Assessing Derawan Island’s Coral Reefs over Two Decades: A Machine Learning Classification Perspective
Abstract
:1. Introduction
2. Materials and Methods
2.1. Study Area
2.2. Data
2.2.1. Landsat-7
2.2.2. Landsat 9
2.2.3. Sentinel-2
2.2.4. Multispectral Aerial Photography
2.2.5. Underwater Photo Transects (UPT)
2.3. Methodology
2.3.1. Data Processing
- 1.
- Recapitulation and Validation of UPT Data and Multispectral Aerial Photography: To calculate the coverage of the coral reef ecosystem, the UPT (Underwater Photo Transect) data was processed using the Coral Net platform [41]. This UPT data, crucial for assessing the ecosystem coverage, involved capturing images with GoPro cameras and GPS sets for precise location data. Each image underwent a detailed analysis using a 10 × 10 grid pattern, totaling 100 points (Figure 3). At this stage, every UPT point represented a 50 × 50 cm area, providing a high-resolution view of the coral reef. This meticulous examination included classifying the benthic environment at each grid point into detailed categories such as hard coral, soft coral, sand, algae, rock, rubble, and seagrass. This comprehensive classification, as depicted in Figure 1h, facilitated an in-depth understanding of the diverse benthic habitats present in each image. Furthermore, the UPT point interpretation of the 50 × 50 cm areas served as a reference to upscale the analysis to larger areas of 10 × 10 m. In this scaling-up process, the classification scheme was simplified into broader categories: coral, sand-rubble, seagrass, and mixed bottom class (Figure 1i). This modification was essential for matching the UPT data with the grid used in Sentinel-2 multispectral aerial photography. This integration of fine-scale UPT analysis and larger-scale satellite data, along with the adjusted classification scheme, allowed for a more comprehensive monitoring and understanding of the coral reef ecosystem. It ensured that the ecosystem was analyzed in a detailed and multi-scaled manner, crucial for accurate ecosystem assessments and conservation efforts.
- 2.
- Benthic Habitat Classification: Prior to implementing the classification algorithms, we applied necessary corrections to the satellite and UAV imagery, including adjustments for water surface and water column using the Lyzenga algorithm (Depth Invariant Index-Yij) [42]. This preparatory step was crucial to account for variations due to water depth and surface conditions, ensuring a more accurate base for habitat analysis [43,44]. In this phase of our study, we aimed to harmonize the available datasets from different remote sensing platforms. Although we did not have Landsat 9 images from 2021, we used the closest available satellite imagery from 2022, along with Sentinel-2 images from the same year. This was complemented by UAV-based multispectral aerial photos taken in December 2021, coinciding with the date of the Underwater Photo Transects (UPT). This alignment in data collection dates allowed for a coherent framework in our comprehensive benthic habitat assessment, despite the slight temporal mismatch with the Landsat 9 data. Given the spatial resolution limitations of the satellite images, we simplified the detailed UPT classification scheme into broader categories more compatible with the satellite data. These categories included ‘coral’ (encompassing both hard and soft coral), ‘sand/rubble’ (merging sand and rubble), ‘seagrass’, and ‘mixed bottom’ (incorporating algae, rock, and other mixed elements). Such simplification was vital to align with the spatial resolution capabilities of the Landsat 7, Landsat 9, and Sentinel-2 imagery, thereby ensuring a more accurate and feasible classification process. We adapted the ground truth labels for algorithm training to this revised scheme and divided the dataset into training (70%) and testing (30%) sets. The accuracy of each classification algorithm—RF, SVM, and CART—was then assessed using the confusion matrix method, ensuring a robust evaluation of our benthic habitat classification approach.
- 3.
- Temporal Distribution Mapping: Following the machine learning classification tests, the best-performing algorithm was then applied to a comprehensive timeseries of satellite multispectral imagery. This timeseries spanned from 2003 to 2021 and included data from both Landsat 7 and Sentinel-2 satellites. This approach allowed us to analyze changes in the coral reef ecosystem of Derawan Island over an extended period, providing valuable insights into temporal patterns and trends. To facilitate a balanced and accurate comparison across different years and satellite sources, we resampled the Sentinel-2 satellite image classification results to a 30 m resolution. This was necessary to align with the resolution of the Landsat 7 satellite images. The combined and harmonized dataset was then visualized, where we constructed a detailed map showcasing the temporal distribution and evolution of the coral reef ecosystem from 2003 to 2021. This map not only highlighted the spatial changes but also served as a crucial tool for understanding the long-term environmental dynamics affecting the coral reefs around Derawan Island.
- 4.
- Mapping Changes in Coral Reef Habitat Density: After the temporal mapping of the coral reef ecosystem around Derawan Island from 2003, 2011, and 2021, we further refined our analysis by focusing exclusively on the coral reef class. We masked out all other classes from our classification results to isolate the coral reef areas. The next critical step involved calculating the density of the selected coral reef class areas, which was derived from our previous classification process. This calculation was achieved through RF regression analysis, correlating the observed coral reef density from the UPT dataset with the Yi band values. These computations utilized image reflectance data from the timeseries and Yij band values from the Depth Invariant Index algorithm. The indicator of coral reef density was an essential component in our study, offering insights into the spatial distribution and density changes of coral reefs over the studied period, thus providing a more nuanced understanding of the ecosystem’s dynamics and health.
- 5.
- Analysis of Spatial Distribution Patterns: To analyze the spatial distribution and temporal change patterns in the coral reef ecosystem around Derawan Island, we utilized the fishnet tool in GIS. This tool facilitated the creation of a grid-like quadrant area over the entire study region, effectively segmenting the area into smaller, manageable units. This segmentation was crucial for a detailed and systematic analysis of spatial patterns, as it allowed us to examine the distribution of coral reefs within each quadrant and observe variations across different sections of the study area.
2.3.2. Machine Learning Classification
- 1.
- Random Forest
- 2.
- Support Vector Machine
- 3.
- Classification and Regression Tree
3. Result
3.1. The Effect of Spatial Resolution on the Level of Classification Accuracy of the Machine Learning Algorithm
3.2. Temporal Pattern of Changes in Derawan Island Coral Reef Habitats in 2003, 2011, and 2021
3.3. Coral Reef Density over a Decade on Derawan Island
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
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Data | Resolution Time | Resolution Spatial | Time | Source |
---|---|---|---|---|
Landsat 7 | 16 Days | 30 m | 2003 and 2011 | USGS |
Landsat 9 | 16 Days | 30 m | 2022 | USGS |
Sentinel-2 | 5 Days | 10 m | 2021 and 2022 | European Union/ESA/Copernicus |
Multispectral Aerial Photography | One time | 8 cm | 2021 | In-situ data |
Underwater Photo Transects (UPT) | One time | - | 2021 | In-situ data |
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Manessa, M.D.M.; Ummam, M.A.F.; Efriana, A.F.; Semedi, J.M.; Ayu, F. Assessing Derawan Island’s Coral Reefs over Two Decades: A Machine Learning Classification Perspective. Sensors 2024, 24, 466. https://doi.org/10.3390/s24020466
Manessa MDM, Ummam MAF, Efriana AF, Semedi JM, Ayu F. Assessing Derawan Island’s Coral Reefs over Two Decades: A Machine Learning Classification Perspective. Sensors. 2024; 24(2):466. https://doi.org/10.3390/s24020466
Chicago/Turabian StyleManessa, Masita Dwi Mandini, Muhammad Al Fadio Ummam, Anisya Feby Efriana, Jarot Mulyo Semedi, and Farida Ayu. 2024. "Assessing Derawan Island’s Coral Reefs over Two Decades: A Machine Learning Classification Perspective" Sensors 24, no. 2: 466. https://doi.org/10.3390/s24020466
APA StyleManessa, M. D. M., Ummam, M. A. F., Efriana, A. F., Semedi, J. M., & Ayu, F. (2024). Assessing Derawan Island’s Coral Reefs over Two Decades: A Machine Learning Classification Perspective. Sensors, 24(2), 466. https://doi.org/10.3390/s24020466