{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T01:00:43Z","timestamp":1760144443840,"version":"build-2065373602"},"reference-count":19,"publisher":"MDPI AG","issue":"4","license":[{"start":{"date-parts":[[2024,4,7]],"date-time":"2024-04-07T00:00:00Z","timestamp":1712448000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100005825","name":"National Institute of Food and Agriculture","doi-asserted-by":"publisher","award":["2018-38640-28418","SW19-906"],"award-info":[{"award-number":["2018-38640-28418","SW19-906"]}],"id":[{"id":"10.13039\/100005825","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Western Sustainable Agriculture Research and Education","award":["2018-38640-28418","SW19-906"],"award-info":[{"award-number":["2018-38640-28418","SW19-906"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Data"],"abstract":"<jats:p>Ironwood trees, which are of great importance for the economy and environment of tropical areas, were first discovered to suffer from a slow progressive dieback in Guam in 2002, later referred to as ironwood tree decline (IWTD). A variety of biotic factors have been shown to be associated with IWTD, including putative bacterial pathogens Ralstonia solanacearum and Klebsiella species (K. variicola and K. oxytoca), the fungus Ganoderma australe, and termites. Due to the soilborne nature of these pathogens, soil microbiomes have been suggested to be a significant factor influencing tree health. In this project, we sequenced the microbiome in the soil collected from the root region of healthy ironwood trees and those showing signs of IWTD to evaluate the association between the bacterial community in soil and IWTD. This dataset contains 4,782,728 raw sequencing reads present in soil samples collected from thirty-nine ironwood trees with varying scales of decline severity in Guam obtained via sequencing the V1\u2013V3 region of the 16S rRNA gene on the Illumina NovaSeq (2 \u00d7 250 bp) platform. Sequences were taxonomically assigned in QIIME2 using the SILVA 132 database. Firmicutes and Actinobacteria were the most dominant phyla in soil. Differences in soil microbiomes were detected between limestone and sand soil parent materials. No putative plant pathogens of the genera Ralstonia or Klebsiella were found in the samples. Bacterial diversity was not linked to parameters of IWTD. The dataset has been made publicly available through NCBI GenBank under BioProject ID PRJNA883256. This dataset can be used to compare the bacterial taxa present in soil associated with ironwood trees in Guam to bacteria communities of other geographical locations to identify microbial signatures of IWTD. In addition, this dataset can also be used to investigate the relationship between soil microbiomes and the microbiomes of ironwood trees as well as those of the termites which attack ironwood trees.<\/jats:p>","DOI":"10.3390\/data9040054","type":"journal-article","created":{"date-parts":[[2024,4,8]],"date-time":"2024-04-08T10:11:55Z","timestamp":1712571115000},"page":"54","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Illumina 16S rRNA Gene Sequencing Dataset of Bacterial Communities of Soil Associated with Ironwood Trees (Casuarina equisetifolia) in Guam"],"prefix":"10.3390","volume":"9","author":[{"given":"Tao","family":"Jin","sequence":"first","affiliation":[{"name":"Department of Entomology, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Robert L.","family":"Schlub","sequence":"additional","affiliation":[{"name":"College of Natural & Applied Sciences, University of Guam, Cooperative Extension Service, Mangilao 96923, Guam"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5962-9354","authenticated-orcid":false,"given":"Claudia","family":"Husseneder","sequence":"additional","affiliation":[{"name":"Department of Entomology, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2024,4,7]]},"reference":[{"key":"ref_1","unstructured":"(2022, August 26). University of Guam Cooperative Extension Service, Gago. Guam Ironwood Tree, Casuarina equisetifolia Past, Present, Future. Available online: https:\/\/projects.sare.org\/wp-content\/uploads\/Guam-Ironwood-Manual_8-26-22.pdf."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1007\/s13313-014-0341-4","article-title":"Identification and characterization of bacteria associated with decline of ironwood (Casuarina equisetifolia) in Guam","volume":"44","author":"Ayin","year":"2015","journal-title":"Australas. Plant Pathol."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"1902","DOI":"10.1093\/jee\/toz097","article-title":"Morphological and molecular species identification of termites attacking Ironwood trees, Casuarina equisetifolia (Fagales: Casuarinaceae), in Guam","volume":"112","author":"Park","year":"2019","journal-title":"J. Econ. Entomol."},{"key":"ref_4","doi-asserted-by":"crossref","unstructured":"Pinho, D., Barroso, C., Froufe, H., Brown, N., Vanguelova, E., Egas, C., and Denman, S. (2020). Linking tree health, rhizosphere physicochemical properties, and microbiome in acute oak decline. Forests, 11.","DOI":"10.3390\/f11111153"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1007\/s40725-019-00105-3","article-title":"The involvement of Phytophthora root rot and drought stress in holm oak decline: From ecophysiology to microbiome influence","volume":"5","year":"2019","journal-title":"Curr. For. Rep."},{"key":"ref_6","unstructured":"Gingerich, S.B., Keener, V., and Finucane, M.L. (2024, March 13). Climate Trends and Projections for Guam, Available online: https:\/\/pubs.usgs.gov\/publication\/70145880."},{"key":"ref_7","unstructured":"Deenik, J. (2010). Guam Grazing and Livestock Management Workshop, University of Hawaii. Available online: https:\/\/manoa.hawaii.edu\/ctahr\/tpalm\/pdfs-marianas\/pdfs\/vol_one\/2_soils_management\/soils_guam_2010_notes.pdf."},{"key":"ref_8","unstructured":"(2024, March 13). Web Soil Survey, Available online: https:\/\/websoilsurvey.nrcs.usda.gov\/app\/."},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"Estaki, M., Jiang, L., Bokulich, N.A., McDonald, D., Gonzalez, A., Kosciolek, T., Martino, C., Zhu, Q., Birmingham, A., and Vazquez-Baeza, Y. (2020). QIIME 2 enables comprehensive end-to-end analysis of diverse microbiome data and comparative studies with publicly available data. Curr. Protoc. Bioinform., 70.","DOI":"10.1002\/cpbi.100"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"109286","DOI":"10.1016\/j.dib.2023.109286","article-title":"Next-generation sequencing dataset of bacterial communities of Microcerotermes crassus workers associated with Ironwood trees (Casuarina equisetifolia) in Guam","volume":"48","author":"Setia","year":"2023","journal-title":"Data Brief"},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"Setia, G., Chen, J., Schlub, R.L., and Husseneder, C. (2023). Taxonomic profiling of Nasutitermes takasagoensis microbiota to investigate the role of termites as vectors of bacteria linked to ironwood tree decline in Guam. PLoS ONE, 18.","DOI":"10.1371\/journal.pone.0296081"},{"key":"ref_12","first-page":"32","article-title":"A new method for non-parametric multivariate analysis of variance","volume":"26","author":"Anderson","year":"2001","journal-title":"Austral Ecol."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"8228","DOI":"10.1128\/AEM.71.12.8228-8235.2005","article-title":"UniFrac: A new phylogenetic method for comparing microbial communities","volume":"71","author":"Lozupone","year":"2005","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"6955","DOI":"10.1073\/pnas.82.20.6955","article-title":"Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses","volume":"82","author":"Lane","year":"1985","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_15","unstructured":"Stackebrandt, E., and Goodfellow, M. (1991). Nucleic Acid Techniques in Bacterial Systematics, John Wiley and Sons."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"581","DOI":"10.1038\/nmeth.3869","article-title":"DADA2: High-resolution sample inference from Illumina amplicon data","volume":"13","author":"Callahan","year":"2016","journal-title":"Nat. Methods"},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"1451","DOI":"10.1111\/2041-210X.12613","article-title":"iNEXT: An R package for rarefaction and extrapolation of species diversity (Hill numbers)","volume":"7","author":"Hsieh","year":"2016","journal-title":"Methods Ecol. Evol."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"D590","DOI":"10.1093\/nar\/gks1219","article-title":"The SILVA ribosomal RNA gene database project: Improved data processing and web-based tools","volume":"41","author":"Quast","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"ref_19","doi-asserted-by":"crossref","unstructured":"Gomez-Aparicio, L., Dominguez-Begines, J., Villa-Sanabria, E., Garc\u00eda, L.V., and Munoz-Pajares, A.J. (2022). Tree decline and mortality following pathogen invasion alters the diversity, composition and network structure of the soil microbiome. Soil. Biol. 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