The present investigation deals with the cultural studies, pigment analysis, lipid profiling, total sugar content, extracellular ammonium excretion and molecular characterization of cyanobacterium Gloeotrichia ghosei BTA 9020 (NCBI accession no. KM435243). Initially isolate was identified and grouped on the basis of morphological features followed by chemotaxonomical and molecular attributes. The study revealed that investigated organism produced good amount of secondary metabolites in culture conditions during decline phase of growth; unsaturated fatty acid, namely; palmitic acid C16:0 was found highest (25.1%) followed by linolelaidic acid C18:2n6t (21.9%). The 16S rRNA sequence was compared with the retrieved cultures from NCBI GenBank database. Phylogenetic analysis was largely consistent which was obtained from 16S rRNA gene sequence analysis. Phylogenetic trees were constructed by UPGMA, maximum-parsimony and neighbour joining and the findings indicate that the genus Gloeotrichia is distantly related to the genus Calothrix and Rivularia
