Next-generation sequencing dataset of bacterial communities of Microcerotermes crassus workers associated with Ironwood trees (Casuarina equisetifolia) in Guam

Setia, Garima; Schlub, Robert L.; Husseneder, Claudia

doi:10.1016/j.dib.2023.109286

Cited by 2 publications

(3 citation statements)

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“…A total of 4,782,728 raw sequencing reads were obtained with 27F as the forward primer and 519Rmod and 519Rmodbio as reverse primers [10] to capture a broad array of bacterial diversity across soil samples collected from the 39 ironwood trees in Guam. A total of 3,337,420 sequence reads represented by 28,563 unique Amplicon Sequence Variants (ASVs) remained after quality-filtering using DADA2 and merging of amplicons obtained with both reverse primer sets for each sample.…”

Section: Sample Name Sra Number Accession Linkmentioning

confidence: 99%

“…Four indices, i.e., ASV richness, Pielou's evenness, Shannon diversity, and Faith's PD, were used to perform alpha-diversity analysis on the dataset after rarefaction to a common sequencing depth of 3200 per sample. Kruskal-Wallis ANOVA with Benjamini-Hochberg correction was used to determine the group significance for factors with categorical data: location, presence of Ralstonia in trees as measured with the Agdia Strip test, tree decline severity as measured by visual inspection of fullness and dieback of branches (symptomless, slightly damaged, distinctly damaged, heavily damaged, and nearly dead), altitude classification (high ≥ 100 m and low < 100 m above sea level), parent material (limestone, sand, and tuff), and site management (no maintenance, moderately managed, and highly managed) [10,11]. Spearman rank tests were used to assess the correlations for factors with numerical data including altitude, percentage of dead trees in plot, and percentage of trees with termites in plot (for a detailed description of these factors, see [10,11]).…”

Section: Sample Name Sra Number Accession Linkmentioning

confidence: 99%

“…This dataset could be used to assess whether soilborne microbiomes are the source of these or other putative pathogens; • This dataset describes bacterial communities present in soil collected from under ironwood trees with varying scales of decline severity in Guam. Microbiologists can use this dataset to compare the bacteria in soil with those found in other geographic regions that are affected by IWTD; • These data can be utilized by microbiologists and plant pathologists to understand if there is an association between the microbiota of soil and the microbiota of the ironwood trees and the termites infesting those trees [10,11].…”

Section: User Notesmentioning

confidence: 99%

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Illumina 16S rRNA Gene Sequencing Dataset of Bacterial Communities of Soil Associated with Ironwood Trees (Casuarina equisetifolia) in Guam

Jin,

Schlub,

Husseneder

2024

Data

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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–V3 region of the 16S rRNA gene on the Illumina NovaSeq (2 × 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.

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Section: Sample Name Sra Number Accession Linkmentioning

confidence: 99%

Section: Sample Name Sra Number Accession Linkmentioning

confidence: 99%

Section: User Notesmentioning

confidence: 99%

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Illumina 16S rRNA Gene Sequencing Dataset of Bacterial Communities of Soil Associated with Ironwood Trees (Casuarina equisetifolia) in Guam

Jin,

Schlub,

Husseneder

2024

Data

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Assessment of bacterial communities of Coptotermes gestroi termite workers attacking Ironwood trees (Casuarina equisetifolia) in Guam for the presence of Ironwood tree decline-associated pathogens

Setia,

Chen,

Schlub

et al. 2024

Front. Microbiol.

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The Ironwood tree (Casuarina equisetifolia) holds a significant ecological role in Guam where a decline in Ironwood trees was first documented in 2002. Studies have linked the Ironwood tree decline (IWTD) to bacteria from the Ralstonia solanacearum complex and wetwood bacteria, specifically Klebsiella oxytoca and Klebsiella variicola. Presence of termites was first found to be associated with IWTD in 2010; however, the role of termites in IWTD is still not clear. The Asian subterranean termite, Coptotermes gestroi (Wasmann) (Blattodea: Rhinotermitidae) frequently attacks Ironwood trees. As workers of this soil-dwelling species of the lower termites harbor a diverse microbial community in their bodies, we examined whether C. gestroi workers carry IWTD-associated bacteria and could, therefore, act as vectors. We described the bacterial community in C. gestroi workers using 16S rRNA gene sequencing and tested the impact of factors related to the location and health of the Ironwood tree the termites were collected from on termite bacterial diversity. Feeding assays were performed to assess if workers show preference in consumption depending on the amount of Ralstonia and wetwood bacteria in the food source. Health of Ironwood trees and level of site management impacted the bacterial composition of C. gestroi termite workers attacking the trees. Although C. gestroi workers equally consumed food sources with high and low Ralstonia and wetwood bacteria load in lab experiments, Ralstonia and other IWTD-related bacteria were not detected in considerable amounts in termite workers collected from trees. Thus, C. gestroi workers are not a vector for bacteria associated with IWTD in Guam.

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Next-generation sequencing dataset of bacterial communities of Microcerotermes crassus workers associated with Ironwood trees (Casuarina equisetifolia) in Guam

Cited by 2 publications

References 11 publications

Illumina 16S rRNA Gene Sequencing Dataset of Bacterial Communities of Soil Associated with Ironwood Trees (Casuarina equisetifolia) in Guam

Illumina 16S rRNA Gene Sequencing Dataset of Bacterial Communities of Soil Associated with Ironwood Trees (Casuarina equisetifolia) in Guam

Assessment of bacterial communities of Coptotermes gestroi termite workers attacking Ironwood trees (Casuarina equisetifolia) in Guam for the presence of Ironwood tree decline-associated pathogens

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