Comparative genomics analysis of c-di-GMP metabolism and regulation in Microcystis aeruginosa

BMC Genomics
Meng ChenLi Li

Abstract

Cyanobacteria are of special concern because they proliferate in eutrophic water bodies worldwide and affect water quality. As an ancient photosynthetic microorganism, cyanobacteria can survive in ecologically diverse habitats because of their capacity to rapidly respond to environmental changes through a web of complex signaling networks, including using second messengers to regulate physiology or metabolism. A ubiquitous second messenger, bis-(3',5')-cyclic-dimeric-guanosine monophosphate (c-di-GMP), has been found to regulate essential behaviors in a few cyanobacteria but not Microcystis, which are the most dominant species in cyanobacterial blooms. In this study, comparative genomics analysis was performed to explore the genomic basis of c-di-GMP signaling in Microcystis aeruginosa. Proteins involved in c-di-GMP metabolism and regulation, such as diguanylate cyclases, phosphodiesterases, and PilZ-containing proteins, were encoded in M. aeruginosa genomes. However, the number of identified protein domains involved in c-di-GMP signaling was not proportional to the size of M. aeruginosa genomes (4.97 Mb in average). Pan-genome analysis showed that genes involved in c-di-GMP metabolism and regulation are conservative in M. aeru...Continue Reading

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Datasets Mentioned

BETA
PCC9808
NIES843

Software Mentioned

STRING
AutoMated Phylogenomic inference Application−AMPHORA2
FaBox Fasta Alignment Joiner
tanglegram
QMEAN
CheckM
Dendroscope
Prokaryotic Genome Annotation Pipeline
MUSCLE
Simple Modular Architecture Research Tool ( SMART )

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