Pub Date : 2025-12-31eCollection Date: 2026-02-01DOI: 10.1016/j.dib.2025.112427
Jonny Kaars, Jonas Hensel
Directed Energy Deposition is a proven technology for the economic production of medium to large sized metal structures. The process results in a characteristic surface structure composed of the molten layers. It is evident that, the surface structure impairs the strength of the workpiece during static and cyclic loading. Consequently, surface topology evaluation is crucial in the assessment of workpieces manufactured by Directed Energy Deposition. In this work, comprehensive examples of structured feature assessment of real-world workpieces are collected. The examples supplement tabular technical specification of surface features with visual topology appearances.
{"title":"Structured surface feature classification on DED-printed parts. Exemplary data and comprehensive influences listing.","authors":"Jonny Kaars, Jonas Hensel","doi":"10.1016/j.dib.2025.112427","DOIUrl":"https://doi.org/10.1016/j.dib.2025.112427","url":null,"abstract":"<p><p>Directed Energy Deposition is a proven technology for the economic production of medium to large sized metal structures. The process results in a characteristic surface structure composed of the molten layers. It is evident that, the surface structure impairs the strength of the workpiece during static and cyclic loading. Consequently, surface topology evaluation is crucial in the assessment of workpieces manufactured by Directed Energy Deposition. In this work, comprehensive examples of structured feature assessment of real-world workpieces are collected. The examples supplement tabular technical specification of surface features with visual topology appearances.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"112427"},"PeriodicalIF":1.4,"publicationDate":"2025-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12855599/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146104267","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Coelomocytes are a group of specific cells found in the coeloms of invertebrate animals. They perform a variety of functions including immune response, storage, detoxification, and transport of different compounds. Ophelia limacina, a member of the phylum Annelida, has two morphologically distinct types of coelomocytes: one of which is amoebocytes, typical for annelids, and the other is rod-bearing cells containing an unusual intracellular structure – a central brown-colored rod. Here we present the transcriptomic data of both cell populations. For this purpose, a total of 148 individuals were collected in the White Sea. The coelomocytes were isolated, both populations of cells (amoebocytes and rod-bearing cells) were enriched using a manual method and then RNA was extracted for NGS-library preparation and further sequencing. Based on obtained data we de novo assembled a representative transcriptome of coelomocytes from O. limacina using Trinity. Differential expression analysis enabled us to identify transcripts exhibiting significant expression differences between amoebocytes and rod-bearing cells of O. limacina.
{"title":"Transcriptomic dataset of two types of coelomocytes from Ophelia limacina (Rathke, 1843)","authors":"Daniil Khlebnikov , Polina Belova , Andrey Anisenko","doi":"10.1016/j.dib.2025.112428","DOIUrl":"10.1016/j.dib.2025.112428","url":null,"abstract":"<div><div>Coelomocytes are a group of specific cells found in the coeloms of invertebrate animals. They perform a variety of functions including immune response, storage, detoxification, and transport of different compounds. <em>Ophelia limacina</em>, a member of the phylum Annelida, has two morphologically distinct types of coelomocytes: one of which is amoebocytes, typical for annelids, and the other is rod-bearing cells containing an unusual intracellular structure – a central brown-colored rod. Here we present the transcriptomic data of both cell populations. For this purpose, a total of 148 individuals were collected in the White Sea. The coelomocytes were isolated, both populations of cells (amoebocytes and rod-bearing cells) were enriched using a manual method and then RNA was extracted for NGS-library preparation and further sequencing. Based on obtained data we <em>de novo</em> assembled a representative transcriptome of coelomocytes from <em>O. limacina</em> using Trinity. Differential expression analysis enabled us to identify transcripts exhibiting significant expression differences between amoebocytes and rod-bearing cells of <em>O. limacina</em>.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"65 ","pages":"Article 112428"},"PeriodicalIF":1.4,"publicationDate":"2025-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146075245","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Drosophila melanogaster is one of the most employed animal models and was amongst the first organisms selected for genome sequencing. Geographically isolated populations of D. melanogaster have shown to harbour distinct allelic makeup. In this data article, we present the whole mitochondrial draft genome sequence of a white eye mutant of D. melanogaster, dubbed as ANU-1. The strain was isolated from wildtype population. This is the first report of the mitochondrial genome of D. melanogaster from Pakistan. The complete mitochondrial genome of D. melanogaster ANU-1 is 19,116 bp in length containing 13 protein coding genes, 22 tRNA genes, 2 rRNA genes and an AT-rich region of 4208 bp in length. Phylogenetic analysis based on mitochondrial DNA sequences clustered D. melanogaster ANU-1 with other species of melanogaster subgroup. Genome sequence comparison identified novel alleles in COX1, ND5 and CYTB genes in D. melanogaster ANU-1 with subtle structural variations in the encoded proteins. The present mitochondrial genome provides the first glimpse of allelic variations in D. melanogaster from Pakistan and was deposited in GenBank under the accession number OR555819.1.
{"title":"Mitochondrial genome dataset of Drosophila melanogaster Meigen, 1830 (fruit fly) from Pakistan","authors":"Sukaina Arshad, Iffat Waqar Qureshi, Humera Waheed, Mushtaq Hussain","doi":"10.1016/j.dib.2025.112417","DOIUrl":"10.1016/j.dib.2025.112417","url":null,"abstract":"<div><div><em>Drosophila melanogaster</em> is one of the most employed animal models and was amongst the first organisms selected for genome sequencing. Geographically isolated populations of <em>D. melanogaster</em> have shown to harbour distinct allelic makeup. In this data article, we present the whole mitochondrial draft genome sequence of a white eye mutant of <em>D. melanogaster</em>, dubbed as ANU-1. The strain was isolated from wildtype population. This is the first report of the mitochondrial genome of <em>D. melanogaster</em> from Pakistan. The complete mitochondrial genome of <em>D. melanogaster</em> ANU-1 is 19,116 bp in length containing 13 protein coding genes, 22 tRNA genes, 2 rRNA genes and an AT-rich region of 4208 bp in length. Phylogenetic analysis based on mitochondrial DNA sequences clustered <em>D. melanogaster</em> ANU-1 with other species of melanogaster subgroup. Genome sequence comparison identified novel alleles in <em>COX1, ND5</em> and <em>CYTB</em> genes in <em>D. melanogaster</em> ANU-1 with subtle structural variations in the encoded proteins. The present mitochondrial genome provides the first glimpse of allelic variations in <em>D. melanogaster</em> from Pakistan and was deposited in GenBank under the accession number OR555819.1.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112417"},"PeriodicalIF":1.4,"publicationDate":"2025-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145920921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Sika deer (Cervus nippon) is naturally distributed across East Asia and includes 14 subspecies, showing phenotypic and genetic diversity. In this study, we constructed a de novo genome assembly of wild sika deer using one of the largest subspecies, C. n. yesoensis. We used HiFi, high quality long-read based on Pacific Bioscience to assemble our novel genome assembly CerNipYes1.0. The genome size of CerNipYes1.0 is estimated to be 3.1Gb, which is 0.6Gb larger than the other genome assembly of sika deer previously reported. The number of scaffolds is 1,810 and N50 length achieved 77Mb. Compleasm, a genome completeness evaluation tool based on Benchmarking Universal Single-Copy Orthologs (BUSCO) indicated that 12,562 (99.75%) genes are completed as genes with comparing to database. Our results indicate that CerNipYes1.0 is valuable to study the molecular biology, phylogeny and evolution of the Cervidae and its genome.
梅花鹿（Cervus nippon）自然分布于东亚地区，包括14个亚种，表现出表型和遗传多样性。在这项研究中，我们利用野生梅花鹿最大的亚种之一C. n. yesoensis构建了一个全新的基因组组装。我们使用HiFi，高质量的长读基于太平洋生物科学组装我们的新基因组组装CerNipYes1.0。CerNipYes1.0的基因组大小估计为3.1Gb，比先前报道的其他梅花鹿基因组大0.6Gb。支架数量为1810个，N50长度达到77Mb。基于BUSCO （Benchmarking Universal Single-Copy Orthologs）的基因组完整性评估工具Compleasm表明，与数据库比较，有12562个（99.75%）基因被完成为基因。结果表明，CerNipYes1.0在研究蛇科动物及其基因组的分子生物学、系统发育和进化方面具有重要的应用价值。
{"title":"A reference-grade genome assembly data of sika deer in Hokkaido, Japan, Cervus nippon yesoensis","authors":"Yuki Matsumoto , Junco Nagata , Yukiko Matsuura , Hayato Iijima","doi":"10.1016/j.dib.2025.112423","DOIUrl":"10.1016/j.dib.2025.112423","url":null,"abstract":"<div><div>Sika deer (<em>Cervus nippon</em>) is naturally distributed across East Asia and includes 14 subspecies, showing phenotypic and genetic diversity. In this study, we constructed a de novo genome assembly of wild sika deer using one of the largest subspecies, <em>C. n. yesoensis</em>. We used HiFi, high quality long-read based on Pacific Bioscience to assemble our novel genome assembly CerNipYes1.0. The genome size of CerNipYes1.0 is estimated to be 3.1Gb, which is 0.6Gb larger than the other genome assembly of sika deer previously reported. The number of scaffolds is 1,810 and N50 length achieved 77Mb. Compleasm, a genome completeness evaluation tool based on Benchmarking Universal Single-Copy Orthologs (BUSCO) indicated that 12,562 (99.75%) genes are completed as genes with comparing to database. Our results indicate that CerNipYes1.0 is valuable to study the molecular biology, phylogeny and evolution of the Cervidae and its genome.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"65 ","pages":"Article 112423"},"PeriodicalIF":1.4,"publicationDate":"2025-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146075244","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-26DOI: 10.1016/j.dib.2025.112422
Amayrani Córdova-Rodríguez , Lislie Solís-Montero , Roger de Jesús Uc-Escamilla , Jesús Fernando García-Crisóstomo , Alejandro Antonio Aragón-Moreno
Beekeeping, based on the management of the honeybee Apis mellifera, is an activity of significant economic, social, and environmental importance in the Soconusco region located at southern of Mexico. It provides income for rural communities and contributes to the pollination of both wild and cultivated plants. The region exhibits high botanical diversity, including native species such as Byrsonima crassifolia, Gossypium hirsutum, and Chrysobalanus icaco, as well as exotic and cultivated species such as Coffea canephora, Mangifera indica cv. Ataulfo, Anacardium occidentale, and Nephelium lappaceum. The flowering of these species supplies essential resources—mainly pollen and nectar—that are collected by bees and reflected in the botanical and organoleptic diversity of local honeys. In this context, the development of a pollen atlas of melliferous flora in this region is fundamental for the palynological identification and characterization of honey, enabling the identification of the main floral sources used by Apis mellifera. This supports the sustainability and traceability of regional apiculture.
{"title":"Atlas of pollen of melliferous plants, data set from the Soconusco region, Chiapas, Mexico","authors":"Amayrani Córdova-Rodríguez , Lislie Solís-Montero , Roger de Jesús Uc-Escamilla , Jesús Fernando García-Crisóstomo , Alejandro Antonio Aragón-Moreno","doi":"10.1016/j.dib.2025.112422","DOIUrl":"10.1016/j.dib.2025.112422","url":null,"abstract":"<div><div>Beekeeping, based on the management of the honeybee <em>Apis mellifera</em>, is an activity of significant economic, social, and environmental importance in the Soconusco region located at southern of Mexico. It provides income for rural communities and contributes to the pollination of both wild and cultivated plants. The region exhibits high botanical diversity, including native species such as <em>Byrsonima crassifolia, Gossypium hirsutum</em>, and <em>Chrysobalanus icaco</em>, as well as exotic and cultivated species such as <em>Coffea canephora, Mangifera indica</em> cv. Ataulfo, <em>Anacardium occidentale</em>, and <em>Nephelium lappaceum</em>. The flowering of these species supplies essential resources—mainly pollen and nectar—that are collected by bees and reflected in the botanical and organoleptic diversity of local honeys. In this context, the development of a pollen atlas of melliferous flora in this region is fundamental for the palynological identification and characterization of honey, enabling the identification of the main floral sources used by <em>Apis mellifera</em>. This supports the sustainability and traceability of regional apiculture.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112422"},"PeriodicalIF":1.4,"publicationDate":"2025-12-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145921539","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-24DOI: 10.1016/j.dib.2025.112407
Khin Khin Phyu , Suli Zhi , Junfeng Liang , Zengjun Yang , Run Zhao , Jiahua Liu , Yuang Cao , Han Wang , Keqiang Zhang
This data article describes a comprehensive dataset investigating the dynamics between microalgae, bacteria, and pollutant removal in dairy wastewater treatment. Data was collected from a 12-day laboratory-scale experiment employing three distinct cultivation systems: monoculture, co-culture, and sequential culture of four algal/cyanobacterial strains (Chlorella sorokiniana, Euglena gracilis, Synechocystis sp., and Desertifilum tharense). The generated dataset includes high-frequency measurements of water quality parameters (COD, NH4+-N, TN, TP), algal physiological data (biomass production, total chlorophyll, biochemical compositions like proteins, lipids, and polysaccharides), and 16S rRNA gene sequencing data of the associated bacterial communities, which were fractionated into free-living and tightly bound phycosphere populations. The reuse potential of this data is significant. It provides a detailed profile of microbial community assembly driven by different cultivation strategies and environmental factors, offering a benchmark for future ecological studies in engineered systems. Researchers in the fields of wastewater biotechnology, microbial ecology, and synthetic ecology can reuse this data to validate microbial interaction models, optimize consortia design for bioremediation, and inform life-cycle assessments of algal-based treatment processes. The dataset generated in this study is publicly available in the NCBI BioProject repository under the accession number [PRJNA1265442].
{"title":"Dataset on microbial community structure in response to microalgal cultivation in dairy wastewater","authors":"Khin Khin Phyu , Suli Zhi , Junfeng Liang , Zengjun Yang , Run Zhao , Jiahua Liu , Yuang Cao , Han Wang , Keqiang Zhang","doi":"10.1016/j.dib.2025.112407","DOIUrl":"10.1016/j.dib.2025.112407","url":null,"abstract":"<div><div>This data article describes a comprehensive dataset investigating the dynamics between microalgae, bacteria, and pollutant removal in dairy wastewater treatment. Data was collected from a 12-day laboratory-scale experiment employing three distinct cultivation systems: monoculture, co-culture, and sequential culture of four algal/cyanobacterial strains (<em>Chlorella sorokiniana, Euglena gracilis, Synechocystis</em> sp., and <em>Desertifilum tharense</em>). The generated dataset includes high-frequency measurements of water quality parameters (COD, NH<sub>4</sub><sup>+</sup>-N, TN, TP), algal physiological data (biomass production, total chlorophyll, biochemical compositions like proteins, lipids, and polysaccharides), and 16S rRNA gene sequencing data of the associated bacterial communities, which were fractionated into free-living and tightly bound phycosphere populations. The reuse potential of this data is significant. It provides a detailed profile of microbial community assembly driven by different cultivation strategies and environmental factors, offering a benchmark for future ecological studies in engineered systems. Researchers in the fields of wastewater biotechnology, microbial ecology, and synthetic ecology can reuse this data to validate microbial interaction models, optimize consortia design for bioremediation, and inform life-cycle assessments of algal-based treatment processes. The dataset generated in this study is publicly available in the NCBI BioProject repository under the accession number [PRJNA1265442].</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112407"},"PeriodicalIF":1.4,"publicationDate":"2025-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145921544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-24DOI: 10.1016/j.dib.2025.112418
Hexin Chen , Junwei Guo , Beibie Li , Ran Wan , Cong Wang , Mingliang Su , Xiaoyu Wang , Ruihong Liu , Sheng Wang , Kejian Liu , Li Chen , Song Yang , Fuwei Xie , Cong Nie , Le Zhao , Hongbo Wang , Zechun Liu
This dataset comprises 347 complete spectra of tobacco leaves, acquired using an Antaris II Fourier Transform Near-Infrared spectrometer equipped with an integrating sphere diffuse reflectance sampling system. The samples were collected from six countries: Argentina, Brazil, Zimbabwe, the United States, Tanzania, and Zambia. All samples were dried using an FD240 oven (Binder GmbH, Germany), ground using a ZM200 grinder (Retsch GmbH, Germany), and sieved through a 0.250 mm mesh screen. NIR spectra were acquired with the following parameters: a spectral range of 4000–10,000 cm−1, a resolution of 8 cm−1, and 64 scans. The dataset was partitioned into a training set (70%) and a validation set (30%) using stratified sampling. Six preprocessing techniques were applied: Savitzky-Golay (SG) smoothing, Multiplicative Scatter Correction (MSC), Standard Normal Variate (SNV), First Derivative (1D), Second Derivative (2D), and Mean Centering. Partial Least Squares (PLS) regression was utilized to establish predictive models for 13 chemical indicators: total alkaloids, reducing sugars, total sugars, total nitrogen, K, Cl, pH, starch, neochlorogenic acid, chlorogenic acid, cryptochlorogenic acid, scopoletin, and rutin. The Random Forest (RF) algorithm was employed to create the origin classification model. Ultimately, through the selection of appropriate spectral preprocessing methods, the quantitative prediction models established using this dataset all achieved coefficients of determination (R2) exceeding 0.83, demonstrating robust predictive performance. Furthermore, the geographical origin classification models yielded an overall validation accuracy greater than 0.8, indicating strong classification performance. Consequently, this dataset is confirmed to be accurate and reliable, capable of providing foundational data for other researchers to construct near-infrared (NIR) spectral databases and develop NIR prediction models. The developed models exhibit excellent predictive capabilities and can be utilized in practical applications as an alternative to classical chemical analysis methods for these chemical indicators.
{"title":"A dataset for geographical origin identification of tobacco leaves from multiple countries using near-infrared spectroscopy and chemometric analysis","authors":"Hexin Chen , Junwei Guo , Beibie Li , Ran Wan , Cong Wang , Mingliang Su , Xiaoyu Wang , Ruihong Liu , Sheng Wang , Kejian Liu , Li Chen , Song Yang , Fuwei Xie , Cong Nie , Le Zhao , Hongbo Wang , Zechun Liu","doi":"10.1016/j.dib.2025.112418","DOIUrl":"10.1016/j.dib.2025.112418","url":null,"abstract":"<div><div>This dataset comprises 347 complete spectra of tobacco leaves, acquired using an Antaris II Fourier Transform Near-Infrared spectrometer equipped with an integrating sphere diffuse reflectance sampling system. The samples were collected from six countries: Argentina, Brazil, Zimbabwe, the United States, Tanzania, and Zambia. All samples were dried using an FD240 oven (Binder GmbH, Germany), ground using a ZM200 grinder (Retsch GmbH, Germany), and sieved through a 0.250 mm mesh screen. NIR spectra were acquired with the following parameters: a spectral range of 4000–10,000 cm<sup>−1</sup>, a resolution of 8 cm<sup>−1</sup>, and 64 scans. The dataset was partitioned into a training set (70%) and a validation set (30%) using stratified sampling. Six preprocessing techniques were applied: Savitzky-Golay (SG) smoothing, Multiplicative Scatter Correction (MSC), Standard Normal Variate (SNV), First Derivative (1D), Second Derivative (2D), and Mean Centering. Partial Least Squares (PLS) regression was utilized to establish predictive models for 13 chemical indicators: total alkaloids, reducing sugars, total sugars, total nitrogen, K, Cl, pH, starch, neochlorogenic acid, chlorogenic acid, cryptochlorogenic acid, scopoletin, and rutin. The Random Forest (RF) algorithm was employed to create the origin classification model. Ultimately, through the selection of appropriate spectral preprocessing methods, the quantitative prediction models established using this dataset all achieved coefficients of determination (R<sup>2</sup>) exceeding 0.83, demonstrating robust predictive performance. Furthermore, the geographical origin classification models yielded an overall validation accuracy greater than 0.8, indicating strong classification performance. Consequently, this dataset is confirmed to be accurate and reliable, capable of providing foundational data for other researchers to construct near-infrared (NIR) spectral databases and develop NIR prediction models. The developed models exhibit excellent predictive capabilities and can be utilized in practical applications as an alternative to classical chemical analysis methods for these chemical indicators.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112418"},"PeriodicalIF":1.4,"publicationDate":"2025-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145920923","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-24DOI: 10.1016/j.dib.2025.112420
Oleksandr Borysenko , Petr Lukeš , Tomáš Hanousek , Lucie Homolová , Růžena Janoutová , Mirjam Uusõue , Steffen Noe , Jan Pisek
Conifer shoots possess highly complex geometrical structures at a very fine spatial resolution. Accurately characterizing the full architecture of a conifer shoot, which influences how radiation is scattered, has proven challenging. Previous radiative transfer models for coniferous stands have represented these structures in a relatively simplified or coarse manner. This paper presents a dataset that can be used for up-scaling of needle to shoot optical properties and studying the influence of detailed three-dimensional (3D) structure of shoot to light scattering within tree crown. The dataset includes 3D structural information as well optical properties of needles and twigs for 27 shoots of two conifer species present in both locations (3 shoots per species and position in the crown) - Scots pine (Pinus sylvestris L.) and Norway spruce (Picea abies L. Karst.). The samples were collected on 22nd April 2024 in Rájec, the Czech Republic and 17th September 2024 in Järvselja, Estonia. Subsequently blue light 3D photogrammetry scanning technique was used to obtain their high-resolution 3D point cloud representations. Reflectance and transmittance measurements of needles were obtained using a spectroradiometer and an integrating sphere. For each of these samples, the dataset comprises a photo of the sampled shoot, obtained 3D surface reconstruction, and optical properties of conifer needles and twigs (hemispherical-conical reflectance and transmittance factors) in the spectral range of 400-2000 nm. A detailed 3D representation of needle shoots, when combined with radiative transfer modeling, may offer a means to study and compensate for inaccuracies in the measurement of needle optical properties and to enhance the assessment of shoot scattering characteristics.
针叶树芽具有高度复杂的几何结构，具有非常精细的空间分辨率。准确地描述针叶树梢的完整结构，这影响了辐射的散射，已被证明是具有挑战性的。以往的针叶林辐射转移模型以相对简化或粗略的方式描述了这些结构。本文建立了一个数据集，用于对针叶拍摄光学特性进行放大，研究针叶拍摄细节三维结构对树冠内光散射的影响。该数据集包括两种针叶树的27个芽的三维结构信息以及针叶和细枝的光学特性，这两种针叶树分别是苏格兰松（Pinus sylvestris L.）和挪威云杉（Picea abies L. Karst.）。样本于2024年4月22日在捷克共和国Rájec和2024年9月17日在爱沙尼亚Järvselja采集。随后，采用蓝光三维摄影测量扫描技术获得了它们的高分辨率三维点云表示。利用光谱辐射计和积分球测量了针的反射率和透射率。对于每个样本，数据集包括采样的照片，获得的三维表面重建，以及400-2000 nm光谱范围内针叶树针叶和树枝的光学特性（半圆锥形反射率和透射率因子）。当与辐射传输建模相结合时，针叶的详细三维表示可以提供一种研究和补偿针叶光学特性测量中的不准确性的手段，并增强对针叶散射特性的评估。
{"title":"3-dimensional surface geometry, optical properties dataset of Scots pine and Norway spruce shoots","authors":"Oleksandr Borysenko , Petr Lukeš , Tomáš Hanousek , Lucie Homolová , Růžena Janoutová , Mirjam Uusõue , Steffen Noe , Jan Pisek","doi":"10.1016/j.dib.2025.112420","DOIUrl":"10.1016/j.dib.2025.112420","url":null,"abstract":"<div><div>Conifer shoots possess highly complex geometrical structures at a very fine spatial resolution. Accurately characterizing the full architecture of a conifer shoot, which influences how radiation is scattered, has proven challenging. Previous radiative transfer models for coniferous stands have represented these structures in a relatively simplified or coarse manner. This paper presents a dataset that can be used for up-scaling of needle to shoot optical properties and studying the influence of detailed three-dimensional (3D) structure of shoot to light scattering within tree crown. The dataset includes 3D structural information as well optical properties of needles and twigs for 27 shoots of two conifer species present in both locations (3 shoots per species and position in the crown) - Scots pine (<em>Pinus sylvestris</em> L.) and Norway spruce (<em>Picea abies</em> L. <em>Karst.</em>). The samples were collected on 22nd April 2024 in Rájec, the Czech Republic and 17th September 2024 in Järvselja, Estonia. Subsequently blue light 3D photogrammetry scanning technique was used to obtain their high-resolution 3D point cloud representations. Reflectance and transmittance measurements of needles were obtained using a spectroradiometer and an integrating sphere. For each of these samples, the dataset comprises a photo of the sampled shoot, obtained 3D surface reconstruction, and optical properties of conifer needles and twigs (hemispherical-conical reflectance and transmittance factors) in the spectral range of 400-2000 nm. A detailed 3D representation of needle shoots, when combined with radiative transfer modeling, may offer a means to study and compensate for inaccuracies in the measurement of needle optical properties and to enhance the assessment of shoot scattering characteristics.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112420"},"PeriodicalIF":1.4,"publicationDate":"2025-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145921420","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-24DOI: 10.1016/j.dib.2025.112383
Md. Mijanur Rahman, Md. Sumon Hosen, Zaid Bin Sajid, Fahim Faisal Sifat
Bangladesh is a socio-culturally diverse country where perspectives on women’s freedom vary significantly. Social media sites are now important places for sharing feminist ideas through public comments and posts. This study offers a detailed collection of 6,830 comments in Bangla about feminism to help analyze public opinion. Most of this data comes from Facebook, with some also from Instagram and Twitter. Data collection involved systematic extraction from public groups and targeted hashtag searches, including (women’s rights). Native Bangla speakers meticulously annotated each comment by hand to ensure that it was topical and to identify any abusive language. This manual validation procedure guarantees a high-quality dataset appropriate for the study of online gender-based violence in the Bangla language context, sentiment analysis, and abusive language analysis, among other machine learning and NLP tasks. In addition, comments were divided into three sentiment classes: neutral, negative, and positive. This allowed for thorough analysis of feminist discourse on Bangladeshi social media and supervised learning.
{"title":"Social media discourse on feminism: A dataset for sentiment analysis in bangla comments","authors":"Md. Mijanur Rahman, Md. Sumon Hosen, Zaid Bin Sajid, Fahim Faisal Sifat","doi":"10.1016/j.dib.2025.112383","DOIUrl":"10.1016/j.dib.2025.112383","url":null,"abstract":"<div><div>Bangladesh is a socio-culturally diverse country where perspectives on women’s freedom vary significantly. Social media sites are now important places for sharing feminist ideas through public comments and posts. This study offers a detailed collection of 6,830 comments in Bangla about feminism to help analyze public opinion. Most of this data comes from Facebook, with some also from Instagram and Twitter. Data collection involved systematic extraction from public groups and targeted hashtag searches, including <figure><img></figure> (women’s rights). Native Bangla speakers meticulously annotated each comment by hand to ensure that it was topical and to identify any abusive language. This manual validation procedure guarantees a high-quality dataset appropriate for the study of online gender-based violence in the Bangla language context, sentiment analysis, and abusive language analysis, among other machine learning and NLP tasks. In addition, comments were divided into three sentiment classes: neutral, negative, and positive. This allowed for thorough analysis of feminist discourse on Bangladeshi social media and supervised learning.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112383"},"PeriodicalIF":1.4,"publicationDate":"2025-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145973358","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-24DOI: 10.1016/j.dib.2025.112425
June Labbancz, Amanda Birnbaum, Amit Dhingra
This dataset describes samples collected from two Domestic Rabbit manure sources and three Domestic Rabbit manure-derived vermicompost bins. Three samples were taken from each and total DNA was isolated. Nanopore sequencing was used to collect data from all isolated DNA samples. After length and quality filtering, 181.5 gigabases (Gb) of sequencing data was collected across 15 samples. Streptomyces, Bradyrhizobium, Mesorhizobium, and Microbacterium were in the top 5 genera for all vermicompost samples, but two vermicompost samples had very high proportions of Escherichia and Mycobacterium. Vermicomposting can enable the development of beneficial microbial communities, but often lacking a thermophilic phase, may also allow for the growth of potentially pathogenic microbes. The vermicomposts described by this dataset contains both beneficial and potentially harmful microbial communities and may be used to support comparisons between composts and vermicomposts of different backgrounds for safety and utility.
{"title":"Long-read metagenomic dataset from domestic rabbit manure and domestic rabbit manure-derived vermicompost","authors":"June Labbancz, Amanda Birnbaum, Amit Dhingra","doi":"10.1016/j.dib.2025.112425","DOIUrl":"10.1016/j.dib.2025.112425","url":null,"abstract":"<div><div>This dataset describes samples collected from two Domestic Rabbit manure sources and three Domestic Rabbit manure-derived vermicompost bins. Three samples were taken from each and total DNA was isolated. Nanopore sequencing was used to collect data from all isolated DNA samples. After length and quality filtering, 181.5 gigabases (Gb) of sequencing data was collected across 15 samples. <em>Streptomyces, Bradyrhizobium, Mesorhizobium</em>, and <em>Microbacterium</em> were in the top 5 genera for all vermicompost samples, but two vermicompost samples had very high proportions of <em>Escherichia</em> and <em>Mycobacterium</em>. Vermicomposting can enable the development of beneficial microbial communities, but often lacking a thermophilic phase, may also allow for the growth of potentially pathogenic microbes. The vermicomposts described by this dataset contains both beneficial and potentially harmful microbial communities and may be used to support comparisons between composts and vermicomposts of different backgrounds for safety and utility.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"64 ","pages":"Article 112425"},"PeriodicalIF":1.4,"publicationDate":"2025-12-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145921382","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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