cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.4pxdf5
title: Occurrence Download

description: A dataset containing 12638 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Specimen, Occurrence evidence, Observation)",
 "OccurrenceStatus is Present",
 "TaxonKey is Phytolacca icosandra L.",
 "Year 1950-2024"
 ]
}

 The dataset includes 12638 records from 206 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033531-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26879068
title: The complete chloroplast genome sequence of red raspberry (<i>Rubus idaeus</i> L.) and phylogenetic analysis

description: Red raspberries, <i>Rubus idaeus</i> L. 1753 are famous fruits which possess high value bioactive compounds. In this study, we report the complete chloroplast genome of <i>R. idaeus</i>, it displayed a typical quadripartite structure with 155687 bp in length. The genome encodes 127 genes including 79 protein coding genes, 8 rRNA genes and 40 tRNA genes, the overall GC content is 37.2%. Phylogenetic analysis revealed a close relationship between <i>R. idaeus</i> and <i>R. sachalinensis</i> in Section Malaehobatus.
DOI: 10.6084/m9.figshare.26879068.v1
title: The complete chloroplast genome sequence of red raspberry (<i>Rubus idaeus</i> L.) and phylogenetic analysis

description: Red raspberries, <i>Rubus idaeus</i> L. 1753 are famous fruits which possess high value bioactive compounds. In this study, we report the complete chloroplast genome of <i>R. idaeus</i>, it displayed a typical quadripartite structure with 155687 bp in length. The genome encodes 127 genes including 79 protein coding genes, 8 rRNA genes and 40 tRNA genes, the overall GC content is 37.2%. Phylogenetic analysis revealed a close relationship between <i>R. idaeus</i> and <i>R. sachalinensis</i> in Section Malaehobatus.
DOI: 10.6084/m9.figshare.27088641
title: The mitochondrial genome sequence of Manchurian Hare (<i>Lepus mandshuricus</i>)

description: The Manchurian hare (<i>Lepus mandshuricus</i>) is widely distributed in eastern Russia and northeastern China, but due to limited research, its taxonomic status remains somewhat ambiguous. The mitochondrial genome of the Manchurian hare was 16,705 bp in length, which was consisted of 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes and one control region. The overall nucleotide composition is 31.7% A, 29.4% T, 13.3% G, and 25.6% C, indicating a high AT content. Phylogenetic analysis reveals a closer relationship of the Manchurian hare with the Korean hare (<i>Lepus coreanus</i>) and the Iberian hare (<i>Lepus granatensis</i>), while its relationship with the Hainan rabbit (<i>Lepus hainanus</i>), European hare (<i>Lepus europaeus</i>) and the snowshoe hare (<i>Lepus americanus</i>) is more distant. The mitochondrial genome of the Manchurian hare is of vital importance for the phylogenetic analysis of lagomorphs and provides valuable data for deeper evolutionary inquiries.
DOI: 10.6084/m9.figshare.27088641.v1
title: The mitochondrial genome sequence of Manchurian Hare (<i>Lepus mandshuricus</i>)

description: The Manchurian hare (<i>Lepus mandshuricus</i>) is widely distributed in eastern Russia and northeastern China, but due to limited research, its taxonomic status remains somewhat ambiguous. The mitochondrial genome of the Manchurian hare was 16,705 bp in length, which was consisted of 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes and one control region. The overall nucleotide composition is 31.7% A, 29.4% T, 13.3% G, and 25.6% C, indicating a high AT content. Phylogenetic analysis reveals a closer relationship of the Manchurian hare with the Korean hare (<i>Lepus coreanus</i>) and the Iberian hare (<i>Lepus granatensis</i>), while its relationship with the Hainan rabbit (<i>Lepus hainanus</i>), European hare (<i>Lepus europaeus</i>) and the snowshoe hare (<i>Lepus americanus</i>) is more distant. The mitochondrial genome of the Manchurian hare is of vital importance for the phylogenetic analysis of lagomorphs and provides valuable data for deeper evolutionary inquiries.
DOI: 10.6084/m9.figshare.27029129
title: The ancient mitochondrial genome of a Siberian roe deer (<i>Capreolus pygargus</i>) from Jartai Pass Site in Xinjiang, China, and its phylogenetic relationships

description: The ancient mitochondrial genome of a Siberian roe deer (<i>Capreolus pygargus</i>) coded as NJ26S from Jartai Pass Site was obtained by high throughput sequencing. The damage pattern demonstrated the authenticity and reliability of the ancient DNA data. The length of the mitogenome was 16,357 bp, which contained 13 protein-coding genes, two rRNA genes, 22 tRNA genes, and one control region. The total base composition of the mitochondrial genome is 28.17% A, 25.01% T, 11.89% G, 19.72% C, and 15.21% missing data with an AT composition of 53.18%. A maximum-likelihood phylogenetic tree was recovered including other roe deer sequences under the TIM2 + I + G4 model. This study presents molecular evidence indicating the presence of <i>Capreolus pygargus</i> in the Xinjiang Uygur Autonomous Region in China more than 3,000 years ago.
DOI: 10.6084/m9.figshare.27029129.v1
title: The ancient mitochondrial genome of a Siberian roe deer (<i>Capreolus pygargus</i>) from Jartai Pass Site in Xinjiang, China, and its phylogenetic relationships

description: The ancient mitochondrial genome of a Siberian roe deer (<i>Capreolus pygargus</i>) coded as NJ26S from Jartai Pass Site was obtained by high throughput sequencing. The damage pattern demonstrated the authenticity and reliability of the ancient DNA data. The length of the mitogenome was 16,357 bp, which contained 13 protein-coding genes, two rRNA genes, 22 tRNA genes, and one control region. The total base composition of the mitochondrial genome is 28.17% A, 25.01% T, 11.89% G, 19.72% C, and 15.21% missing data with an AT composition of 53.18%. A maximum-likelihood phylogenetic tree was recovered including other roe deer sequences under the TIM2 + I + G4 model. This study presents molecular evidence indicating the presence of <i>Capreolus pygargus</i> in the Xinjiang Uygur Autonomous Region in China more than 3,000 years ago.
DOI: 10.6084/m9.figshare.26923620
title: High-throughput sequencing yields the complete plastid genome of the endemic species <i>Phragmipedium kovachii</i> (Orchidaceae) from northeastern Peru

description: <i>Phragmipedium kovachii</i> is a species of orchid endemic to the Amazonas and San Martín regions. Unfortunately, its excessive extraction has made it a critically endangered species. In this study, we performed next-generation sequencing of <i>P. kovachii</i> (GenBank accession number OR348669) and assembled its complete chloroplast genome. The complete chloroplast genome of <i>P. kovachii</i> is A + T-rich (64.3%), measuring 152,918 bp in length. This plastid genome contains a total of 124 genes (77 protein-coding genes, 39 tRNAs, and eight rRNAs) and five pseudogenes, including a pair of inverted repeats (IRs) 25,116 bp in size and separated by a large single-copy (LSC) region of 89,216 bp and a small single-copy (SSC) region of 13,470 bp. This genome has a typical quadripartite organization following the structure of other Orchidaceae plastomes. Phylogenetic analyses revealed the close relationship between <i>P. kovachii</i> and <i>P. besseae.</i> This study contributes to the understanding of the phylogenetic relationships of the monophyletic group Cypripedioideae.
DOI: 10.6084/m9.figshare.26923620.v1
title: High-throughput sequencing yields the complete plastid genome of the endemic species <i>Phragmipedium kovachii</i> (Orchidaceae) from northeastern Peru

description: <i>Phragmipedium kovachii</i> is a species of orchid endemic to the Amazonas and San Martín regions. Unfortunately, its excessive extraction has made it a critically endangered species. In this study, we performed next-generation sequencing of <i>P. kovachii</i> (GenBank accession number OR348669) and assembled its complete chloroplast genome. The complete chloroplast genome of <i>P. kovachii</i> is A + T-rich (64.3%), measuring 152,918 bp in length. This plastid genome contains a total of 124 genes (77 protein-coding genes, 39 tRNAs, and eight rRNAs) and five pseudogenes, including a pair of inverted repeats (IRs) 25,116 bp in size and separated by a large single-copy (LSC) region of 89,216 bp and a small single-copy (SSC) region of 13,470 bp. This genome has a typical quadripartite organization following the structure of other Orchidaceae plastomes. Phylogenetic analyses revealed the close relationship between <i>P. kovachii</i> and <i>P. besseae.</i> This study contributes to the understanding of the phylogenetic relationships of the monophyletic group Cypripedioideae.
DOI: 10.6084/m9.figshare.27023749
title: The complete mitochondrial genome and phylogenetic analysis of <i>Rattus tanezumi</i> (Niethammer, 1975), captured from North China

description: <i>Rattus tanezumi</i> (Niethammer, 1975) is one of the commensal rodent species in South China. With the development of transportation and climate change, <i>R. tanezumi</i> has gradually migrated north and become the dominant rat species for the past few years. In this study, we assembled a complete mitochondrial genome of <i>R. tanezumi</i>, captured from North China. The mitogenome contains 16,307 nucleotide pairs, including 13 protein-coding genes, 2 ribosomal RNA genes, and 22 transfer RNA genes, as well as one non-coding control region. Based on whole mitogenome phylogenetical analysis showed that <i>R. tanezumi</i> captured from North China had a close phylogenetic relationship with that from Japan and South Korea. These findings are valuable for further studies on the evolution, genetic diversity, and taxonomy of Asian commensal rodent.
DOI: 10.6084/m9.figshare.27023749.v1
title: The complete mitochondrial genome and phylogenetic analysis of <i>Rattus tanezumi</i> (Niethammer, 1975), captured from North China

description: <i>Rattus tanezumi</i> (Niethammer, 1975) is one of the commensal rodent species in South China. With the development of transportation and climate change, <i>R. tanezumi</i> has gradually migrated north and become the dominant rat species for the past few years. In this study, we assembled a complete mitochondrial genome of <i>R. tanezumi</i>, captured from North China. The mitogenome contains 16,307 nucleotide pairs, including 13 protein-coding genes, 2 ribosomal RNA genes, and 22 transfer RNA genes, as well as one non-coding control region. Based on whole mitogenome phylogenetical analysis showed that <i>R. tanezumi</i> captured from North China had a close phylogenetic relationship with that from Japan and South Korea. These findings are valuable for further studies on the evolution, genetic diversity, and taxonomy of Asian commensal rodent.
DOI: 10.6084/m9.figshare.26941809
title: The complete chloroplast genome of <i>Dryas octopetala</i> var. <i>asiatica</i> (Dryadoideae, Rosaceae) and phylogenetic analysis

description: <i>Dryas octopetala</i> L. var. <i>asiatica</i> (Nakai) Nakai 1918 is a dwarf shrub that mainly grow in alpine and arctic zones of the Northern Hemisphere, representing an endemic variety in Asia. In the present study, the complete chloroplast (cp) genome of <i>D. octopetala</i> var. <i>asiatica</i> was first characterized and used for its phylogenetic analysis. The cp genome span 158,271 bp with an overall GC content of 36.5%. A total of 129 genes were identified, including 84 protein-coding genes (PCGs), 37 tRNA genes, and 8 rRNA genes. In addition, repetitive sequences and microsatellites were detected within this species. Phylogenetic analysis involving 39 cp genomes from Rosaceae family indicated that <i>D. octopetala</i> var. <i>asiatica</i> was sister to the clade of Amygdaloideae. This study contributes fundamental insights into the cp genome of <i>Dryas octopetala</i> var. <i>asiatica</i>, which will have expanded its use in photosynthesis and evolutionary study.
DOI: 10.6084/m9.figshare.26941809.v1
title: The complete chloroplast genome of <i>Dryas octopetala</i> var. <i>asiatica</i> (Dryadoideae, Rosaceae) and phylogenetic analysis

description: <i>Dryas octopetala</i> L. var. <i>asiatica</i> (Nakai) Nakai 1918 is a dwarf shrub that mainly grow in alpine and arctic zones of the Northern Hemisphere, representing an endemic variety in Asia. In the present study, the complete chloroplast (cp) genome of <i>D. octopetala</i> var. <i>asiatica</i> was first characterized and used for its phylogenetic analysis. The cp genome span 158,271 bp with an overall GC content of 36.5%. A total of 129 genes were identified, including 84 protein-coding genes (PCGs), 37 tRNA genes, and 8 rRNA genes. In addition, repetitive sequences and microsatellites were detected within this species. Phylogenetic analysis involving 39 cp genomes from Rosaceae family indicated that <i>D. octopetala</i> var. <i>asiatica</i> was sister to the clade of Amygdaloideae. This study contributes fundamental insights into the cp genome of <i>Dryas octopetala</i> var. <i>asiatica</i>, which will have expanded its use in photosynthesis and evolutionary study.
DOI: 10.6084/m9.figshare.27013219
title: The complete chloroplast genome of <i>Elaeagnus bambusetorum</i> hand.-mazz. 1933 and its implications for phylogenetic relationships in the <i>Elaeagnus</i> genus

description: <i>Elaeagnus bambusetorum</i> Hand.-Mazz. is a rare plant from China in the Elaeagnaceae family. In this study, we sequenced its complete chloroplast genome. The whole chloroplast genome was 152,265 bp in length, containing a pair of inverted repeats of 25,897 bp, separated by large single copy and small single copy regions of 82,291 bp and 18,180 bp, respectively. The complete genome contained 113 genes, including 79 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. The overall GC content was 37.1%. Phylogenetic analysis using the whole chloroplast genome revealed that <i>E. bambusetorum</i> is sister to <i>E. loureirii</i> and <i>E. conferta</i>. Our study provides valuable insights into the genetic information of <i>E. bambusetorum</i>, which may have important implications for species conservation.
DOI: 10.6084/m9.figshare.27013219.v1
title: The complete chloroplast genome of <i>Elaeagnus bambusetorum</i> hand.-mazz. 1933 and its implications for phylogenetic relationships in the <i>Elaeagnus</i> genus

description: <i>Elaeagnus bambusetorum</i> Hand.-Mazz. is a rare plant from China in the Elaeagnaceae family. In this study, we sequenced its complete chloroplast genome. The whole chloroplast genome was 152,265 bp in length, containing a pair of inverted repeats of 25,897 bp, separated by large single copy and small single copy regions of 82,291 bp and 18,180 bp, respectively. The complete genome contained 113 genes, including 79 protein-coding genes, 30 tRNA genes, and 4 rRNA genes. The overall GC content was 37.1%. Phylogenetic analysis using the whole chloroplast genome revealed that <i>E. bambusetorum</i> is sister to <i>E. loureirii</i> and <i>E. conferta</i>. Our study provides valuable insights into the genetic information of <i>E. bambusetorum</i>, which may have important implications for species conservation.
DOI: 10.6084/m9.figshare.27043346
title: The complete chloroplast genome of <i>Pilea notata</i> C. H. Wright, 1899 (Urticaceae)

description: <i>Pilea notata</i> (<i>Pilea notata</i> C. H. Wright_C. H. Wright, 1899) is <i>Pilea Lindl</i>. of Urticaceae, which is a commonly used Miao medicine in Guizhou province. The <i>P. notata</i> chloroplast genome is 150,979 bp, contains a pair of inverted repeats (IRs 25,743bp), and is separated by a large single-copy region (81,446bp) and a small single-copy region (18,047bp). A total of 131 genes, including 86 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis showed that <i>P. notata</i>, <i>P. verrucosa</i> and <i>P. monilifera</i> united as a single branch, while <i>Pilea cadierei</i> was defined as a sister group of this branch.
DOI: 10.6084/m9.figshare.27043346.v1
title: The complete chloroplast genome of <i>Pilea notata</i> C. H. Wright, 1899 (Urticaceae)

description: <i>Pilea notata</i> (<i>Pilea notata</i> C. H. Wright_C. H. Wright, 1899) is <i>Pilea Lindl</i>. of Urticaceae, which is a commonly used Miao medicine in Guizhou province. The <i>P. notata</i> chloroplast genome is 150,979 bp, contains a pair of inverted repeats (IRs 25,743bp), and is separated by a large single-copy region (81,446bp) and a small single-copy region (18,047bp). A total of 131 genes, including 86 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis showed that <i>P. notata</i>, <i>P. verrucosa</i> and <i>P. monilifera</i> united as a single branch, while <i>Pilea cadierei</i> was defined as a sister group of this branch.
DOI: 10.6084/m9.figshare.27094060.v1
title: Characteristics and phylogenetic analysis of the complete chloroplast genome of <i>Mesembryanthemum cordifolium</i> L. F. (Aizoaceae)

description: <i>Mesembryanthemum cordifolium</i>, a perennial plant with crassulacean acid metabolism (CAM) in the Aizoaceae family, has significant ornamental and medicinal values. In this study, we reported the first complete chloroplast genome sequence of this species. The total genome size was 153,734 bp in length, including a large single-copy (LSC) region of 85,692 bp, a small single-copy (SSC) region of 18,212 bp, and a pair of inverted repeat (IR) regions of 24,915 bp by each. The overall GC content of the <i>M. cordifolium</i> chloroplast genome was 37.08%. The genome encodes 131 genes, comprising 87 protein-coding genes (PCGs), 36 transfer RNA genes (tRNAs), and eight ribosomal RNA genes (rRNAs). Phylogenetic analysis shows this species was relatively close to <i>M. crystallinum</i>. This chloroplast genome sequence will be valuable for species discrimination and for understanding phylogenetic relationships within the genus <i>Mesembryanthemum</i>.
DOI: 10.6084/m9.figshare.27094060
title: Characteristics and phylogenetic analysis of the complete chloroplast genome of <i>Mesembryanthemum cordifolium</i> L. F. (Aizoaceae)

description: <i>Mesembryanthemum cordifolium</i>, a perennial plant with crassulacean acid metabolism (CAM) in the Aizoaceae family, has significant ornamental and medicinal values. In this study, we reported the first complete chloroplast genome sequence of this species. The total genome size was 153,734 bp in length, including a large single-copy (LSC) region of 85,692 bp, a small single-copy (SSC) region of 18,212 bp, and a pair of inverted repeat (IR) regions of 24,915 bp by each. The overall GC content of the <i>M. cordifolium</i> chloroplast genome was 37.08%. The genome encodes 131 genes, comprising 87 protein-coding genes (PCGs), 36 transfer RNA genes (tRNAs), and eight ribosomal RNA genes (rRNAs). Phylogenetic analysis shows this species was relatively close to <i>M. crystallinum</i>. This chloroplast genome sequence will be valuable for species discrimination and for understanding phylogenetic relationships within the genus <i>Mesembryanthemum</i>.
DOI: 10.15468/dl.mw4ev6
title: Occurrence Download

description: A dataset containing 1178647 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-123.2088 44.01457, -122.8916 44.01457, -122.8916 44.12453, -123.2088 44.12453, -123.2088 44.01457))",
 "Year is greater than or equal to 2010",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 1178647 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033532-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13853381
title: Bibliographic Analysis Data for PLGA vs Liposomes Comparison Emphasizing on Material Informatics
DOI: 10.5281/zenodo.13853382
title: Bibliographic Analysis Data for PLGA vs Liposomes Comparison Emphasizing on Material Informatics
DOI: 10.15468/dl.am5qzg
title: Occurrence Download

description: A dataset containing 2007 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Chinese Taipei, China, Japan, Papua New Guinea, Viet Nam)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rhododendron latoucheae Franch."
 ]
}

 The dataset includes 2007 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033533-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ptpf2x
title: Occurrence Download

description: A dataset containing 50279 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-103.7808 19.21735, -103.6716 19.21735, -103.6716 19.30003, -103.7808 19.30003, -103.7808 19.21735))",
 "Year is greater than or equal to 2010",
 "HasGeospatialIssue is false",
 "TaxonKey is Aves",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 50279 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033534-240906103802322/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27095362.v2
title: Source Data for 'Robust single modified divacancy color centers in 4H-SiC under resonant excitation'

description: Color centers in silicon carbide (SiC) offer exciting possibilities for quantum information processing. However, the challenge of ionization during optical manipulation leads to charge variations, hampering the efficacy of spin-photon interfaces. Recent research predicted that modified divacancy color centers can stabilize their charge states, resisting photoionization. This study presents a method for precisely creating single divacancy arrays in 4H-SiC using a focused helium ion beam. Photoluminescence tests reveal consistent emission with minimal linewidth fluctuations (∼50 MHz over 3 hours). By measuring the ionization rate for different polytypes of divacancies, we found that the modified divacancies are more robust against resonant excitation. Furthermore, angle-resolved photoluminescence excitation spectra unveil two resonant-transition lines with orthogonal polarizations. Enhanced optical and spin characteristics were notably observed in these divacancies compared to those generated through carbon-ion and shallow implantation methods, positioning modified divacancies as promising contenders for advancing on-chip quantum technologies.