Professional Spotlight – Power Plant Biologist

Professional Spotlight BioBase

For this Professional Spotlight the BioBase team sat down with a biologist at a power plant. They use BioBase to evaluate risk of cooling water intake blockage from aquatic vegetation.  This is one of many methods they use ensure abundant cooling water is available for the redundant intake systems.   In 2012, invasive zebra mussels invaded the system and paved the way for aquatic vegetation by clearing the water.  They map aquatic vegetation during the growing season and use the polygon tool to measure percent area covered and biovolume in the areas of interest.  Aquatic vegetation management recommendations are based on this data.  Before BioBase they took samples using a rake to determine what species were present and estimate the total biovolume. Now using BioBase they can easily measure biovolume at location with ease.

When asked why they chose to use BioBase they responded, “the value, there are a lot of options out there, most are expensive, but BioBase is not.”  Even at a low cost “it still produces very reliable data, BioBase is a high value product.”

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What Is BioBase?

What Is BioBase?

What is BioBase? BioBase uses off-the-shelf sonar technology and automatic cloud processing to create professional bathymetry, bottom composition, and aquatic vegetation maps. BioBase removes the labor intensive and high cost elements of acquiring high quality data very quickly so you can focus your efforts on aquatic resource management.

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Guest Blog: understanding growth patterns of invasive Flowering Rush and Eurasian watermilfoil in the Spokane River System.

Tamara Knudson
Limnologist
Spokane Tribal Fisheries
Airway Heights WA, USA

We recently began collection of baseline data on a small reservoir in northeast Washington State to gain a better understanding of the aquatic community and effects of the hydrological system on the flora and fauna. There is little public access and surveys along this stretch of river are limited. Flowering Rush and Eurasian Watermilfoil, both invasive plant species, have been identified in the reservoir, but distribution fluctuates coincident with changing water elevations and flows. Distribution of the plant community in the reservoir is not well understood. Traditional plant survey methods using the rake method are used to collect submerged plants, but the patches need to be located first. Bathymetric maps used previously were limited and we were looking for a good way to locate and map distribution of vegetation throughout the reservoir. Identification of the vegetation patches would allow us to target specific locations for invasive plant monitoring and inform fish surveys. To accomplish this, we used the Lowrance HDS12 with side and down scan capability. We made several tracks throughout the reservoir to maximize coverage and recorded all our movements on the Lowrance unit. The process was fairly simple…as we drove the boat around the reservoir, we recorded our tracks and saved the files as .sl3 files on the Lowrance unit, and uploaded them to the BioBase website. Once BioBase received the upload, they processed the data and we were then able to obtain bathymetric and vegetation heat maps that included vegetation percent biovolume such as the one shown below.

SpokaneR Vegetation

Since I was new to this product, I had a bit of a steep learning curve. [BioBase Product Expert] Ray Valley provided exceptional technical support in helping resolve challenges we faced during the initial setup and navigating the BioBase output. The outputs that we obtained from BioBase using the data (tracks) we recorded included bathymetry and aquatic distribution heat maps that provided a baseline for future invasive plant monitoring in this reservoir. Since we recorded several tracks, Biobase processed them individually which provides the user with the ability to look at smaller sections or to combine areas into a larger picture. The user should check the outputs to confirm the information provided in the outputs matches known site conditions. This information will be used to guide fish surveys and inform invasive species management in the reservoir. This product performed as promised by BioBase and met our expectations. We found this to be a valuable tool that we will continue to use for additional vegetative mapping and delineation to inform management of invasive species.

Training EcoSat Vegetation Classifications: User tips

What is EcoSat?
EcoSat delivers a one-of-it’s-kind semi-automated cloud processing of very high resolution satellite imagery to map nearshore vegetation and coastal benthic habitats.  EcoSat uses the latest multi-spectral imagery from reputable providers such as Digital Globe (World View 2,3 and 4), Airbus Defence and Space (Pleiades), and ESA’s Sentinel program and industry standard image processing techniques.  Sophisticated Amazon Web Service cloud infrastructure rapidly processes imagery, creates reports and imagery tiles, and delivers detailed habitat maps to user’s BioBase dashboard where it can be analyzed and shared.  Average turnaround time from imagery tasking order to delivery of results is 60 days.  The rapid and standard processing methods are allowing entities like the Florida Fish and Wildlife Conservation Commission to establish regular monitoring programs for emergent vegetation.  The extremely long and expensive one-off nature of conventional remote sensing mapping projects using non-repeatable tailored techniques has prevented natural resource entities from assessing the degree that habitats are changing as a result of environmental stressors such as invasive species invasions and climate change.

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Consumer Sonar for Bottom Mapping: Updated Reference List

Another FAQ we get is wondering if there are published studies using BioBase technology? There are many legacy applications on which the BioBase technology is based. Further, now that a sufficient passage of years has accumulated to support the research to publication cycle, we’re happy to share several BioBase-specific studies published in the peer-reviewed literature.  This is far from an exhaustive list and we’ve intentionally left out the niche growth in consumer side-scan technology for creating habitat maps.  If there are good published papers you know of that are not on this list, please share in the comments.

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BioBase 3 Step Process: Important Details!

A primary strength of BioBase EcoSound is its simplicity and that is reflected in the easy 3 step process of “Collect,” “Upload,” and “Analyze” (Figure 1).

Figure 1. The core process of EcoSound depicting the 3 Steps of “Collect,” “Upload,” and “Analyze.”

But there are many strategies that users can employ that will ensure that they will get the best EcoSound outputs possible.  We’ll focus on several questions under each of the three categories

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Analysis of Alternative Mapping Methods

Budgets are tight, time is short, labor resources and technical know-how are scarce.  These truths are the motivating force behind the ciBioBase system.  Recently, we ran an analysis that demonstrates the cost-effectiveness of ciBioBase.  We selected 3 peer-reviewed studies that demonstrated three alternative methods for whole lake assessments of vegetation abundance and compared the costs of producing a vegetation biovolume map with ciBioBase.  The first two studies Valley and Drake (2007) and Sabol et al. (2009) used a scientific-grade echosounder, associated software, and required expertise in hydroacoustics and Geographic Information Systems (GIS).  Hardware and software costs were adjusted to 2012 dollars which actually brought costs down to a total of $18,400.  These costs were amortized over 5 years at 5% interest and scaled to daily costs assuming use in a season would not typically exceed 45 days.  For both methods, hardware and software costs amounted to approximately $84 a day.  We did not factor in time on the water for any of these analyses, or the cost of training in hydroacoustics, geostatistics, and GIS.

Labor costs were relatively large in the Valley and Drake (2007) study because the authors were working in environments that exceeded the capability of the vegetation-detecting algorithm they were using.  Specifically, noisy signals generated in surface-growing vegetation canopies were thrown out and thus biasing biovolume (i.e., percent of the water column occupied by vegetation) downward.  Consequently,  Valley and Drake did ping-by-ping verification and reclassification where signals were obscured by surface-growing vegetation.  Summing the modest hardware and high labor costs to manually verify thousands of pings, the cost of producing a vegetation map in a 500-acre lake using methods described in Valley and Drake (2007) was approximately $1,288.

Labor costs were significantly lower in the Sabol et al. (2009) investigation because we assume vegetation did not grow to the surface in the Wisconsin study lake during the investigation and thus the vegetation algorithm processed individual files relatively quickly.  Taking the labor costs (10 hrs @ $25/hr) in Sabol et al. (2009) and adding in adjusted amortized hardware and annual maintenance costs, the costs of producing a map on a 500-acre lake was a much lower $357 compared with Valley and Drake (2007).
The third study evaluated the LAKEWATCH volunteer lake monitoring program administered by the University of Florida.  LAKEWATCH utilizes commercial-grade Lowrance sonar units to log data on bathymetry and vegetation height/biovolume (otherwise known as percent volume inhabited; Hoyer 2009).  Entry-level technicians analyze 100 random points from pooled transect files and record depth and estimate plant height to get a lake-wide estimate of percent area covered by vegetation and percent volume inhabited with aquatic plants.  Although the objective of LAKEWATCH is not to create high resolution vegetation maps, in order to make apples-to-apples comparisons, we had to scale-up the Hoyer (2009) method to reflect the same survey resolution (16,383 points) of the previous two methods.  This resulted in an incredibly high cost of $6,884 to produce the same type of vegetation map as described with the previous two methods.
ciBioBase 
Because we automate the analysis and mapping of vegetation, there is very little labor outside of conducting the survey, save for a recommended hour of reviewing the data after a trip and verifying the output.  Also, the hardware and software costs are minimal because we analyze data from Lowrance HDS-line sonar systems that are coupled with differentially corrected GPS systems and retail for $700-$2200.  Running the same calculations as the other methods, we estimated the per survey day cost of mapping a 500-acre lake was a very low $125; 2.8 times cheaper than the next lowest described by Sabol et al. (2009).

Daily Costs
Method Amortized Hardware Maint-enance Labor Subscription Cost Total      Cost
Valley and Drake (2007) $84 $23 $1,181  NA  $1,288
Sabol et al. (2009) $84 $23 $250  NA  $357
Hoyer (2009)* $3 $0 $6,881  NA  $6,884
ciBioBase $3 $0 $25 $97 $125
*High resolution vegetationmapping was not an objective of Hoyer (2009) and thus the following scaled-up cost estimates should be viewed as a hypothetical scenario for an equal comparison to other methods

The low rate of ciBioBase doesn’t consider any of the value-added features of ciBioBase such as:

·       Automation: No training needed in hydroacoustics, geostatistics, or GIS.  Our cloud-based software analyzes patterns in the acoustic signal and uses standard geostatistical techniques to produce accurate maps.
·       Centralization: As data from more systems is uploaded, algorithm performance is continually verified and enhanced.  These enhancements are constantly refined in the cloud and are pushed universally to all users, free of charge.

·       Crowd-sourcing: Multiple subscribers from an organization can contribute their data to an optional shared repository.  Organization members can leverage each other’s efforts and data to produce a single output.

·       Speed: Lowrance sonar units occupy little space on board (and actually are portable!) and come with a skimmer transducer that allows data collection of up to speeds of 10 mph.  As such a 500-acre lake may take half the time to traverse 25 mi of transect compared with methods 1 and 2.

·       Efficiency: Because there’s no “set-up and break down” with our method, hitting “record” is the extent of the effort you need to do to start logging data.  While doing so, you can be collecting other important fisheries, aquatic plant, or water quality data on the lake.
·       Data Visualization and Verification: We offer visual, geospatial tools to replay your trip and verify the automated output.

Log in and see for yourself! Go here and type demo@cibiobase.com for the login email and for the password enter “demo.”  You’ll first need Microsoft Silverlight, click here to check to see if you already have it installed on your PC or Mac or need to download it.
Literature Cited
Hoyer, M.V. 2009. Calculations for successful planning. Lakeline Spring 2009: 39-42.

Sabol, B.M., Kannenberg, J., and Skogerboe, J.G. 2009. Integrating acoustic mapping into
              operational aquatic plant management : a case study in Wisconsin. Journal of Aquatic Plant
              Management 44-52.

Valley, R.D. and M.T. Drake 2007. What does resilience of a clear-water state in lakes mean for the spatial heterogeneity of submersed macrophyte biovolume? Aquatic Botany 87: 307-319.
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