’s largest energy reserve more efficiently, supporting both performance and physique goals.

Whether you’re chasing an FKT, preparing for race season or just wanting to improve your body composition, understanding how to leverage ketones gives you another tool in your metabolic toolbox.


References:

  1. Cox, P.J., et al. Nutritional ketosis alters fuel preference. Journal of Physiology 2016; 594(18): 5425-5441. https://pubmed.ncbi.nlm.nih.gov/27475046/

  2. Stubbs, B.J., et al. On the metabolism of exogenous ketones. Journal of Physiology 2017; 595(12): 3713-3730. https://pubmed.ncbi.nlm.nih.gov/29163194/

  3. Sherwin, R.S., et al. Effect of ketones on glucose and protein metabolism. Metabolism 1976; 25(9): 1005-1010. https://pubmed.ncbi.nlm.nih.gov/1133179/

  4. Burke, L.M., et al. Low carbohydrate, high fat diet impairs exercise economy. Journal of Physiology 2017; 595(9): 2785-2807. https://pubmed.ncbi.nlm.nih.gov/28012184/

  5. McSwiney, F.T., et al. Keto-adaptation enhances exercise performance in endurance athletes. Metabolism 2018; 81: 25-34. https://pubmed.ncbi.nlm.nih.gov/29108901/

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