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Title: Pond Crash Forensics: Presumptive identification of pond crash agents by next generation sequencing in replicate raceway mass cultures of Nannochloropsis salina

Abstract

Productivity of algal mass culture can be severely reduced by contaminating organisms. It is, therefore, important to identify contaminants, determine their effect on productivity and, ultimately, develop countermeasures against such contamination. In this paper, we utilized microbiome analysis by second-generation sequencing of small subunit rRNA genes to characterize the predator and pathogen burden of open raceway cultures of Nannochloropsis salina. Samples were analyzed from replicate raceways before and after crashes. In one culture cycle, we identified two algivorous species, the rotifer Brachionus and gastrotrich Chaetonotus, the presence of which may have contributed to the loss of algal biomass. In the second culture cycle, the raceways were treated with hypochlorite in an unsuccessful attempt to interdict the crash. Finally, our analyses were shown to be an effective strategy for the identification of the biological contaminants and the characterization of intervention strategies.

Authors:
 [1];  [2];  [1];  [1];  [2];  [2];  [2];  [1]; ORCiD logo [2];  [1]
  1. Sandia National Lab. (SNL-CA), Livermore, CA (United States). Systems Biology
  2. Texas A&M AgriLife Research and Extension Center, Corpus Christi, TX (United States). AgriLife Research Mariculture Lab. at Flour Bluff
Publication Date:
Research Org.:
Sandia National Lab. (SNL-CA), Livermore, CA (United States)
Sponsoring Org.:
USDOE Office of Energy Efficiency and Renewable Energy (EERE), Sustainable Transportation Office. Bioenergy Technologies Office (BETO)
Contributing Org.:
Texas A&M AgriLife Research and Extension Center, Corpus Christi, TX (United States)
OSTI Identifier:
1271304
Alternate Identifier(s):
OSTI ID: 1323980
Report Number(s):
SAND2015-5591J
Journal ID: ISSN 2211-9264; PII: S2211926416301679
Grant/Contract Number:  
AC04-94AL85000; NL0022897
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Algal Research
Additional Journal Information:
Journal Volume: 17; Journal ID: ISSN 2211-9264
Publisher:
Elsevier
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Algae mass culture; Biocontamination; Biomass algal crash; Second generation sequencing; Microbiome analysis

Citation Formats

Carney, Laura T., Wilkenfeld, Joshua S., Lane, Pam D., Solberg, Owen D., Fuqua, Zachary B., Cornelius, Nina G., Gillespie, Shaunette, Williams, Kelly P., Samocha, Tzachi M., and Lane, Todd W. Pond Crash Forensics: Presumptive identification of pond crash agents by next generation sequencing in replicate raceway mass cultures of Nannochloropsis salina. United States: N. p., 2016. Web. doi:10.1016/j.algal.2016.05.011.
Carney, Laura T., Wilkenfeld, Joshua S., Lane, Pam D., Solberg, Owen D., Fuqua, Zachary B., Cornelius, Nina G., Gillespie, Shaunette, Williams, Kelly P., Samocha, Tzachi M., & Lane, Todd W. Pond Crash Forensics: Presumptive identification of pond crash agents by next generation sequencing in replicate raceway mass cultures of Nannochloropsis salina. United States. https://doi.org/10.1016/j.algal.2016.05.011
Carney, Laura T., Wilkenfeld, Joshua S., Lane, Pam D., Solberg, Owen D., Fuqua, Zachary B., Cornelius, Nina G., Gillespie, Shaunette, Williams, Kelly P., Samocha, Tzachi M., and Lane, Todd W. 2016. "Pond Crash Forensics: Presumptive identification of pond crash agents by next generation sequencing in replicate raceway mass cultures of Nannochloropsis salina". United States. https://doi.org/10.1016/j.algal.2016.05.011. https://www.osti.gov/servlets/purl/1271304.
@article{osti_1271304,
title = {Pond Crash Forensics: Presumptive identification of pond crash agents by next generation sequencing in replicate raceway mass cultures of Nannochloropsis salina},
author = {Carney, Laura T. and Wilkenfeld, Joshua S. and Lane, Pam D. and Solberg, Owen D. and Fuqua, Zachary B. and Cornelius, Nina G. and Gillespie, Shaunette and Williams, Kelly P. and Samocha, Tzachi M. and Lane, Todd W.},
abstractNote = {Productivity of algal mass culture can be severely reduced by contaminating organisms. It is, therefore, important to identify contaminants, determine their effect on productivity and, ultimately, develop countermeasures against such contamination. In this paper, we utilized microbiome analysis by second-generation sequencing of small subunit rRNA genes to characterize the predator and pathogen burden of open raceway cultures of Nannochloropsis salina. Samples were analyzed from replicate raceways before and after crashes. In one culture cycle, we identified two algivorous species, the rotifer Brachionus and gastrotrich Chaetonotus, the presence of which may have contributed to the loss of algal biomass. In the second culture cycle, the raceways were treated with hypochlorite in an unsuccessful attempt to interdict the crash. Finally, our analyses were shown to be an effective strategy for the identification of the biological contaminants and the characterization of intervention strategies.},
doi = {10.1016/j.algal.2016.05.011},
url = {https://www.osti.gov/biblio/1271304}, journal = {Algal Research},
issn = {2211-9264},
number = ,
volume = 17,
place = {United States},
year = {Thu Jun 02 00:00:00 EDT 2016},
month = {Thu Jun 02 00:00:00 EDT 2016}
}

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Cited by: 42 works
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Works referenced in this record:

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Works referencing / citing this record:

The effect of the algal microbiome on industrial production of microalgae
journal, July 2018


Chemical Profiling of Volatile Organic Compounds in the Headspace of Algal Cultures as Early Biomarkers of Algal Pond Crashes
journal, September 2019


Chemical Profiling of Volatile Organic Compounds in the Headspace of Algal Cultures as Early Biomarkers of Algal Pond Crashes
journal, September 2019