Dataset, R code and PRIMER file for: Limitations of ARMS in Detecting Predator Effects on Coral Reef Benthic Assemblages

This dataset accompanies the manuscript “Limitations of Autonomous Reef Monitoring Structures (ARMS) in Detecting Predator Effects on Coral Reef Benthic Assemblages”, submitted to the Journal of Experimental Marine Biology and Ecology. It contains all data and scripts required to reproduce the main figures and tables presented in the article and supplementary material. The dataset includes: data_raw.xlsx: A multi-sheet Excel file with the following content: mobile_fauna: Abundance of mobile organisms per ARMS unit (R-readable format). mobile_fauna PRIMER: Same abundance data formatted for PRIMER v7. sessile: Relative cover of sessile organisms (CATAMI categories) per ARMS unit (R-readable format). sessile PRIMER: Same cover data formatted for PRIMER v7. taxonomy_mobile: Taxonomic reference (phylum, family) for mobile fauna. CATAMI_reference: List and definitions of CATAMI classification codes used in the sessile dataset. codes_figures_tables.R: R script used to generate: Figure 2: Diversity and abundance of mobile taxa by treatment and block. Figure 3: mMDS ordination of mobile fauna composition. Figure 5: mMDS ordination of sessile assemblages. Supplementary Tables 2, 3, and 4: Summary of family-level richness and abundance. PERMANOVA_shadeplot.pwk: Workspace file for PRIMER v7 + PERMANOVA+, used to conduct multivariate analyses and generate: PERMANOVA results (Tables 2 and 3 of the manuscript). Figure 4: Optimized shadeplot of sessile cover data. All data were collected and analyzed as part of Damián Cedillo Reyna’s master’s thesis at UNAM, supported by the project PAPIIT IN208124. Please cite this dataset if reusing any of the materials.本数据集配套投稿于《实验海洋生物学与生态学杂志》（Journal of Experimental Marine Biology and Ecology）的论文《自主礁监测结构（Autonomous Reef Monitoring Structures, ARMS）在检测捕食者对珊瑚礁底栖组合影响中的局限性》。本数据集包含复现该论文及补充材料中所有主图与附表所需的全部数据与脚本。 数据集包含以下内容： `data_raw.xlsx`：多工作表Excel文件，内含以下内容： - `mobile_fauna`：每个ARMS单元的移动生物丰度数据（R语言可读格式）。 - `mobile_fauna PRIMER`：适配PRIMER v7的同款移动生物丰度数据。 - `sessile`：每个ARMS单元的固着生物相对盖度数据（采用CATAMI分类体系（CATAMI））（R语言可读格式）。 - `sessile PRIMER`：适配PRIMER v7的同款固着生物盖度数据。 - `taxonomy_mobile`：移动生物的分类学参考信息，涵盖门、科分类层级。 - `CATAMI_reference`：固着生物数据集所用CATAMI分类编码的列表与定义说明。 `codes_figures_tables.R`：用于生成以下图表的R脚本： - 图2：不同处理组与区组下移动类群的多样性及丰度。 - 图3：移动生物群落组成的非度量多维标度（non-metric Multidimensional Scaling, mMDS）排序图。 - 图5：固着生物组合的mMDS排序图。 - 补充表2、3、4：科级丰富度与丰度汇总表。 `PERMANOVA_shadeplot.pwk`：PRIMER v7 + PERMANOVA+工作空间文件，用于开展多变量统计分析并生成以下结果： - PERMANOVA分析结果（对应论文的表2、表3）。 - 图4：固着生物盖度数据的优化阴影图（shadeplot）。 所有数据采集与分析工作均为达米安·塞迪略·雷纳（Damián Cedillo Reyna）在墨西哥国立自治大学（Universidad Nacional Autónoma de México, UNAM）完成的硕士论文研究内容，获项目PAPIIT IN208124资助。若复用本数据集的任何材料，请务必引用本数据集。