Scientific Data最新文献

Multi-variate gridded meteorological data with high spatial resolution play a key role in studies related to climate change. This study constructed a 4 km daily gridded meteorological dataset for mainland of China (China Daily Meteorological Dataset; CDMet) from 2000 to 2020. The dataset includes nine meteorological variables: 2-meter air temperature (maximum, minimum, and mean temperatures), total precipitation, skin temperature, 10-meter wind speed, relative humidity, surface pressure, and sunshine duration. CDMet was generated using an adaptive interpolation scheme, which employed thin-plate spline and random forest methods to construct the interpolation model. Six combinations of location and terrain information were designed and used as covariates in the model together with reanalysis data. Validation with independent observation stations and existing datasets showed that CDMet has acceptable accuracy, reasonable seasonal variability, and precise spatial distribution, and its accuracy is comparable to that of other datasets. Due to its comprehensive variables and high resolution, CDMet can be used as input data for hydrological, agricultural, and ecological models.

Chronic postsurgical pain (CPSP), with a high prevalence and rising epidemic of opioids crisis, is typically derived from acute postoperative pain. Our knowledge on the forming of chronic pain mostly derives from mechanistic studies of pain processing in the brain and spinal cord circuits, yet most pharmacological interventions targeting CNS came to be unhelpful in preventing CPSP. Revealing the peripheral mechanisms behind the transition from acute to chronic pain after surgery could shine a light on the novel analgesic regimens. Based on two recognized animal models in simulation of acute and chronic postsurgical pain, we provide a next-generation RNA sequencing (RNA-seq) data set to evaluate the time-course transcriptomic variation in the tissue of skin, muscle and dorsal root ganglion (DRG) in these two pain models. The aim of this study is to identify the potential origin and mechanism of the persistent postoperative pain, and further to explore effective and safer analgesic regimens for surgical patients.

Lagerstroemia speciosa is a famous medicinal and ornamental plant of the Lagerstroemia genus, with large and gorgeous flowers and a flowering period of 3 to 5 months. L. speciosa extracts have been used for many years in folk medicine to treat diabetes. Here, we used PacBio and Hi-C sequencing technologies to obtain a high-quality whole genome map of L. speciosa at chromosome level. The assembled genome is 306.76 Mb, with a scaffold N50 of 13.03 Mb. 98.75% of contigs were anchored to 24 pseudochromosomes, and 38.58% of the contigs (118.11 Mb) were identified as repeats. 93.54% of the 29,351 protein-coding genes were annotated. In addition, 146 miRNAs, 511 tRNAs, 2,733 rRNAs and 679 snRNAs were annotated. This high-quality genome assembly provides a valuable resource for understanding the species evolution in the Lythraceae family and promoting the study of important traits of L. speciosa.

Biological invasion is a major global problem, leading to the loss of biodiversity and species extinction, and causing huge economic losses to countries. Obolodiplosis robiniae is a major invasive forest pest that has caused economic losses in Asia and Europe. Here, the chromosome- level genome of O. robiniae was assembled using the PacBio platform and Hi-C technology. A contig-level genome with a length of 199.49 Mb and a contig N50 of 4.66 Mb was assembled. Approximately 98.05% of contigs were successfully anchored to four chromosomes using Hi-C assisted genome assembly. The genome integrity was assessed to be 90.3% based on BUSCOs analysis. The high-quality genome provides valuable data for the study of invasive species, and a foundation for the understanding the biology and ecology of O. robiniae.

The pearlspot, Etroplus suratensis is a climate resilient cichlid fish that exhibits unusual adaptation to salinity. The fish is able to complete full life cycle in diverse salinity habitats ranging from fresh water to marine environments. High-quality primary and phased genome assemblies were generated for pearlspot fish using PacBio HiFi and Arima HiC sequencing technologies, for the first time. The primary assembly is highly contiguous with contig N50 length of 36 Mb. The final assembly is of 1.247 Gb with N50 length of 51.57 Mb and 98% of the genome length anchored to 24 chromosomes. The genome was assessed to be 99.9% complete based on BUSCO evaluation and was predicted to contain 52.96% repeat elements. We have predicted 27,192 protein encoding genes, of which 21,580 were functionally annotated. The genome offers an invaluable resource to understand adaptation of pearlspot fish to diverse salinity habitats.

Leeches are famous for their high medical value and wide environmental adaptability. Among them, cave leeches are a very fascinating and rare group, which is an important component in the study of adaptive evolution of leeches. However, no study has yet reported a reference genome for this group. In this study, we assembled a high-quality chromosome-level genome of the cave terrestrial leech Sinospelaeobdella cavatuses, through Illumina and PacBio sequencing, alongside chromosome conformation capture techniques. The resulting genome spans 153.67 Mb across 9 pseudochromosomes(range: 11.33 to 23.53 Mb), with a mounting rate of up to 95.37% and features an N50 length of 17.15 Mb. This genome is composed of 35.16% repetitive elements and contains 21180 predicted protein-coding genes. Decoding the S. cavatuses genome not only promotes future studies on study of its phylogeny, evolution, and behavior, but also provides valuable resources for in-depth investigation on adaptive evolution of leech.

Quasicrystals are solid-state materials that typically exhibit unique symmetries, such as icosahedral or decagonal diffraction symmetry. They were first discovered in 1984. Over the past four decades of quasicrystal research, around 100 stable quasicrystals have been discovered. In recent years, machine learning has been employed to explore quasicrystals with unique properties inherent to quasiperiodic systems. However, the lack of open data on quasicrystal composition, structure, and physical properties has hindered the widespread use of machine learning in quasicrystal research. This study involves a comprehensive literature review and manual data extraction to develop open datasets consisting of composition, structure types, phase diagrams, and sample fabrication processes for a wide range of stable and metastable quasicrystals and approximant crystals, as well as the temperature-dependent thermal, electrical, and magnetic properties.

Targeted knockout, mutations, or knock-in of genomic DNA fragments in model organisms have been used widely for functional and cell-tracking studies. The desired genetic perturbation is often accomplished by recombination-based or CRISPR/Cas9-based genome engineering. For validating the intended genetic modification, a local region surrounding the targeted locus is typically examined based on enzymatic cleavage and consequent length patterns, e.g. in a Southern analysis. Despite its wide use, this approach is open to incomplete and ambiguous readouts. With decreasing costs of high-throughput sequencing, it is becoming feasible to consider a large-scale validation of a new strain after a targeted genetic perturbation. Here we describe a dataset of whole-genome sequences and the variant analysis results from four novel reporter mouse strains. This served to validate the strains and identified all the off-target effects on the genome, thereby increasing the genetic diversity of genomic sequences over those represented in the public databases for inbred mice.

The Indo-Pacific king mackerel, scientifically known as Scomberomorus guttatus, is a valued marine species that holds significant commercial importance in the Indo-Pacific region. However, the lack of genomic resources has hindered a comprehensive understanding of this species. In this study, we constructed a genome of Indo-Pacific king mackerel at the chromosome level using a combination of PacBio HiFi reads and a chromosome contact map (Hi-C). The resulting genome had high contig and scaffold N50 values of 8.84 Mb and 32.9 Mb, respectively. In the genome assembly, which is 797.66 Mb in size and consists of 24 chromosomes, we also identified 35.89% repetitive elements and predicted 25,886 protein-coding genes. Our study not only benefits to reveal the possible mechanism of adaptive evolution in this fish, but also offers insight for the future sustainable management of these valuable biological resources.

The July 2024 eruption of Stromboli volcano has been characterised by the manifestation, at variable intensity, of the entire repertoire of volcanic events that Stromboli volcano is capable of, and is by far the one that has most changed the morphology of the crater terrace and of the Sciara del Fuoco slope in the last decades. We present the results of an Unoccupied Aircraft System (UAS) survey performed on 14 July 2024 and consisting of 4,988 visible and thermal photographs coupled with Structure-from-Motion photogrammetry that allowed us to produce a high-resolution (0.2 m/pixel) Digital Surface Model (DSM). We documented the profound morphological changes of the Stromboli volcano resulting from the 4-11 July 2024 eruption and obtained elevation and volume change estimates by differencing our survey and a UAS-derived pre-event surface (24 May 2024).