Cyanobacterial KnowledgeBase (CKB), a Compendium of Cyanobacterial Genomes and Proteomes.

Arul Prakasam Peter,Kaleel Ahamed Abdul Kareem,Uma Lakshmanan,Sangeetha Varadharaj,Subramanian Gopalakrishnan,Sivasudha Thilagar,Shylajanaciyar Mohandass,Karthick Lakshmanan,Prabaharan Dharmar,Christian Schönbach

doi:10.1371/journal.pone.0136262

Arul Prakasam Peter, Kaleel Ahamed Abdul Kareem + Show 8 more

Open Access

https://doi.org/10.1371/journal.pone.0136262

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Journal: PloS one	Publication Date: Aug 25, 2015
Citations: 12	License type: CC BY 4.0

Affiliation: Bharathidasan University

Abstract

Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders. The database also contains tools for sequence analysis. The Species report and the gene report provide details about each species and gene (including sequence features and gene ontology annotations) respectively. The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote). The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research. CKB is freely available at http://nfmc.res.in/ckb/index.html.

Highlights

Cyanobacteria comprise over 1,600 species with various morphologies and species-specific characteristics, such as cell movement, cell differentiation, and nitrogen fixation [1]
The database includes an informative tool called cyanoBLAST, which helps in comparative analysis between cyanobacterial genomes and the genomes of pro- and eu-karyote, such as E. coli and Arabidopsis
Seventy-four fully sequenced genomes of seven orders are currently included in the Cyanobacterial KnowledgeBase (CKB) database

Summary

Introduction

Cyanobacteria comprise over 1,600 species with various morphologies and species-specific characteristics, such as cell movement, cell differentiation, and nitrogen fixation [1] These are the only known oxygenic photosynthetic prokaryotic organisms that inhabit a wide range of ecological habitats (e.g., extreme cold, extreme hot, marine, fresh water, and terrestrial) and exhibit symbiotic associations with other living organisms. These primitive oxygenic Gram negative bacteria are widely used as a valuable model to study the mechanism of carbon fixation and helpful for evolutionary biologists to understand the endosymbiotic theory, as they are considered as the origin of chloroplast. The database includes an informative tool called cyanoBLAST, which helps in comparative analysis between cyanobacterial genomes and the genomes of pro- and eu-karyote, such as E. coli and Arabidopsis

Results and Discussion

Conclusions

Materials and Methods