I can't really comprehend as what you want to ask, or its just how you formulate the question it lost its sense. Why would anyone search for the plant genes in genome of bacteria.

Is it you want to ask, how does Bacillus strains affect the plant growth?

Abhijeet Singh i want to predict genes, in the genome of bacterial strains involved in Plant growth promotion.

You need to understand that bacterial genes do not promote growth in plant cells directly. It is based on the chemical interaction. Bacteria produce some chemicals and they enhance growth. So, look for the chemical and trace back gene.

Abhijeet Singh i know that bacterial genes can't promote plant growth directly but there are many bacterial products which are involved in promoting the plant growth as you have mentioned. I wanted to predict these genes by using software or website to make a link between product and gene sequence present in the genome.