Summary of Study ST003119
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001937. The data can be accessed directly via it's Project DOI: 10.21228/M8BM7V This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST003119 |
| Study Title | Bleach protects algal crops from novel pathogen but increases stress tolerance traits and virulence factors within the associated bacterial microbiome |
| Study Summary | Microalgae farming is a promising and growing industry. Most large-scale cultivation is done in open pond or raceway systems, as other approaches (e.g., photobioreactors) have high upfront capital costs. Open pond cultivation systems leave cultures vulnerable to contamination by pests including rotifers, ciliates, and flagellates that feed on microalgae. Pest organisms can either decrease algal productivity or lead to wholesale crop loss (i.e., a pond crash) which can significantly lower annual production rates and increase annual costs. Sodium hypochlorite is the active ingredient in bleach, an effective and inexpensive chlorine-based disinfectant commonly used at scale to protect algal crops. In this study, we investigate 1) if and how bleach treatment changes bacterial community composition, 2) if changes to bacterial composition result in changes in the functional potential of the bacterial community, 3) if an algal pathogen can be identified as the cause of pond crashes in untreated ponds, and finally, 4) explore the effect of bleach treatment on metabolic features present in bleached and unbleached ponds, 5) explore the effect of treatment on virulence factors associated with known human and animal pathogens. |
| Institute | National Renewable Energy Lab |
| Last Name | Deshpande |
| First Name | Arnav |
| Address | 15013 Denver West Parkway |
| arnav.deshpande@nrel.gov | |
| Phone | 7657759029 |
| Submit Date | 2024-03-07 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2025-09-09 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001937 |
| Project DOI: | doi: 10.21228/M8BM7V |
| Project Title: | Bleach protects algal crops from novel pathogen but increases stress tolerance traits and virulence factors within the associated bacterial microbiome |
| Project Summary: | Analysis of exometabolites in algal ponds cultivated with or without bleach treatment for pest management. The goal of this work is to uncover metabolic features that drive differences in bleach treated and unbleached algal cultivation ponds. Six ponds were used for the experiment, with three ponds managed for pests via sodium hypochlorite (ponds C2, C3, and C4), and three ponds unmanaged (A3, B2, and B4) and samples were taken at 7 different timepoints (1-7) from early growth phase at day 1 to day 16. |
| Institute: | National Renewable Energy Lab (NREL) |
| Department: | Bioscience |
| Laboratory: | Algae Lab |
| Last Name: | Deshpande |
| First Name: | Arnav |
| Address: | 15013 Denver West Parkway |
| Email: | arnav.deshpande@nrel.gov |
| Phone: | 7657759029 |
Subject:
| Subject ID: | SU003236 |
| Subject Type: | Water sample |
| Subject Species: | Algae |
| Species Group: | Algae |
Factors:
Subject type: Water sample; Subject species: Algae (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment | Timepoint | Sample source |
|---|---|---|---|---|
| SA338045 | S_1 | Bleached | 1 | Pond C2 |
| SA338046 | S_2 | Bleached | 1 | Pond C3 |
| SA338047 | S_3 | Bleached | 1 | Pond C4 |
| SA338048 | S_4 | Bleached | 2 | Pond C2 |
| SA338049 | S_5 | Bleached | 2 | Pond C3 |
| SA338050 | S_6 | Bleached | 2 | Pond C4 |
| SA338051 | S_7 | Bleached | 3 | Pond C2 |
| SA338052 | S_8 | Bleached | 3 | Pond C3 |
| SA338053 | S_9 | Bleached | 3 | Pond C4 |
| SA338054 | S_10 | Bleached | 4 | Pond C2 |
| SA338055 | S_11 | Bleached | 4 | Pond C3 |
| SA338056 | S_12 | Bleached | 4 | Pond C4 |
| SA338057 | S_13 | Bleached | 5 | Pond C2 |
| SA338058 | S_14 | Bleached | 5 | Pond C3 |
| SA338059 | S_15 | Bleached | 5 | Pond C4 |
| SA338060 | S_16 | Bleached | 6 | Pond C2 |
| SA338061 | S_17 | Bleached | 6 | Pond C3 |
| SA338062 | S_18 | Bleached | 6 | Pond C4 |
| SA338063 | S_19 | Bleached | 7 | Pond C2 |
| SA338064 | S_20 | Bleached | 7 | Pond C3 |
| SA338065 | S_21 | Bleached | 7 | Pond C4 |
| SA338066 | S_22 | Unbleached | 1 | Pond A3 |
| SA338067 | S_23 | Unbleached | 1 | Pond B2 |
| SA338068 | S_24 | Unbleached | 1 | Pond B4 |
| SA338069 | S_25 | Unbleached | 2 | Pond A3 |
| SA338070 | S_26 | Unbleached | 2 | Pond B2 |
| SA338071 | S_27 | Unbleached | 2 | Pond B4 |
| SA338072 | S_28 | Unbleached | 3 | Pond A3 |
| SA338073 | S_29 | Unbleached | 3 | Pond B2 |
| SA338074 | S_30 | Unbleached | 3 | Pond B4 |
| SA338075 | S_31 | Unbleached | 4 | Pond A3 |
| SA338076 | S_32 | Unbleached | 4 | Pond B2 |
| SA338077 | S_33 | Unbleached | 4 | Pond B4 |
| SA338078 | S_34 | Unbleached | 5 | Pond A3 |
| SA338079 | S_35 | Unbleached | 5 | Pond B2 |
| SA338080 | S_36 | Unbleached | 5 | Pond B4 |
| SA338081 | S_37 | Unbleached | 6 | Pond A3 |
| SA338082 | S_38 | Unbleached | 6 | Pond B2 |
| SA338083 | S_39 | Unbleached | 6 | Pond B4 |
| SA338084 | S_40 | Unbleached | 7 | Pond A3 |
| SA338085 | S_41 | Unbleached | 7 | Pond B2 |
| SA338086 | S_42 | Unbleached | 7 | Pond B4 |
| Showing results 1 to 42 of 42 |
Collection:
| Collection ID: | CO003229 |
| Collection Summary: | Samples were collected from all 6 ponds (bleached and unbleached) at 7 different times during algal growth. The algae was separated by centrifugation at 3700 rpm for 10 minutes. The supernatant was filtered through a 0.22μm filter. |
| Sample Type: | Culture Media |
| Collection Location: | New Mexico State University, Las Cruces |
| Collection Frequency: | 7 times over a 16 day culture period |
| Storage Conditions: | -20℃ |
Treatment:
| Treatment ID: | TR003245 |
| Treatment Summary: | Six ponds were used for the experiment, with three ponds managed for pests via sodium hypochlorite (ponds C2, C3, and C4), and three ponds unmanaged (A3, B2, and B4). The experiment was started on 9/27/2022 when the optical density at a wavelength of 750 nanometers (OD750) was measured at 0.5 for each pond and lasted for 16 days, concluding on 10/13/2022. Bleach was added to ponds C2, C3, and C4 on 09/30/22, 10/04/22, 10/07/22, and 10/11/22 at 15 ppm. |
Sample Preparation:
| Sampleprep ID: | SP003243 |
| Sampleprep Summary: | Algae separated by centrifugation at 3700 rpm for 10 mins followed by filtration using a 0.22μm filter |
Chromatography:
| Chromatography ID: | CH003869 |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Waters ACQUITY UPLC BEH Amide (150 x 2.1mm,1.7um) |
| Column Temperature: | 25°C |
| Flow Gradient: | 90% solvent B for 1 min followed by a linear gradient down to 75% solvent B for 23 min, a linear gradient down to 45% solvent B in 2 min, a linear gradient down to 25% B in 4 min, followed by a step to the starting composition of 90% B and hold for 6 min for column regeneration for a total run time of 36 min. |
| Flow Rate: | 0.2 mL/min |
| Internal Standard: | 1-13C Leucine |
| Sample Injection: | 20 µL |
| Solvent A: | 97% 18.2 mΩ-cm water/3% acetonitrile; 20 mM ammonium acetate; 15 mM ammonium hydroxide |
| Solvent B: | 95% acetonitrile/5% 18.2 mΩ-cm water; 20 mM ammonium acetate; 15 mM ammonium hydroxide |
| Chromatography Type: | HILIC |
Analysis:
| Analysis ID: | AN005113 |
| Analysis Type: | MS |
| Chromatography ID: | CH003869 |
| Has Mz: | 1 |
| Has Rt: | 1 |
| Rt Units: | Minutes |
| Results File: | ST003119_AN005113_Results.txt |
| Units: | Raw Area Count |
