DOI: 10.5061/dryad.7d7wm384p
title: Histological and TEM data: A major ecological niche of eosinophils in evolving Schistosoma granulomas challenges the eosinophil view as “helminth killer” cells

description: These datasets were collected to evaluate the spatial-temporal
 distribution of eosinophils within evolutional granulomas formed in the
 liver during experimental (Swiss mice) and natural (water-rat Nectomys
 squamipes) infections with Schistosoma mansoni, the causative agent of
 schistosomiasis mansoni, a neglected tropical disease.
description: # **Histological and TEM data: A major ecological niche of eosinophils in
 evolving *Schistosoma* granulomas challenges the eosinophil view as
 helminth killer cells**
 [https://doi.org/10.5061/dryad.7d7wm384p](https://doi.org/10.5061/dryad.7d7wm384p) **Description of the data and file structure** These datasets were collected to evaluate the spatial-temporal distribution of eosinophils within evolutional granulomas formed in the liver during experimental (*Swiss* mice) and natural (water-rat *Nectomys squamipes*) infections with *Schistosoma mansoni*, the causative agent of schistosomiasis mansoni. All data refer to the histopathology of hepatic granulomas in mice with acute and chronic *S. mansoni* infection (n=6 mice/group) or in water rats naturally infected with this parasite (n=4). Liver sections were serially acquired, stained, and digitalized through whole slide imaging (WSI). Liver fragments were also processed for transmission electron microscopy (TEM), and the resulting micrographs were analyzed using Fiji software (NIH ImageJ; NIH, Bethesda, MD). **Files and variables** **Abbreviations (for all data sets):** * **AI:** Acute infection. * **CI:** Chronic infection. * **AC:** Acute and Chronic infection. * **N:** Nectomys squamipes (Water rat) naturally infected. * **stage_; stage_0; stage_00; stage_000:** evolutive stage of granulomas according to experimental models and type of infection. * **PE:** Pre-granulomatous exudative (a pre-granulomatous reaction). * **NE:** Necrotic-exudative granuloma. * **EP:** Exudative-productive granuloma. * **P:** Productive granuloma. * **eos:** Eosinophils. * **PMD:** piecemeal degranulation. * **H&E:** Hematoxyin and eosin staining. * **WSI:** Whole slide image **File: Dataset_1_granuloma_classification.xls** **Description:** The dataset includes one CSV file containing one sheet (Granuloma_stages) with a table with eight columns and 443 rows. WSI scans of H&E-stained liver sections from *Swiss* mice or *Nectomys squamipes* (water rat) were outlined, and granulomas were classified per evolutive stage (PE, NE, EP, P). **Table Structure:** Columns/row 1: Labels. Rows 2 to 443: acquired data. ·         Column A: Serial number of granulomas from AI. ·         Column B: evolutive stage of granulomas. ·         Column C: Serial number of granulomas from CI. ·         Column D: evolutive stage of granulomas. ·         Column E: Serial number of granulomas from AC. ·         Column F: evolutive stage of granulomas. ·         Column G: Serial number of granulomas from N. ·         Column F: evolutive stage of granulomas. **Usage of data:** With these data, it is possible to acquire the number and the proportion of each granuloma evolutive stage in each model of *Schistosoma* infection. **File: Dataset_2_granuloma_area.xls** **Description:** The dataset includes one CSV file containing one sheet (Granuloma_area(mm^2)) with a table with 12 columns and 443 rows. WSI scans of granulomas stained with H&E from experimental (AI, CI, AC) and natural (N) models of *S. mansoni* were classified per evolutive stage (PE, NE, EP, P). The area of individual granulomas was measured using Pannoramic Viewer 1.15.2 SP2 RTM (3D Histechkft.) and Histoquant (3D Histech kft.) software. **Table Structure:** Columns/row 1: Labels. Rows 2 to 443: acquired data. ·         Column A: Serial number of granulomas from *S. mansoni*-infected *Swiss* mice or N*ectomys squamipes*. ·         Column B to L: Area (mm^2) of granulomas in different evolutive stages from the models of infection. **Usage of data:** With these data, it is possible to compare the mean size (area) of granuloma in each evolutive stage and/or in each model of *Schistosoma* infection. **File: Dataset_3_number_of_cells.xls** **Description:** The dataset includes one CSV file containing one sheet (Number_of_cell_per_granuloma) with a table with 12 columns and 244 rows. WSI scans of granulomas stained with H&E from experimental (AI, CI, AC) and natural (N) models of *S. mansoni* were classified per evolutive stage (PE, NE, EP, P). The number of cells was quantified using Pannoramic Viewer 1.15.2 SP2 RTM (3D Histechkft.) and Histoquant (3D Histech kft.) software in each granuloma. **Table Structure:** Columns/row 1: Labels. Rows 2 to 244: acquired data. ·         Column A: Serial number of granulomas from *S. mansoni*-infected *Swiss* mice or *Nectomys squamipes*. ·         Column B to L: Number of cells of granulomas in different evolutive stages from the models of infection. \** ** **Usage of data:** With these data, it is possible to compare the mean of the number of cells per granuloma in each evolutive stage and/or in each model of *Schistosoma* infection. **File: Dataset_4_number_of_eosinophils.xls** **Description:** The dataset includes one CSV file containing one sheet (number_of_eos_per_granuloma) with a table with 12 columns and 244 rows. WSI scans of H&E-stained sections were obtained from experimental (AI, CI, AC) and natural (N) models of *S. mansoni* infection. After outlined, granulomas were classified per evolutive stage (PE, NE, EP, P) and the number of eosinophils of individual granulomas was measured using Pannoramic Viewer 1.15.2 SP2 RTM (3D Histechkft.) and Histoquant (3D Histech kft.) software. **Table Structure:** Columns/row 1: Labels. Rows 2 to 244: acquired data. ·         Column A: Serial number of granulomas from *S. mansoni*-infected *Swiss* mice or *Nectomys squamipes*. ·         Column B to L: Number of eosinophils of granulomas in different evolutive stages from different models of infection. **Usage of data:** With these data, it is possible to compare the mean of the number of eosinophils per granuloma in each evolutive stage and/or in each model of *Schistosoma* infection. **File: Dataset_5_proportion_of_eosinophils_zone.xls** **Description:** The dataset includes one CSV file containing one sheet (%_of_eos_per_granuloma_zone) with a table with 34 columns and 210 rows. WSI scans of H&E-stained sections were obtained from experimental (AI, CI, AC) and natural (N) models of *S. mansoni* infection. After outlined, granulomas were classified per evolutive stage (PE, NE, EP, P). Next, the number of eosinophils in individual granulomas was quantified across different spatial zones: (i) the periovular zone, located near the parasite egg; (ii) the peripheral zone, adjacent to the granuloma border; and (iii) the medial zone, situated between the periovular and peripheral zones. Quantitative analyses was performed using Pannoramic Viewer 1.15.2 SP2 RTM and HistoQuant software (3DHISTECH Ltd.) **Table Structure:** Columns/row 1: Labels. Rows 2 to 210: acquired data. ·         Column A: Serial number of granulomas from *S. mansoni*-infected *Swiss* mice or *Nectomys squamipes*. ·         Column B to AH: Proportion of eosinophils in the different spatial zones of granulomas at distinct evolutive stages in the models of infection.   **Usage of data:** With these data, it is possible to compare the mean proportion of eosinophils per each granuloma zone in each evolutive stage and/or in each model of *Schistosoma* infection. **File: Dataset_6_ultrastructure.xls** **Description:** The dataset includes one CSV file containing one sheet (Ultrastructural_analysis) with a table with 9 columns and 221 rows. Thin granuloma sections from *Swiss* mice were processed for transmission electron microscopy (TEM). Digital electron micrographs were analyzed using Fiji software (NIH ImageJ; NIH, Bethesda, MD). The following parameters were analyzed: (i) number of eosinophils; (ii) number of intact eosinophils; (iii) number of eosinophils interacting with other cells; (iv) number of immature eosinophils; (v) secretion process of eosinophils (non-mobilized [resting], in piecemeal degranulation [PMD], in exocytosis, in cytolysis). **Table Structure:** Columns/row 1: Labels. Rows 2 221: acquired data. * Column A: Total number of eosinophils. * Column B: Number of intact eosinophils. * Column C: Number of eosinophils physically interacting with other cells. * Column D: Number of immature eosinophils. * Column E: Number of resting eosinophils. * Column F: Number of eosinophils secreting by PMD. * Column G: Number of eosinophils secreting by exocytosis. * Column H: Number of eosinophils secreting by cytolysis. **Usage of data:** With these data, it is possible to calculate the proportion of eosinophils in physical interaction with other cells, the proportion of mature and immature eosinophils, the proportion of resting eosinophils and eosinophils in each secretory process.