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Article
Pyrosequencing of Bacterial Symbionts within Axinella corrugata Sponges: Diversity and Seasonal Variability
PLoS One
  • James R. White, Nova Southeastern University
  • Jignasa Patel, Nova Southeastern University
  • Andrea Ottesen, United States Food and Drug Administration
  • Gabriela Arce, United States Food and Drug Administration
  • Patricia Blackwelder, Nova Southeastern University; University of Miami
  • Jose V. Lopez, Nova Southeastern University
Document Type
Article
Publication Date
6-1-2012
Keywords
  • Bacteria,
  • Cyanobacteria,
  • Marine bacteria,
  • Ribosomal RNA,
  • Sea water,
  • Sequence analysis,
  • Sequence databases,
  • Sponges
Peer Reviewed
1
Abstract
Background: Marine sponge species are of significant interest to many scientific fields including marine ecology, conservation biology, genetics, host-microbe symbiosis and pharmacology. One of the most intriguing aspects of the sponge ‘‘holobiont’’ system is the unique physiology, interaction with microbes from the marine environment and the development of a complex commensal microbial community. However, intraspecific variability and temporal stability of sponge-associated bacterial symbionts remain relatively unknown. Methodology/Principal Findings: We have characterized the bacterial symbiont community biodiversity of seven different individuals of the Caribbean reef sponge Axinella corrugata, from two different Florida reef locations during variable seasons using multiplex 454 pyrosequencing of 16 S rRNA amplicons. Over 265,512 high-quality 16 S rRNA sequences were generated and analyzed. Utilizing versatile bioinformatics methods and analytical software such as the QIIME and CloVR packages, we have identified 9,444 distinct bacterial operational taxonomic units (OTUs). Approximately 65,550 rRNA sequences (24%) could not be matched to bacteria at the class level, and may therefore represent novel taxa. Differentially abundant classes between seasonal Axinella communities included Gammaproteobacteria, Flavobacteria, Alphaproteobacteria, Cyanobacteria, Acidobacter and Nitrospira. Comparisons with a proximal outgroup sponge species (Amphimedon compressa), and the growing sponge symbiont literature, indicate that this study has identified approximately 330 A. corrugata-specific symbiotic OTUs, many of which are related to the sulfur-oxidizing Ectothiorhodospiraceae. This family appeared exclusively within A. corrugata, comprising >34.5% of all sequenced amplicons. Other A. corrugata symbionts such as Deltaproteobacteria, Bdellovibrio, and Thiocystis among many others are described. Conclusions/Significance: Slight shifts in several bacterial taxa were observed between communities sampled during spring and fall seasons. New 16 S rDNA sequences and concomitant identifications greatly expand the microbial community profile for this model reef sponge, and will likely be useful as a baseline for any future comparisons regarding sponge microbial community dynamics.
Comments

©2012 White et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Additional Comments
NSF grant #: DEB-0829271
ORCID ID
0000-0002-1637-4125
ResearcherID
F-8809-2011
DOI
10.1371/journal.pone.0038204
Citation Information
White JR, Patel J, Ottesen A, Arce G, Blackwelder P, et al. (2012) Pyrosequencing of Bacterial Symbionts within Axinella corrugata Sponges: Diversity and Seasonal Variability. PLoS ONE 7(6): e38204. doi:10.1371/journal.pone.0038204