Often a foul smell accompanies a bacterial soft rot infection. If you fail with prevention and end up with root rot, all may not be lost if the plant in question is small enough (for example, a perennial rather than a big tree or shrub) and if you have caught the problem in time. It causes the base of the trunk to rot and flake off, gum to ooze out, cracking in the trunk, leaves to go yellow and if it is really really bad the tree … Houseplants, which are notorious for root rot, can often be saved because they are growing in containers, giving you easy access to their roots. 104), MM. Collar rot is a fungal disease caused by the Phytophthora fungus, affecting mainly apple trees. 106, and, to a lesser degree, MM. In this zone, the plants must be able to withstand the freeze-and-thaw cycle as well as the mechanical abrasion of soil particles. Crown and collar rots occur at the soil line where the plant emerges. collar rot--infection above the tree union, crown rot--infection of the lower trunk and root bases, and; root rot--infection of the lateral and fibrous root system. It can also affect apricots. Phytophthora collar rot results in girdling of the scions, which are the new growth shoots and twigs. Disease Management. The following techniques are useful in managing apple crown and collar rot: Rootstock selection--Of the rootstocks preferred by growers, none is completely resistant to crown rot. Collar rot that is caused by the oomycete Phytophthora is causally called Phytophthora collar rot, and is a common disease of fruit and nut trees, as well as other flowers and crops. Trees can be affected by root rot and crown rot simultaneously. Infected trees can develop a sunken canker that is gray, purple, or dark brown on the bark near where it was joined in grafting. 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