Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea

Elena Lara, Karin Holmfeldt, Natalie Solonenko, Elisabet Laia Sà, J. Cesar Ignacio-Espinoza, Francisco M. Cornejo-Castillo, Nathan C. Verberkmoes, Dolors Vaqué, Matthew Sullivan, Silvia G. Acinas

Research output: Contribution to journalArticle

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Abstract

Marine viruses (phages) alter bacterial diversity and evolution with impacts on marine biogeochemical cycles, and yet few well-developed model systems limit opportunities for hypothesis testing. Here we isolate phage B8b from the Mediterranean Sea using Pseudoalteromonas sp. QC-44 as a host and characterize it using myriad techniques. Morphologically, phage B8b was classified as a member of the Siphoviridae family. One-step growth analyses showed that this siphovirus had a latent period of 70 min and released 172 new viral particles per cell. Host range analysis against 89 bacterial host strains revealed that phage B8b infected 3 Pseudoalteromonas strains (52 tested, >99.9%16S rRNA gene nucleotide identity) and 1 non-Pseudoaltermonas strain belonging to Alteromonas sp. (37 strains from 6 genera tested), which helps bound the phylogenetic distance possible in a phage-mediated horizontal gene transfer event. The Pseudoalteromonas phage B8b genome size was 42.7 kb, with clear structural and replication modules where the former were delineated leveraging identification of 16 structural genes by virion structural proteomics, only 4 of which had any similarity to known structural proteins. In nature, this phage was common in coastal marine environments in both photic and aphotic layers (found in 26.5% of available viral metagenomes), but not abundant in any sample (average per sample abundance was 0.65% of the reads). Together these data improve our understanding of siphoviruses in nature, and provide foundational information for a new 'rare virosphere' phage-host model system.

Original languageEnglish (US)
Article numbere0114829
JournalPLoS One
Volume10
Issue number1
DOIs
StatePublished - Jan 14 2015

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Pseudoalteromonas
Mediterranean Sea
Bacteriophages
bacteriophages
lifestyle
Life Style
Genes
Genome
genome
virion
Virion
Siphoviridae
Alteromonas
Metagenome
Gene transfer
Genome Size
host strains
Horizontal Gene Transfer
latent period
structural genes

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

Lara, E., Holmfeldt, K., Solonenko, N., Sà, E. L., Ignacio-Espinoza, J. C., Cornejo-Castillo, F. M., ... Acinas, S. G. (2015). Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea. PLoS One, 10(1), [e0114829]. https://doi.org/10.1371/journal.pone.0114829

Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea. / Lara, Elena; Holmfeldt, Karin; Solonenko, Natalie; Sà, Elisabet Laia; Ignacio-Espinoza, J. Cesar; Cornejo-Castillo, Francisco M.; Verberkmoes, Nathan C.; Vaqué, Dolors; Sullivan, Matthew; Acinas, Silvia G.

In: PLoS One, Vol. 10, No. 1, e0114829, 14.01.2015.

Research output: Contribution to journalArticle

Lara, E, Holmfeldt, K, Solonenko, N, Sà, EL, Ignacio-Espinoza, JC, Cornejo-Castillo, FM, Verberkmoes, NC, Vaqué, D, Sullivan, M & Acinas, SG 2015, 'Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea', PLoS One, vol. 10, no. 1, e0114829. https://doi.org/10.1371/journal.pone.0114829
Lara E, Holmfeldt K, Solonenko N, Sà EL, Ignacio-Espinoza JC, Cornejo-Castillo FM et al. Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea. PLoS One. 2015 Jan 14;10(1). e0114829. https://doi.org/10.1371/journal.pone.0114829
Lara, Elena ; Holmfeldt, Karin ; Solonenko, Natalie ; Sà, Elisabet Laia ; Ignacio-Espinoza, J. Cesar ; Cornejo-Castillo, Francisco M. ; Verberkmoes, Nathan C. ; Vaqué, Dolors ; Sullivan, Matthew ; Acinas, Silvia G. / Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea. In: PLoS One. 2015 ; Vol. 10, No. 1.
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