Transcriptomic profiling for prolonged drought in Dendrobium catenatum.

Abstract:

:Orchid epiphytes, a group containing at least 18,000 species, thrive in habitats that often undergo periodic drought stress. However, few global gene expression profiling datasets have been published for studies addressing the drought-resistant mechanism of this special population. In this study, an experiment involving the effect of continuous drought treatments on an epiphytic orchid, Dendrobium catenatum, was designed to generate 39 mature-leaf-tissue RNA-seq sequencing datasets with over two billion reads. These datasets were validated by a series of quality assessments including RNA sample quality, RNA-seq read quality, and global gene expression profiling. We believe that these comprehensive transcriptomic resources will allow a better understanding of the drought-resistant mechanisms of orchid epiphytes.

journal_name

Sci Data

journal_title

Scientific data

authors

Wan X,Zou LH,Zheng BQ,Tian YQ,Wang Y

doi

10.1038/sdata.2018.233

subject

Has Abstract

pub_date

2018-10-30 00:00:00

pages

180233

issn

2052-4463

pii

sdata2018233

journal_volume

5

pub_type

  • A data set of global river networks and corresponding water resources zones divisions.

    abstract::As basic data, the river networks and water resources zones (WRZ) are critical for planning, utilization, development, conservation and management of water resources. Currently, the river network and WRZ of world are most obtained based on digital elevation model data automatically, which are not accuracy enough, espe...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0243-y

    authors: Yan D,Wang K,Qin T,Weng B,Wang H,Bi W,Li X,Li M,Lv Z,Liu F,He S,Ma J,Shen Z,Wang J,Bai H,Man Z,Sun C,Liu M,Shi X,Jing L,Sun R,Cao S,Hao C,Wang L,Pei M,Dorjsuren B,Gedefaw M,Girma A,Abiyu A

    更新日期:2019-10-22 00:00:00

  • An agricultural survey for more than 9,500 African households.

    abstract::Surveys for more than 9,500 households were conducted in the growing seasons 2002/2003 or 2003/2004 in eleven African countries: Burkina Faso, Cameroon, Ghana, Niger and Senegal in western Africa; Egypt in northern Africa; Ethiopia and Kenya in eastern Africa; South Africa, Zambia and Zimbabwe in southern Africa. Hous...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2016.20

    authors: Waha K,Zipf B,Kurukulasuriya P,Hassan RM

    更新日期:2016-05-24 00:00:00

  • Complementary proteomics strategies capture an ataxin-1 interactome in Neuro-2a cells.

    abstract::Ataxin-1 mutation, arising from a polyglutamine (polyQ) tract expansion, is the underlying genetic cause of the late-onset neurodegenerative disease Spinocerebellar ataxia type 1 (SCA1). To identify protein partners of polyQ-ataxin-1 in neuronal cells under control or stress conditions, here we report our complementar...

    journal_title:Scientific data

    pub_type:

    doi:10.1038/sdata.2018.262

    authors: Zhang S,Williamson NA,Bogoyevitch MA

    更新日期:2018-11-20 00:00:00

  • A database of human gait performance on irregular and uneven surfaces collected by wearable sensors.

    abstract::Gait analysis has traditionally relied on laborious and lab-based methods. Data from wearable sensors, such as Inertial Measurement Units (IMU), can be analyzed with machine learning to perform gait analysis in real-world environments. This database provides data from thirty participants (fifteen males and fifteen fem...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-0563-y

    authors: Luo Y,Coppola SM,Dixon PC,Li S,Dennerlein JT,Hu B

    更新日期:2020-07-08 00:00:00

  • The effect of 16S rRNA region choice on bacterial community metabarcoding results.

    abstract::In this work, we compare the resolution of V2-V3 and V3-V4 16S rRNA regions for the purposes of estimating microbial community diversity using paired-end Illumina MiSeq reads, and show that the fragment, including V2 and V3 regions, has higher resolution for lower-rank taxa (genera and species). It allows for a more p...

    journal_title:Scientific data

    pub_type:

    doi:10.1038/sdata.2019.7

    authors: Bukin YS,Galachyants YP,Morozov IV,Bukin SV,Zakharenko AS,Zemskaya TI

    更新日期:2019-02-05 00:00:00

  • An open science resource for establishing reliability and reproducibility in functional connectomics.

    abstract::Efforts to identify meaningful functional imaging-based biomarkers are limited by the ability to reliably characterize inter-individual differences in human brain function. Although a growing number of connectomics-based measures are reported to have moderate to high test-retest reliability, the variability in data ac...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2014.49

    authors: Zuo XN,Anderson JS,Bellec P,Birn RM,Biswal BB,Blautzik J,Breitner JC,Buckner RL,Calhoun VD,Castellanos FX,Chen A,Chen B,Chen J,Chen X,Colcombe SJ,Courtney W,Craddock RC,Di Martino A,Dong HM,Fu X,Gong Q,Gorgolews

    更新日期:2014-12-09 00:00:00

  • Human pluripotent stem cell derived HLC transcriptome data enables molecular dissection of hepatogenesis.

    abstract::Induced pluripotent stem cells (iPSCs) and human embryonic stem cells (hESCs) differentiated into hepatocyte-like cells (HLCs) provide a defined and renewable source of cells for drug screening, toxicology and regenerative medicine. We previously reprogrammed human fetal foreskin fibroblast cells (HFF1) into iPSCs emp...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2018.35

    authors: Wruck W,Adjaye J

    更新日期:2018-03-13 00:00:00

  • Viruses of the Nahant Collection, characterization of 251 marine Vibrionaceae viruses.

    abstract::Viruses are highly discriminating in their interactions with host cells and are thought to play a major role in maintaining diversity of environmental microbes. However, large-scale ecological and genomic studies of co-occurring virus-host pairs, required to characterize the mechanistic and genomic foundations of viru...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2018.114

    authors: Kauffman KM,Brown JM,Sharma RS,VanInsberghe D,Elsherbini J,Polz M,Kelly L

    更新日期:2018-07-03 00:00:00

  • Machine learning for the detection of early immunological markers as predictors of multi-organ dysfunction.

    abstract::The immune response to major trauma has been analysed mainly within post-hospital admission settings where the inflammatory response is already underway and the early drivers of clinical outcome cannot be readily determined. Thus, there is a need to better understand the immediate immune response to injury and how thi...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0337-6

    authors: Bravo-Merodio L,Acharjee A,Hazeldine J,Bentley C,Foster M,Gkoutos GV,Lord JM

    更新日期:2019-12-19 00:00:00

  • Curated compendium of human transcriptional biomarker data.

    abstract::One important use of genome-wide transcriptional profiles is to identify relationships between transcription levels and patient outcomes. These translational insights can guide the development of biomarkers for clinical application. Data from thousands of translational-biomarker studies have been deposited in public r...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2018.66

    authors: Golightly NP,Bell A,Bischoff AI,Hollingsworth PD,Piccolo SR

    更新日期:2018-04-17 00:00:00

  • A data citation roadmap for scholarly data repositories.

    abstract::This article presents a practical roadmap for scholarly data repositories to implement data citation in accordance with the Joint Declaration of Data Citation Principles, a synopsis and harmonization of the recommendations of major science policy bodies. The roadmap was developed by the Repositories Expert Group, as p...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0031-8

    authors: Fenner M,Crosas M,Grethe JS,Kennedy D,Hermjakob H,Rocca-Serra P,Durand G,Berjon R,Karcher S,Martone M,Clark T

    更新日期:2019-04-10 00:00:00

  • Multi-year whole-blood transcriptome data for the study of onset and progression of Parkinson's Disease.

    abstract::Parkinson's disease (PD) is an age-related, chronic and progressive neurodegenerative disorder characterized by a loss of multifocal neurons, resulting in both non-motor and motor symptoms. While several genetic and environmental contributory risk factors have been identified, more exact methods for diagnosing and ass...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0022-9

    authors: Valentine MNZ,Hashimoto K,Fukuhara T,Saiki S,Ishikawa KI,Hattori N,Carninci P

    更新日期:2019-04-05 00:00:00

  • Time series of heat demand and heat pump efficiency for energy system modeling.

    abstract::With electric heat pumps substituting for fossil-fueled alternatives, the temporal variability of their power consumption becomes increasingly important to the electricity system. To easily include this variability in energy system analyses, this paper introduces the "When2Heat" dataset comprising synthetic national t...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0199-y

    authors: Ruhnau O,Hirth L,Praktiknjo A

    更新日期:2019-10-01 00:00:00

  • Genome-wide identification of accessible chromatin regions in bumblebee by ATAC-seq.

    abstract::Bumblebees (Hymenoptera: Apidae) are important pollinating insects that play pivotal roles in crop production and natural ecosystem services. Although protein-coding genes in bumblebees have been extensively annotated, regulatory sequences of the genome, such as promoters and enhancers, have been poorly annotated. To ...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-00713-w

    authors: Zhao X,Su L,Xu W,Schaack S,Sun C

    更新日期:2020-10-26 00:00:00

  • Tracking vegetation phenology across diverse biomes using Version 2.0 of the PhenoCam Dataset.

    abstract::Monitoring vegetation phenology is critical for quantifying climate change impacts on ecosystems. We present an extensive dataset of 1783 site-years of phenological data derived from PhenoCam network imagery from 393 digital cameras, situated from tropics to tundra across a wide range of plant functional types, biomes...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0229-9

    authors: Seyednasrollah B,Young AM,Hufkens K,Milliman T,Friedl MA,Frolking S,Richardson AD

    更新日期:2019-10-22 00:00:00

  • Data for training and testing radiation detection algorithms in an urban environment.

    abstract::The detection, identification, and localization of illicit nuclear materials in urban environments is of utmost importance for national security. Most often, the process of performing these operations consists of a team of trained individuals equipped with radiation detection devices that have built-in algorithms to a...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-00672-2

    authors: Ghawaly JM Jr,Nicholson AD,Peplow DE,Anderson-Cook CM,Myers KL,Archer DE,Willis MJ,Quiter BJ

    更新日期:2020-10-05 00:00:00

  • One millennium of historical freshwater fish occurrence data for Portuguese rivers and streams.

    abstract::The insights that historical evidence of human presence and man-made documents provide are unique. For example, using historical data may be critical to adequately understand the ecological requirements of species. However, historical information about freshwater species distribution remains largely a knowledge gap. I...

    journal_title:Scientific data

    pub_type: 历史文章,杂志文章

    doi:10.1038/sdata.2018.163

    authors: Duarte G,Moreira M,Branco P,da Costa L,Ferreira MT,Segurado P

    更新日期:2018-08-14 00:00:00

  • The odonate phenotypic database, a new open data resource for comparative studies of an old insect order.

    abstract::We present The Odonate Phenotypic Database (OPD): an online data resource of dragonfly and damselfly phenotypes (Insecta: Odonata). Odonata is a relatively small insect order that currently consists of about 6400 species belonging to 32 families. The database consists of multiple morphological, life-history and behavi...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0318-9

    authors: Waller JT,Willink B,Tschol M,Svensson EI

    更新日期:2019-12-12 00:00:00

  • A dataset describing a suite of novel antibody reagents for the RAS signaling network.

    abstract::RAS genes are frequently mutated in cancer and have for decades eluded effective therapeutic attack. The National Cancer Institute's RAS Initiative has a focus on understanding pathways and discovering therapies for RAS-driven cancers. Part of these efforts is the generation of novel reagents to enable the quantificat...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-019-0166-7

    authors: Schoenherr RM,Huang D,Voytovich UJ,Ivey RG,Kennedy JJ,Saul RG,Colantonio S,Roberts RR,Knotts JG,Kaczmarczyk JA,Perry C,Hewitt SM,Bocik W,Whiteley GR,Hiltke T,Boja ES,Rodriguez H,Whiteaker JR,Paulovich AG

    更新日期:2019-08-29 00:00:00

  • Multi-omics profile of the mouse dentate gyrus after kainic acid-induced status epilepticus.

    abstract::Temporal lobe epilepsy (TLE) can develop from alterations in hippocampal structure and circuit characteristics, and can be modeled in mice by administration of kainic acid (KA). Adult neurogenesis in the dentate gyrus (DG) contributes to hippocampal functions and has been reported to contribute to the development of T...

    journal_title:Scientific data

    pub_type: 评论,杂志文章

    doi:10.1038/sdata.2016.68

    authors: Schouten M,Bielefeld P,Fratantoni SA,Hubens CJ,Piersma SR,Pham TV,Voskuyl RA,Lucassen PJ,Jimenez CR,Fitzsimons CP

    更新日期:2016-08-16 00:00:00

  • The Dat Project, an open and decentralized research data tool.

    abstract::Today's scientific data are primarily stored and accessed via centralized Web-based infrastructure. Centralization has advantages but also carries risks such as link rot and content drift, which can hinder scientific progress. It is time to ask whether traditional, centralized Web architecture aligns with scholarly pr...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2018.221

    authors: Robinson DC,Hand JA,Madsen MB,McKelvey KR

    更新日期:2018-10-23 00:00:00

  • A structured open dataset of government interventions in response to COVID-19.

    abstract::In response to the COVID-19 pandemic, governments have implemented a wide range of non-pharmaceutical interventions (NPIs). Monitoring and documenting government strategies during the COVID-19 crisis is crucial to understand the progression of the epidemic. Following a content analysis strategy of existing public info...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-00609-9

    authors: Desvars-Larrive A,Dervic E,Haug N,Niederkrotenthaler T,Chen J,Di Natale A,Lasser J,Gliga DS,Roux A,Sorger J,Chakraborty A,Ten A,Dervic A,Pacheco A,Jurczak A,Cserjan D,Lederhilger D,Bulska D,Berishaj D,Tames EF,Álv

    更新日期:2020-08-27 00:00:00

  • Map of physical interactions between extracellular domains of Arabidopsis leucine-rich repeat receptor kinases.

    abstract::Plants use surface receptors to perceive information about many aspects of their local environment. These receptors physically interact to form both steady state and signalling competent complexes. The signalling events downstream of receptor activation impact both plant developmental and immune responses. Here, we pr...

    journal_title:Scientific data

    pub_type:

    doi:10.1038/sdata.2019.25

    authors: Mott GA,Smakowska-Luzan E,Pasha A,Parys K,Howton TC,Neuhold J,Lehner A,Grünwald K,Stolt-Bergner P,Provart NJ,Mukhtar MS,Desveaux D,Guttman DS,Belkhadir Y

    更新日期:2019-02-26 00:00:00

  • Publisher Correction: Tracking vegetation phenology across diverse biomes using Version 2.0 of the PhenoCam Dataset.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Scientific data

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/s41597-019-0270-8

    authors: Seyednasrollah B,Young AM,Hufkens K,Milliman T,Friedl MA,Frolking S,Richardson AD

    更新日期:2019-11-01 00:00:00

  • Age-related dataset on the mechanical properties and collagen fibril structure of tendons from a murine model.

    abstract::Connective tissues such as tendon, ligament and skin are biological fibre composites comprising collagen fibrils reinforcing the weak proteoglycan-rich ground substance in extracellular matrix (ECM). One of the hallmarks of ageing of connective tissues is the progressive and irreversible change in the tissue mechanica...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2018.140

    authors: Goh KL,Holmes DF,Lu YH,Kadler KE,Purslow PP

    更新日期:2018-07-24 00:00:00

  • Thermodynamic and transport properties of hydrogen containing streams.

    abstract::The use of hydrogen (H2) as a substitute for fossil fuel, which accounts for the majority of the world's energy, is environmentally the most benign option for the reduction of CO2 emissions. This will require gigawatt-scale storage systems and as such, H2 storage in porous rocks in the subsurface will be required. Acc...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-0568-6

    authors: Hassanpouryouzband A,Joonaki E,Edlmann K,Heinemann N,Yang J

    更新日期:2020-07-09 00:00:00

  • Very high resolution, altitude-corrected, TMPA-based monthly satellite precipitation product over the CONUS.

    abstract::The Tropical Rainfall Measuring Mission (TRMM) Multisatellite Precipitation Analysis (TMPA) product provided over 17 years of gridded precipitation datasets. However, the accuracy and spatial resolution of TMPA limits the applicability in hydrometeorological applications. We present a dataset that enhances the accurac...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/s41597-020-0411-0

    authors: Hashemi H,Fayne J,Lakshmi V,Huffman GJ

    更新日期:2020-03-03 00:00:00

  • Construction, complete sequence, and annotation of a BAC contig covering the silkworm chorion locus.

    abstract::The silkmoth chorion was studied extensively by F.C. Kafatos' group for almost 40 years. However, the complete structure of the chorion locus was not obtained in the genome sequence of Bombyx mori published in 2008 due to repetitive sequences, resulting in gaps and an incomplete view of the locus. To obtain the comple...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2015.62

    authors: Chen Z,Nohata J,Guo H,Li S,Liu J,Guo Y,Yamamoto K,Kadono-Okuda K,Liu C,Arunkumar KP,Nagaraju J,Zhang Y,Liu S,Labropoulou V,Swevers L,Tsitoura P,Iatrou K,Gopinathan KP,Goldsmith MR,Xia Q,Mita K

    更新日期:2015-11-10 00:00:00

  • Whole genome characterization of sequence diversity of 15,220 Icelanders.

    abstract::Understanding of sequence diversity is the cornerstone of analysis of genetic disorders, population genetics, and evolutionary biology. Here, we present an update of our sequencing set to 15,220 Icelanders who we sequenced to an average genome-wide coverage of 34X. We identified 39,020,168 autosomal variants passing G...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2017.115

    authors: Jónsson H,Sulem P,Kehr B,Kristmundsdottir S,Zink F,Hjartarson E,Hardarson MT,Hjorleifsson KE,Eggertsson HP,Gudjonsson SA,Ward LD,Arnadottir GA,Helgason EA,Helgason H,Gylfason A,Jonasdottir A,Jonasdottir A,Rafnar T,Bes

    更新日期:2017-09-21 00:00:00

  • High-throughput RNAi screen for essential genes and drug synergistic combinations in colorectal cancer.

    abstract::Metastatic colorectal cancer is a leading cause of cancer death. However, current therapy options are limited to chemotherapy, with the addition of anti-EGFR antibodies for patients with RAS wild-type tumours. Novel drug targets, or drug combinations that induce a synergistic response, would be of great benefit to pat...

    journal_title:Scientific data

    pub_type: 杂志文章

    doi:10.1038/sdata.2017.139

    authors: Williams SP,Barthorpe AS,Lightfoot H,Garnett MJ,McDermott U

    更新日期:2017-10-03 00:00:00