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Cotton is one of the major cash crops in Australia since 1960s. Black root rot, caused by the fungal pathogen Berkeleyomyces rouxiae, poses a serious threat to cotton production by causing stunted growth, yield loss, and reduced fibre quality, thereby impacting the cotton industry's overall economy. This study aims to examine the genetic diversity and host interactions of B. rouxiae through three main objectives. The first objective involves utilising publicly available genomic sequence data to develop species-specific molecular markers to identify B. rouxiae in field samples. The markers will be validated on black root rot samples collected from various cotton fields. The second objective is to assess the pathogenicity of B. rouxiae isolates derived from cotton on a diverse array of potential host plants to determine their host range. Various legumes, cereals, a representative vegetable, and an oilseed crop will be tested. These experiments will involve inoculating the selected plant species with B. rouxiae isolates from cotton and monitoring the disease progression and severity across inoculated plants. As part of the third objective, extracellular self-DNA (self-eDNA) extracted from B. rouxiae will be optimised for purity and concentration, and then tested in cotton seedlings to evaluate its potential as an environmentally sustainable disease management tool. Expected outcomes of this study include development of species-specific molecular markers for rapid diagnosis of B. rouxiae infecting cotton, identification of host range of B. rouxiae isolates from cotton, and the development of an ecofriendly disease management strategy. These findings will enhance our knowledge on B. rouxiae infecting cotton to minimise its impact on cotton production in Australia.

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