An unproductive animal completely removed from the rest of the stock is said to be

Culling is the permanent removal of unproductive, undesirable, or substandard animals from a herd or flock. An animal is culled when it consistently fails to meet production targets - for example, a cow with persistently low milk yield, a hen that has stopped laying, or a breeding animal that is infertile. Culled animals are typically sold for slaughter rather than returned to the herd.

The other options describe temporary separation rather than permanent removal:

• Isolation is the temporary separation of a sick animal from healthy stock to prevent disease spread while the animal is treated.
• Confinement means keeping an animal within an enclosed space (pen, stall, cage); it does not imply the animal is being removed from the stock permanently.
• Quarantine is the temporary holding of newly arrived animals or animals suspected of carrying disease in a separate area for observation before they are allowed to join the main herd.

The critical distinction is that culling is permanent and driven by the animal's unproductiveness, whereas isolation and quarantine are temporary and driven by health concerns.