title: dEMBF: A Comprehensive Database of Enzymes of Microalgal Biofuel Feedstock.
abstract: Microalgae have attracted wide attention as one of the most versatile renewable feedstocks for production of biofuel. To develop genetically engineered high lipid yielding algal strains, a thorough understanding of the lipid biosynthetic pathway and the underpinning enzymes is essential. In this work, we have systematically mined the genomes of fifteen diverse algal species belonging to Chlorophyta, Heterokontophyta, Rhodophyta, and Haptophyta, to identify and annotate the putative enzymes of lipid metabolic pathway. Consequently, we have also developed a database, dEMBF (Database of Enzymes of Microalgal Biofuel Feedstock), which catalogues the complete list of identified enzymes along with their computed annotation details including length, hydrophobicity, amino acid composition, subcellular location, gene ontology, KEGG pathway, orthologous group, Pfam domain, intron-exon organization, transmembrane topology, and secondary/tertiary structural data. Furthermore, to facilitate functional and evolutionary study of these enzymes, a collection of built-in applications for BLAST search, motif identification, sequence and phylogenetic analysis have been seamlessly integrated into the database. dEMBF is the first database that brings together all enzymes responsible for lipid synthesis from available algal genomes, and provides an integrative platform for enzyme inquiry and analysis. This database will be extremely useful for algal biofuel research. It can be accessed at http://bbprof.immt.res.in/embf.
authors.affiliation: Academy of Scientific and Innovative Research, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.|Bioresources Engineering Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.
authors.forename: Namrata
authors.initials: N
authors.lastname: Misra
authors.affiliation: Academy of Scientific and Innovative Research, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.|Bioresources Engineering Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.
authors.forename: Prasanna Kumar
authors.initials: PK
authors.lastname: Panda
authors.affiliation: Bioresources Engineering Department, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.
authors.forename: Bikram Kumar
authors.initials: BK
authors.lastname: Parida
authors.affiliation: Academy of Scientific and Innovative Research, CSIR-Institute of Minerals and Materials Technology, Bhubaneswar, Odisha, India.
authors.forename: Barada Kanta
authors.initials: BK
authors.lastname: Mishra
mesh_terms: D020418:Algal Proteins / Q000737:chemistry / Q000235:genetics; D020816:Amino Acid Motifs; D000596:Amino Acids / Q000032:analysis; D056804:Biofuels; D000460:Chlorophyta / Q000201:enzymology / Q000235:genetics; D019992:Databases as Topic; D030562:Databases, Protein; D004798:Enzymes; D063990:Gene Ontology; D058087:Haptophyta / Q000201:enzymology / Q000235:genetics; D057927:Hydrophobic and Hydrophilic Interactions; D050356:Lipid Metabolism / Q000235:genetics; D058086:Microalgae / Q000201:enzymology* / Q000235:genetics; D010802:Phylogeny; D011487:Protein Conformation; D059205:Renewable Energy; D000461:Rhodophyta / Q000201:enzymology / Q000235:genetics; D012984:Software; D058009:Stramenopiles / Q000201:enzymology / Q000235:genetics
chemical_list: D020418:Algal Proteins; D000596:Amino Acids; D056804:Biofuels; D004798:Enzymes