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Title: Genome Sequence and Composition of a Tolyporphin-Producing Cyanobacterium-Microbial Community

Abstract

The cyanobacterial culture HT-58-2 was originally described as a strain of Tolypothrix nodosa with the ability to produce tolyporphins, which comprise a family of distinct tetrapyrrole macrocycles with reported efflux pump inhibition properties. Upon reviving the culture from what was thought to be a nonextant collection, studies of culture conditions, strain characterization, phylogeny, and genomics have been undertaken. Here, HT-58-2 was shown by 16S rRNA analysis to closely align with Brasilonema strains and not with Tolypothrix isolates. Light, fluorescence, and scanning electron microscopy revealed cyanobacterium filaments that are decorated with attached bacteria and associated with free bacteria. Metagenomic surveys of HT-58-2 cultures revealed a diversity of bacteria dominated by Erythrobacteraceae, 97% of which are Porphyrobacter species. A dimethyl sulfoxide washing procedure was found to yield enriched cyanobacterial DNA (presumably by removing community bacteria) and sequence data sufficient for genome assembly. The finished, closed HT-58-2Cyano genome consists of 7.85 Mbp (42.6% G+C) and contains 6,581 genes. All genes for biosynthesis of tetrapyrroles (e.g., heme, chlorophyll a, and phycocyanobilin) and almost all for cobalamin were identified dispersed throughout the chromosome. Among the 6,177 protein-encoding genes, coding sequences (CDSs) for all but two of the eight enzymes for conversion of glutamic acid tomore » protoporphyrinogen IX also were found within one major gene cluster. The cluster also includes 10 putative genes (and one hypothetical gene) encoding proteins with domains for a glycosyltransferase, two cytochrome P450 enzymes, and a flavin adenine dinucleotide (FAD)-binding protein. The composition of the gene cluster suggests a possible role in tolyporphin biosynthesis.« less

Authors:
 [1];  [2];  [2];  [3];  [2];  [4]
  1. North Carolina State Univ., Raleigh, NC (United States). Dept. of Plant and Microbial Biology; North Carolina State Univ., Raleigh, NC (United States). Dept. of Chemistry
  2. North Carolina State Univ., Raleigh, NC (United States). Dept. of Chemistry
  3. Univ. of Hawaii at Manoa, Honolulu, HI (United States)
  4. North Carolina State Univ., Raleigh, NC (United States). Dept. of Plant and Microbial Biology
Publication Date:
Research Org.:
Washington Univ., St. Louis, MO (United States); Energy Frontier Research Centers (EFRC) (United States). Photosynthetic Antenna Research Center (PARC)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22)
OSTI Identifier:
1389035
Grant/Contract Number:  
SC0001035
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Applied and Environmental Microbiology
Additional Journal Information:
Journal Volume: 83; Journal Issue: 19; Related Information: PARC partners with Washington University in St. Louis (lead); University of California, Riverside; University of Glasgow, UK; Los Alamos National Laboratory; University of New Mexico; New Mexico Corsortium; North Carolina State University; Northwestern University; Oak Ridge National Laboratory; University of Pennsylvania; Sandia National Laboratories; University of Sheffield, UK; Journal ID: ISSN 0099-2240
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; cyanobacteria; genome analysis; phylogenetic analysis; tetrapyrroles; tolyporphinsolar (fuels); photosynthesis (natural and artificial); biofuels (including algae and biomass); bio-inspired; charge transport; membrane; synthesis (novel materials); synthesis (self-assembly)

Citation Formats

Hughes, Rebecca-Ayme, Zhang, Yunlong, Zhang, Ran, Williams, Philip G., Lindsey, Jonathan S., and Miller, Eric S. Genome Sequence and Composition of a Tolyporphin-Producing Cyanobacterium-Microbial Community. United States: N. p., 2017. Web. doi:10.1128/AEM.01068-17.
Hughes, Rebecca-Ayme, Zhang, Yunlong, Zhang, Ran, Williams, Philip G., Lindsey, Jonathan S., & Miller, Eric S. Genome Sequence and Composition of a Tolyporphin-Producing Cyanobacterium-Microbial Community. United States. doi:10.1128/AEM.01068-17.
Hughes, Rebecca-Ayme, Zhang, Yunlong, Zhang, Ran, Williams, Philip G., Lindsey, Jonathan S., and Miller, Eric S. Fri . "Genome Sequence and Composition of a Tolyporphin-Producing Cyanobacterium-Microbial Community". United States. doi:10.1128/AEM.01068-17. https://www.osti.gov/servlets/purl/1389035.
@article{osti_1389035,
title = {Genome Sequence and Composition of a Tolyporphin-Producing Cyanobacterium-Microbial Community},
author = {Hughes, Rebecca-Ayme and Zhang, Yunlong and Zhang, Ran and Williams, Philip G. and Lindsey, Jonathan S. and Miller, Eric S.},
abstractNote = {The cyanobacterial culture HT-58-2 was originally described as a strain of Tolypothrix nodosa with the ability to produce tolyporphins, which comprise a family of distinct tetrapyrrole macrocycles with reported efflux pump inhibition properties. Upon reviving the culture from what was thought to be a nonextant collection, studies of culture conditions, strain characterization, phylogeny, and genomics have been undertaken. Here, HT-58-2 was shown by 16S rRNA analysis to closely align with Brasilonema strains and not with Tolypothrix isolates. Light, fluorescence, and scanning electron microscopy revealed cyanobacterium filaments that are decorated with attached bacteria and associated with free bacteria. Metagenomic surveys of HT-58-2 cultures revealed a diversity of bacteria dominated by Erythrobacteraceae, 97% of which are Porphyrobacter species. A dimethyl sulfoxide washing procedure was found to yield enriched cyanobacterial DNA (presumably by removing community bacteria) and sequence data sufficient for genome assembly. The finished, closed HT-58-2Cyano genome consists of 7.85 Mbp (42.6% G+C) and contains 6,581 genes. All genes for biosynthesis of tetrapyrroles (e.g., heme, chlorophyll a, and phycocyanobilin) and almost all for cobalamin were identified dispersed throughout the chromosome. Among the 6,177 protein-encoding genes, coding sequences (CDSs) for all but two of the eight enzymes for conversion of glutamic acid to protoporphyrinogen IX also were found within one major gene cluster. The cluster also includes 10 putative genes (and one hypothetical gene) encoding proteins with domains for a glycosyltransferase, two cytochrome P450 enzymes, and a flavin adenine dinucleotide (FAD)-binding protein. The composition of the gene cluster suggests a possible role in tolyporphin biosynthesis.},
doi = {10.1128/AEM.01068-17},
journal = {Applied and Environmental Microbiology},
issn = {0099-2240},
number = 19,
volume = 83,
place = {United States},
year = {2017},
month = {7}
}

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