Scientific Data最新文献_第4页

A chromosome-level genome assembly of the heteronomous hyperparasitoid wasp Encarsia sophia. 异源超寄生蜂 Encarsia sophia 的染色体级基因组组装。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-19 DOI: 10.1038/s41597-024-04040-2

Xiaoming Man, Cong Huang, Shengyong Wu, Jianyang Guo, Fanghao Wan, Frédéric Francis, Nianwan Yang, Wanxue Liu

{"title":"A chromosome-level genome assembly of the heteronomous hyperparasitoid wasp Encarsia sophia.","authors":"Xiaoming Man, Cong Huang, Shengyong Wu, Jianyang Guo, Fanghao Wan, Frédéric Francis, Nianwan Yang, Wanxue Liu","doi":"10.1038/s41597-024-04040-2","DOIUrl":"10.1038/s41597-024-04040-2","url":null,"abstract":"Encarsia sophia, a heteronomous hyperparasitoid wasp, is a well-known biological control agent, but its genomic information is limited, hindering molecular investigations and understanding of multitrophic interactions. In this study, we present a chromosome-level genome assembly for E. sophia using Illumina, PacBio HiFi, and Hi-C technologies. The assembled genome size is 398.3 Mb, with a contig N50 of 1.0 Mb and a scaffold N50 of 74.0 Mb. The BUSCO completeness score is 97.1%, and genome coverage reaches 99.1%. Utilizing Hi-C assisted assembly, the genome was organized into five chromosomes, with a mounting rate of 95.1%. Repetitive sequences make up 54.6% of the genome, and 14,914 protein-coding genes were predicted, with 95.5% functionally annotated. The high-quality genome assembly of E. sophia is a significant achievement, marking the first complete genome for a heteronomous hyperparasitoid wasp. This milestone offers valuable insights into the evolution and host interactions of heteronomous hyperparasitoids, laying the foundation for extensive research in biological control.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1250"},"PeriodicalIF":5.8,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11577007/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142676271","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A geospatial dataset of lichen key attributes in the Earth's three poles. 地球三极地衣关键属性的地理空间数据集。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-19 DOI: 10.1038/s41597-024-04072-8

Zhula Alatan, Wenjin Wu, Xinwu Li, Liqing Zhao, Huadong Guo, Jinfeng Li, Chengzhi Hao

{"title":"A geospatial dataset of lichen key attributes in the Earth's three poles.","authors":"Zhula Alatan, Wenjin Wu, Xinwu Li, Liqing Zhao, Huadong Guo, Jinfeng Li, Chengzhi Hao","doi":"10.1038/s41597-024-04072-8","DOIUrl":"10.1038/s41597-024-04072-8","url":null,"abstract":"In the Antarctic, Arctic, and Tibetan Plateau-recognized as the Earth's three poles characterized by extremely harsh environments-lichens prevail in the ecosystem and play crucial roles as pioneer species. Despite their importance, studies investigating the spatial distribution patterns of lichen attributes are scarce due to a lack of appropriate datasets. To bridge this gap and enhance our understanding of the growth preferences of lichens in these areas, here we present a geospatial dataset encompassing key attributes of lichens, such as color type and growth form, for over 2800 lichen species and 170,000 in-situ lichen records. The dataset facilitates the creation of the first spatial distribution map illustrating the variation of lichen attributes across different latitudes and longitudes. This can serve as a foundational resource for studies on the relationship between lichen types and their growing environment, which is a vital scientific question in the ecology domain. Additionally, it can contribute to the development of specialized remote sensing technique tailored for lichen monitoring, which is currently lacking.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1248"},"PeriodicalIF":5.8,"publicationDate":"2024-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11577012/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142676290","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

An annual land cover dataset for the Baltic Sea Region with crop types and peat bogs at 30 m from 2000 to 2022. 波罗的海地区年度土地覆被数据集，包含 2000 年至 2022 年 30 米处的作物类型和泥炭沼泽。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-04062-w

Vu-Dong Pham, Farina de Waard, Fabian Thiel, Bernd Bobertz, Christina Hellmann, Duc-Viet Nguyen, Felix Beer, M Arasumani, Marcel Schwieder, Jörg Hartleib, David Frantz, Sebastian van der Linden

{"title":"An annual land cover dataset for the Baltic Sea Region with crop types and peat bogs at 30 m from 2000 to 2022.","authors":"Vu-Dong Pham, Farina de Waard, Fabian Thiel, Bernd Bobertz, Christina Hellmann, Duc-Viet Nguyen, Felix Beer, M Arasumani, Marcel Schwieder, Jörg Hartleib, David Frantz, Sebastian van der Linden","doi":"10.1038/s41597-024-04062-w","DOIUrl":"10.1038/s41597-024-04062-w","url":null,"abstract":"We present detailed annual land cover maps for the Baltic Sea region, spanning more than two decades (2000-2022). The maps provide information on eighteen land cover (LC) classes, including eight general LC types, eight major crop types and grassland, and two peat bog-related classes. Our maps represent the first homogenized annual dataset for the region and address gaps in current land use and land cover products, such as a lack of detail on crop sequences and peat bog exploitation. To create the maps, we used annual multi-temporal remote sensing data combined with a data encoding structure and deep learning classification. We obtained the training data from publicly available open datasets. The maps were validated using independent field survey data from the Land Use/Cover Area Frame Survey (LUCAS) and expert annotations from high-resolution imagery. The quantitative and qualitative results of the maps provide a reliable data source for monitoring agricultural transformations, peat bog exploitation, and restoration activities in the Baltic Sea region and its surrounding countries.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1242"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574315/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668989","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Dataset on heavy metal pollution assessment in freshwater ecosystems. 淡水生态系统重金属污染评估数据集。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-04116-z

Olha Biedunkova, Pavlo Kuznietsov

{"title":"Dataset on heavy metal pollution assessment in freshwater ecosystems.","authors":"Olha Biedunkova, Pavlo Kuznietsov","doi":"10.1038/s41597-024-04116-z","DOIUrl":"10.1038/s41597-024-04116-z","url":null,"abstract":"Water quality degradation due to heavy metal contamination poses serious threats to both human health and aquatic ecosystems. The rise in the concentration of heavy metals in aquatic environments is largely attributable to anthropogenic activities. These metals accumulate over time in water bodies, necessitating rigorous monitoring to accurately assess pollution levels. The present study is concerned with the assessment of heavy metal pollution in the Styr River (Ukraine) before and after the discharge of water from a nuclear power plant. The assessment is based on three indices: the Heavy Metal Pollution Index, the Heavy Metal Evaluation Index, and the Degree of Contamination. Therefore, heavy metals, including zinc (Zn), cadmium (Cd), lead (Pb), copper (Cu), nickel (Ni), manganese (Mn), arsenic (As) and chromium (Cr), were analyzed in this study. Water samples were collected at two locations on a monthly basis over the course of five years (2018-2022) and subsequently analysed using inductively coupled plasma optical emission spectroscopy. The results indicates a low contamination level at both sampling sites, indicating stable and uniform concentrations of metals across the study area. Moreover, statistical analysis highlights significant associations between certain metals and pollution indices, supporting the indices' utility in tracking pollution trends and assessing environmental impacts. This dataset underscores the importance of ongoing monitoring for effective water quality management.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1241"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574002/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668992","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Historical datasets (1950-2022) of monthly water balance components for the Laurentian Great Lakes. 劳伦伦五大湖每月水平衡组成部分的历史数据集（1950-2022 年）。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-03994-7

Nicole L O'Brien, Frank Seglenieks, Lauren M Fry, Deanna Fielder, André G T Temgoua, Jacob Bruxer, Vincent Fortin, Dorothy Durnford, Andrew D Gronewold

{"title":"Historical datasets (1950-2022) of monthly water balance components for the Laurentian Great Lakes.","authors":"Nicole L O'Brien, Frank Seglenieks, Lauren M Fry, Deanna Fielder, André G T Temgoua, Jacob Bruxer, Vincent Fortin, Dorothy Durnford, Andrew D Gronewold","doi":"10.1038/s41597-024-03994-7","DOIUrl":"10.1038/s41597-024-03994-7","url":null,"abstract":"This study develops a 73-year dataset of water balance components from 1950 to 2022 for the Laurentian Great Lakes Basins. This is carried out using the Large Lakes Statistical Water Balance Model (L2SWBM), which provides a Bayesian statistical framework that assimilates binational input datasets sourced from the United States and Canada. The L2SWBM infers feasible water balance component estimates through this Bayesian framework by constraining the output with a standard water balance equation. The result is value-added time series, including expressions of uncertainty, that ultimately close the water balance across the interconnected Great Lakes system. Therefore, the L2SWBM facilitates the understanding of discrepancies in datasets and hydroclimate parameters. This enhanced reliability stemming from coordinated data, with an understanding and quantification of uncertainty, could significantly boost confidence in decision support tools for water resources practitioners and policymakers. This joint effort advances scientific understanding and strengthens strategies and policies designed to bolster resilience in Great Lakes communities and its ecosystem in the face of a shifting climate.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1243"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574198/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668994","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Chromosome-level genome assembly and annotation of the tropical sea cucumber Stichopus monotuberculatus. 热带海参Stichopus monotuberculatus的染色体级基因组组装和注释。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-03985-8

Ting Chen, Yun Yang, Xuan Wang, Zhou Qin, Zhenyu Xie, Dingding Fan, Chunhua Ren, Hongyan Sun, Peng Luo, Xiao Jiang, Hao Long, Chang Chen, Wenjie Pan, Zixuan E, Jiasheng Huang, Qianying Huang, Jianfeng Xu, Zepeng Zhang, Chuhang Cheng, Suzhong Yu, Yanhong Wang, Fajun Jiang, Aifen Yan, Chaoqun Hu

{"title":"Chromosome-level genome assembly and annotation of the tropical sea cucumber Stichopus monotuberculatus.","authors":"Ting Chen, Yun Yang, Xuan Wang, Zhou Qin, Zhenyu Xie, Dingding Fan, Chunhua Ren, Hongyan Sun, Peng Luo, Xiao Jiang, Hao Long, Chang Chen, Wenjie Pan, Zixuan E, Jiasheng Huang, Qianying Huang, Jianfeng Xu, Zepeng Zhang, Chuhang Cheng, Suzhong Yu, Yanhong Wang, Fajun Jiang, Aifen Yan, Chaoqun Hu","doi":"10.1038/s41597-024-03985-8","DOIUrl":"10.1038/s41597-024-03985-8","url":null,"abstract":"In this study, a chromosome-level genome of the tropical sea cucumber Stichopus monotuberculatus was generated by a combination of Nanopore long-read, Illumina short-read, and Hi-C sequencing technologies. The final assembly was 810.54 Mb in length, with contig N50 and scaffold N50 values of 10.15 Mb and 35.36 Mb, respectively. This assembly comprised 23 pseudo-chromosomes, covering 99.82% of the genome. Completeness analysis using BUSCO indicated that 97.8% of the metazoan conserved genes were presented in their entirety. A total of 29,596 protein-coding genes were predicted, with functional annotations available for 94.43% of these genes. The high-quality genome assembly produced in this study may provide an essential foundation for future researches on resource conservation and genetic breeding of S. monotuberculatus.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1245"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574266/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

High-resolution ocean color imagery from the SeaHawk-HawkEye CubeSat mission. SeaHawk-HawkEye CubeSat 飞行任务提供的高分辨率海洋颜色图像。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-04076-4

Philip J Bresnahan, Sara Rivero-Calle, John Morrison, Gene Feldman, Alan Holmes, Sean Bailey, Alicia Scott, Liang Hong, Frederick Patt, Norman Kuring, Corrine Rojas, Craig Clark, John Charlick, Baptiste Lombard, Hessel Gorter, Roberto Travaglini, Hazel Jeffrey

{"title":"High-resolution ocean color imagery from the SeaHawk-HawkEye CubeSat mission.","authors":"Philip J Bresnahan, Sara Rivero-Calle, John Morrison, Gene Feldman, Alan Holmes, Sean Bailey, Alicia Scott, Liang Hong, Frederick Patt, Norman Kuring, Corrine Rojas, Craig Clark, John Charlick, Baptiste Lombard, Hessel Gorter, Roberto Travaglini, Hazel Jeffrey","doi":"10.1038/s41597-024-04076-4","DOIUrl":"10.1038/s41597-024-04076-4","url":null,"abstract":"Here we describe the data obtained by a successful proof-of-concept initiative to launch the first ocean color imager on board a CubeSat satellite and collect research-grade imagery at severalfold higher spatial resolution than any other ocean color satellite mission. The 3U CubeSat, named SeaHawk, flew at a nominal altitude of 585 km. Its ocean color sensor, HawkEye, collected 7,471 research-grade push-broom images of 230 × 780 km2 at best-in-class 130 × 130 m2 per pixel. The sensor is built with comparatively low-cost commercial off-the-shelf optoelectronics and was designed to match NASA SeaWiFS ocean color specifications, including wavelengths, bandwidths, and signal-to-noise ratios. HawkEye's design for ocean color remote sensing combined with its high spatial resolution make the imagery especially well-suited for coastal, estuarine, and limnological applications. Ultimately, the successful mission provided open access to a rich global dataset of calibrated and quality-controlled imagery for use in aquatic ecology and environmental change studies.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1246"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574100/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668993","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Band structure database of layered intercalation compounds with various intercalant atoms and layered hosts. 具有各种插层原子和层主的层状插层化合物带状结构数据库。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-18 DOI: 10.1038/s41597-024-04008-2

Naoto Kawaguchi, Kiyou Shibata, Teruyasu Mizoguchi

{"title":"Band structure database of layered intercalation compounds with various intercalant atoms and layered hosts.","authors":"Naoto Kawaguchi, Kiyou Shibata, Teruyasu Mizoguchi","doi":"10.1038/s41597-024-04008-2","DOIUrl":"10.1038/s41597-024-04008-2","url":null,"abstract":"Here we provide a database comprising electronic band structures of 9,004 layered intercalation compounds, where atoms are intercalated into a host layered compound with different intercalant atoms, along with 468 structures related to the layered host compounds. Additionally, we provide properties derived from the electronic states such as band gap as well as stability-related properties like formation energies. Direct comparison of the band structures before and after intercalation is generally challenging due to changes in their space group and k-path. However, in this study, we developed new k-paths consistent with the host materials, allowing for the direct comparison of band structures before and after intercalation. This enables direct and quantitative discussion of the band structure changes induced by the intercalations and provides a valuable database for intercalant-driven band engineering. Layered intercalation compounds are widely used in many fields, including superconductivity and energy applications, and understanding of electronic structures is necessary. The feature of our database holds promises for the development of layered compounds with enhanced functionalities through database utilization.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1244"},"PeriodicalIF":5.8,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11574018/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142668990","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Temporal single-cell RNA sequencing dataset of gastroesophagus development from embryonic to post-natal stages. 从胚胎到出生后胃食管发育的单细胞 RNA 测序数据集。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-16 DOI: 10.1038/s41597-024-04081-7

Pon Ganish Prakash, Naveen Kumar, Rajendra Kumar Gurumurthy, Cindrilla Chumduri

{"title":"Temporal single-cell RNA sequencing dataset of gastroesophagus development from embryonic to post-natal stages.","authors":"Pon Ganish Prakash, Naveen Kumar, Rajendra Kumar Gurumurthy, Cindrilla Chumduri","doi":"10.1038/s41597-024-04081-7","DOIUrl":"10.1038/s41597-024-04081-7","url":null,"abstract":"Gastroesophageal disorders and cancers impose a significant global burden. Particularly, the prevalence of esophageal adenocarcinoma (EAC) has increased dramatically in recent years. Barrett's esophagus, a precursor of EAC, features a unique tissue adaptation at the gastroesophageal squamo-columnar junction (GE-SCJ), where the esophagus meets the stomach. Investigating the evolution of GE-SCJ and understanding dysregulation in its homeostasis are crucial for elucidating cancer pathogenesis. Here, we present the technical quality of the comprehensive single-cell RNA sequencing (scRNA-seq) dataset from mice that captures the transcriptional dynamics during the development of the esophagus, stomach and the GE-SCJ at embryonic, neonatal and adult stages. Through integration with external scRNA-seq datasets and validations using organoid and animal models, we demonstrate the dataset's consistency in identified cell types and transcriptional profiles. This dataset will be a valuable resource for studying developmental patterns and associated signaling networks in the tissue microenvironment. By offering insights into cellular programs during homeostasis, it facilitates the identification of changes leading to conditions like metaplasia and cancer, crucial for developing effective intervention strategies.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1238"},"PeriodicalIF":5.8,"publicationDate":"2024-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11569200/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142644769","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

De novo transcriptome analysis of the Indian squid Uroteuthis duvaucelii (Orbigny, 1848) from the Indian Ocean. 印度洋鱿鱼 Uroteuthis duvaucelii (Orbigny, 1848) 的全新转录组分析。

IF 5.8 2区综合性期刊

Scientific Data Pub Date : 2024-11-16 DOI: 10.1038/s41597-024-04112-3

Nisha Krishnan, Sandhya Sukumaran, V G Vysakh, Wilson Sebastian, Anjaly Jose, Neenu Raj, A Gopalakrishnan

{"title":"De novo transcriptome analysis of the Indian squid Uroteuthis duvaucelii (Orbigny, 1848) from the Indian Ocean.","authors":"Nisha Krishnan, Sandhya Sukumaran, V G Vysakh, Wilson Sebastian, Anjaly Jose, Neenu Raj, A Gopalakrishnan","doi":"10.1038/s41597-024-04112-3","DOIUrl":"10.1038/s41597-024-04112-3","url":null,"abstract":"Cephalopods have dominated the oceans for hundreds of millions of years and are unquestionably at the peak of molluscan evolution. The development of the large brain and a well-sophisticated sensory system contributed significantly to its success. Therefore, it is considered the best example of convergent evolution and attracted the attention of scientists from various disciplines of biology. The aim of the present study is to construct a reference transcriptome in the Indian squid Uroteuthis duvaucelii to gain insights into cephalopod evolution and enrich the existing cephalopod database. Around 72 million short Illumina reads were generated from five different tissues, including the brain, eye, gill, heart and gonads, and assembled using the Trinity assembler. About 26230 protein-coding sequences were annotated from the assembled transcripts. The BUSCO completeness of the assembly was 71.71% compared to the Mollusca_Odb10 gene set. KEGG and REACTOME pathway analyzes revealed that U. duvaucelii shares many genes and pathways with higher vertebrates.","PeriodicalId":21597,"journal":{"name":"Scientific Data","volume":"11 1","pages":"1236"},"PeriodicalIF":5.8,"publicationDate":"2024-11-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11569149/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142644767","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"综合性期刊","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0