Computational protocol: Biocontrol of Sugarcane Smut Disease by Interference of Fungal Sexual Mating and Hyphal Growth Using a Bacterial Isolate

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Protocol publication

[…] Sequences analyses were performed using DNASTAR Lasergene SEQMAN program. Sequence similarities of 16S rRNA gene were determined using EzTaxon-eserver () and BLASTn program. Sequences of gyrB, rpoB, and rpoD genes of related strains were obtained from GenBank database. Sequences were aligned with ClustalW and phylogenetic trees were reconstructed using the neighbor-joining method with maximum composite likelihood model. Bootstrap analysis was performed based on 1000 replicates. The MEGA5 package was used for all the phylogenetic analyses (). The GenBank accession numbers of the 16S rRNA, gyrB, rpoB, and rpoD gene sequences of strain ST4 are KU496562, KU496563, KU496564, and KU496565, respectively. […]

Pipeline specifications

Software tools DNASTAR Lasergene, BLASTN, Clustal W, MEGA
Databases EzBioCloud
Applications Phylogenetics, Sanger sequencing
Organisms Solanum tuberosum
Diseases Mycoses
Chemicals Methanol, Fructose, Glucose, Maltose, Sucrose