cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25061535
title: The complete chloroplast genome of the neo-allotetraploid fern, <i>Asplenium pseudocapillipes</i> S.H.Park et al. (Aspleniaceae)

description: This study analyzed the complete plastome sequence of the neo-allotetraploid <i>Asplenium pseudocapillipes</i> S.H.Park et al. <i>Asplenium pseudocapillipes</i> has a typical circular plastome that comprises 157,242 bp with a large single copy (84,105 bp), a small single copy (21,503 bp), and two inverted repeats (IRs; 25,817 bp). The complete sequence comprises 127 genes, including 87 protein-coding genes (CDSs), eight ribosomal RNAs (rRNAs), 31 transfer RNAs (tRNAs), and one pseudogene. Among these genes, five CDSs, four rRNAs, and five tRNAs are duplicated in IRs. The guanine–cytosine content of the genome was 41.5%. The enlarged noncoding regions by Mobile Open Reading Frames in Fern Organelles were found once in other <i>Asplenium</i> species and twice in <i>A. pseudocapillipes.</i> Phylogenetic analysis based on 83 coding gene sequences revealed that <i>A. pseudocapillipes</i> is embedded in the <i>A. varians</i> subclade along with its progenitors.
DOI: 10.6084/m9.figshare.25092420.v1
title: The complete chloroplast genome sequence of <i>Pinus bhutanica</i> (Pinaceae) and its phylogenetic implications

description: <i>Pinus bhutanica</i> is a critically endangered conifer and occurs only in central Bhutan, northwestern Yunnan and southeastern Xizang in China. In this study, the complete chloroplast genome of <i>Pinus bhutanica</i> was first assembled based on next-generation sequencing. The genome sequence was 116,919 bp in length with an overall GC content of 38.75%. A total of 106 functional genes were detected in the genome, including 72 protein-coding genes (PCGs), 30 transfer RNA (tRNA) genes, and four ribosomal RNA (rRNA) genes. The phylogenetic tree reconstructed by 12 chloroplast genomes revealed that <i>P. bhutanica</i> is most closely related to <i>Pinus wangii</i> in subsection <i>Strobus</i> of <i>Pinus</i>.
DOI: 10.6084/m9.figshare.25061535.v1
title: The complete chloroplast genome of the neo-allotetraploid fern, <i>Asplenium pseudocapillipes</i> S.H.Park et al. (Aspleniaceae)

description: This study analyzed the complete plastome sequence of the neo-allotetraploid <i>Asplenium pseudocapillipes</i> S.H.Park et al. <i>Asplenium pseudocapillipes</i> has a typical circular plastome that comprises 157,242 bp with a large single copy (84,105 bp), a small single copy (21,503 bp), and two inverted repeats (IRs; 25,817 bp). The complete sequence comprises 127 genes, including 87 protein-coding genes (CDSs), eight ribosomal RNAs (rRNAs), 31 transfer RNAs (tRNAs), and one pseudogene. Among these genes, five CDSs, four rRNAs, and five tRNAs are duplicated in IRs. The guanine–cytosine content of the genome was 41.5%. The enlarged noncoding regions by Mobile Open Reading Frames in Fern Organelles were found once in other <i>Asplenium</i> species and twice in <i>A. pseudocapillipes.</i> Phylogenetic analysis based on 83 coding gene sequences revealed that <i>A. pseudocapillipes</i> is embedded in the <i>A. varians</i> subclade along with its progenitors.
DOI: 10.6084/m9.figshare.25108377
title: The complete mitochondrial genome of <i>Aegialites californicus</i> (Motchoulsky, 1845) (insecta: coleoptera: salpingidae)

description: The flightless intertidal beetle genus <i>Aegialites</i> (family Salpingidae) is distributed along the Northern Pacific coasts, from California to Alaska and from Northern Japan to Kamchatka. Systematics of <i>Aegialites</i> and its phylogenetic relationships to other members of Salpingidae are unclear, and little genetic information is available. We here present the first complete mitochondrial genome of this genus, represented by <i>Aegialites californicus</i> (Motchoulsky, 1845) from Sonoma County, California, U.S.A. The complete mitochondrial genome of <i>A. californicus</i> is 15,899 bp long and comprises 13 protein-coding (PCG), two ribosomal RNA (rRNA) and 22 transfer RNA (tRNA) genes. The phylogenetic analysis places <i>A.californicus</i> as sister to other members of family Salpingidae. The mitochondrial genome sequence of <i>A. californicus</i> will contribute to future phylogenetic and taxonomic studies of genus <i>Aegialites</i>, family Salpingidae and superfamily Tenebrionoidea.
DOI: 10.6084/m9.figshare.25108377.v1
title: The complete mitochondrial genome of <i>Aegialites californicus</i> (Motchoulsky, 1845) (insecta: coleoptera: salpingidae)

description: The flightless intertidal beetle genus <i>Aegialites</i> (family Salpingidae) is distributed along the Northern Pacific coasts, from California to Alaska and from Northern Japan to Kamchatka. Systematics of <i>Aegialites</i> and its phylogenetic relationships to other members of Salpingidae are unclear, and little genetic information is available. We here present the first complete mitochondrial genome of this genus, represented by <i>Aegialites californicus</i> (Motchoulsky, 1845) from Sonoma County, California, U.S.A. The complete mitochondrial genome of <i>A. californicus</i> is 15,899 bp long and comprises 13 protein-coding (PCG), two ribosomal RNA (rRNA) and 22 transfer RNA (tRNA) genes. The phylogenetic analysis places <i>A.californicus</i> as sister to other members of family Salpingidae. The mitochondrial genome sequence of <i>A. californicus</i> will contribute to future phylogenetic and taxonomic studies of genus <i>Aegialites</i>, family Salpingidae and superfamily Tenebrionoidea.
DOI: 10.6084/m9.figshare.24851028
title: The complete mitochondrial genome of <i>Nycteribia formosana</i> (Diptera, Nycteribiidae)

description: The family Hippoboscidae is an ectoparasite that primarily inhabits bats and relies on the host’s blood for sustenance. This research provides the first complete mitochondrial genome of <i>Nycteribia formosana</i>, which shares similar characteristics with other dipteran insects. The circularized mitochondrial genome, spanning 15,107 bp, encompasses 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNA), two ribosomal RNA genes, and a control region. The nucleotide composition of A, C, G, and T is 40.4%, 10.9%, 6.7%, and 42.0%, respectively. The findings from the phylogenetic analysis suggest that the species under investigation forms a cluster with other species belonging to the family Nycteribiidae. Consequently, this study provides valuable insights for the identification of <i>N. formosana</i>.
DOI: 10.6084/m9.figshare.24851028.v1
title: The complete mitochondrial genome of <i>Nycteribia formosana</i> (Diptera, Nycteribiidae)

description: The family Hippoboscidae is an ectoparasite that primarily inhabits bats and relies on the host’s blood for sustenance. This research provides the first complete mitochondrial genome of <i>Nycteribia formosana</i>, which shares similar characteristics with other dipteran insects. The circularized mitochondrial genome, spanning 15,107 bp, encompasses 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNA), two ribosomal RNA genes, and a control region. The nucleotide composition of A, C, G, and T is 40.4%, 10.9%, 6.7%, and 42.0%, respectively. The findings from the phylogenetic analysis suggest that the species under investigation forms a cluster with other species belonging to the family Nycteribiidae. Consequently, this study provides valuable insights for the identification of <i>N. formosana</i>.
DOI: 10.6084/m9.figshare.24850888
title: Characterization of chloroplast genome and phylogenetic analysis of the Elaeagnus hybrid variety E. ‘viridis’ (Elaeagnaceae)

description: <i>Elaeagnus</i> ‘viridis’, an artificial hybrid of <i>E. macrophylla</i> (♂) Thunb. (1784) × <i>E. pungens</i> (♀) Thunb. (1784), is known for its economic and ecological value. In this study, we sequenced and assembled the whole chloroplast (cp) genome of <i>E.</i> ‘viridis’. The results showed that its cp genome was 152,284 bp long, showing a typical quadripartite structure and containing a large single-copy region (LSC, 82,299 bp), a small single-copy region (SSC, 18,239 bp), and a pair of inverted repeats (IRs, 51,746 bp). The cp genome contains 132 genes, including 86 protein-coding genes (PCGs), 38 tRNA genes, and 8 rRNA genes. Phylogenetic analysis based on 66 common PCGs revealed that <i>E.</i> ‘viridis’ is most closely related to its maternal parent <i>E. pungens</i>. The chloroplast genomic information reported in this study will shed some useful light for further genetic studies in the genus <i>Elaeagnus</i>.
DOI: 10.6084/m9.figshare.24850888.v1
title: Characterization of chloroplast genome and phylogenetic analysis of the Elaeagnus hybrid variety E. ‘viridis’ (Elaeagnaceae)

description: <i>Elaeagnus</i> ‘viridis’, an artificial hybrid of <i>E. macrophylla</i> (♂) Thunb. (1784) × <i>E. pungens</i> (♀) Thunb. (1784), is known for its economic and ecological value. In this study, we sequenced and assembled the whole chloroplast (cp) genome of <i>E.</i> ‘viridis’. The results showed that its cp genome was 152,284 bp long, showing a typical quadripartite structure and containing a large single-copy region (LSC, 82,299 bp), a small single-copy region (SSC, 18,239 bp), and a pair of inverted repeats (IRs, 51,746 bp). The cp genome contains 132 genes, including 86 protein-coding genes (PCGs), 38 tRNA genes, and 8 rRNA genes. Phylogenetic analysis based on 66 common PCGs revealed that <i>E.</i> ‘viridis’ is most closely related to its maternal parent <i>E. pungens</i>. The chloroplast genomic information reported in this study will shed some useful light for further genetic studies in the genus <i>Elaeagnus</i>.
DOI: 10.6084/m9.figshare.25092419.v1
title: Complete mitochondrial genome of the Korean endemic springtail <i>Tomocerus caputiviolaceus</i> Lee 1975 (Collembola: Tomoceridae)

description: The complete mitochondrial genome of <i>Tomocerus caputiviolaceus</i> was sequenced and assembled. The complete mitochondrial genome is 15,519 bp in length. The mitogenome contained 37 genes, including 13 protein-coding genes (PCGs), 22 tRNAs, and two rRNAs. In phylogenetic analysis based on the nucleotide sequences of 13 PCGs, <i>T. caputiviolaceus</i> is closely related to <i>Tomocerus qinae</i> Yu, Yao & Hu, 2016, both of which belong to the genus <i>Tomocerus</i> within the family Tomoceridae.
DOI: 10.6084/m9.figshare.25092419
title: Complete mitochondrial genome of the Korean endemic springtail <i>Tomocerus caputiviolaceus</i> Lee 1975 (Collembola: Tomoceridae)

description: The complete mitochondrial genome of <i>Tomocerus caputiviolaceus</i> was sequenced and assembled. The complete mitochondrial genome is 15,519 bp in length. The mitogenome contained 37 genes, including 13 protein-coding genes (PCGs), 22 tRNAs, and two rRNAs. In phylogenetic analysis based on the nucleotide sequences of 13 PCGs, <i>T. caputiviolaceus</i> is closely related to <i>Tomocerus qinae</i> Yu, Yao & Hu, 2016, both of which belong to the genus <i>Tomocerus</i> within the family Tomoceridae.
DOI: 10.6084/m9.figshare.24849605
title: Complete mitochondrial genome of <i>Neuroctenus yunnanensis</i> Hsiao, 1964 (Hemiptera: Aradidae: Mezirinae)

description: The complete <i>Neuroctenus yunnanensis</i> Hsiao, 1964, mitogenome was sequenced using an Illumina NovaSeq platform and submitted to GenBank (accession number: ON507991). The mitochondrial genome is a typical circular DNA molecule of 15,283 bp with 37 genes, including 22 tRNA genes, 13 protein-coding genes (PCGs), two rRNA genes, and a control region. Phylogenetic reconstruction validated the taxonomic status of <i>N. yunnanensis</i>, which was placed in the Mezirinae subfamily (Aradidae) and most closely related to <i>N. parus</i>. The mitochondrial genome data of <i>N. yunnanensis</i> provides a basis for genetic research.
DOI: 10.6084/m9.figshare.24849605.v1
title: Complete mitochondrial genome of <i>Neuroctenus yunnanensis</i> Hsiao, 1964 (Hemiptera: Aradidae: Mezirinae)

description: The complete <i>Neuroctenus yunnanensis</i> Hsiao, 1964, mitogenome was sequenced using an Illumina NovaSeq platform and submitted to GenBank (accession number: ON507991). The mitochondrial genome is a typical circular DNA molecule of 15,283 bp with 37 genes, including 22 tRNA genes, 13 protein-coding genes (PCGs), two rRNA genes, and a control region. Phylogenetic reconstruction validated the taxonomic status of <i>N. yunnanensis</i>, which was placed in the Mezirinae subfamily (Aradidae) and most closely related to <i>N. parus</i>. The mitochondrial genome data of <i>N. yunnanensis</i> provides a basis for genetic research.
DOI: 10.6084/m9.figshare.24977348
title: Complete mitochondrial genome of the razor-backed musk turtle (<i>Sternotherus carinatus</i>, testudines: emydidae) in Korea

description: <i>Sternotherus carinatus</i> has been considered as a potential invasive species in Korea. However, the mitochondrial genome information of <i>S. carinatus</i> which can be used to control its effect on ecosystem is lacking. In this study, the complete mitochondrial genome of <i>S. carinatus</i> in Korea was sequenced and characterized. The mitochondrial genome consists of 37 genes (13 protein-coding genes, 22 transfer RNA genes, and 2 ribosomal RNA genes) and a noncoding region. Phylogenetic analysis based on the mitochondrial genome sequences showed that <i>S. carinatus</i> from Korea is separated from other turtles which are the invasive species in Korea. Sequence divergence calculations indicated near-zero divergence between <i>S. carinatus</i> populations in Korea, the USA, and China, suggesting limited genetic differentiation. In the context of the broader issue of invasive species disrupting ecosystems, this research contributes to the identification of mitochondrial genomes for various freshwater turtle species, emphasizing the need for extended data collection to discern genetic mixing trends between native and non-native species. This study is a significant step toward managing <i>S. carinatus</i> as a potential invasive species in Korea.
DOI: 10.6084/m9.figshare.25053281
title: The complete chloroplast genome of <i>Brassica rapa</i> var. <i>purpuraria</i> (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

description: Zicaitai (<i>Brassica rapa</i> var. <i>purpuraria</i> (L.H.Bailey) Kitam 1950) is a vegetable crop that boasts a high nutritional value and unique flavor. It originated from Central China and was formed after long-term cultivation and domestication. In this study, we obtained the complete sequence of the chloroplast genome of zicaitai, a circular molecule of 153,483 bp in length. This chloroplast genome consists of a large single-copy (LSC) region (83,282 bp), a small single-copy (SSC) region (17,775 bp), and a pair of inverted repeats (IRs) (26,213 bp). By sequence annotation, 132 genes, including 87 protein-coding genes, 37 tRNA genes, and eight rRNA genes were identified in the zicaitai chloroplast. A total of 315 simple sequence repeats (SSRs) were found located in LSC (197), SSC (72), and IR (46), respectively. Phylogenetic analysis based on chloroplast genomes indicated the relationship of zicaitai and the <i>Brassicaceae</i> family, which supports zicaitai as a variety of <i>B. rapa</i> in taxonomy. The results obtained in this study provide insight into further research on <i>Brassica</i> chloroplasts and their phylogeny.
DOI: 10.6084/m9.figshare.25053281.v1
title: The complete chloroplast genome of <i>Brassica rapa</i> var. <i>purpuraria</i> (L.H.Bailey) Kitam 1950 and its phylogenetic analysis

description: Zicaitai (<i>Brassica rapa</i> var. <i>purpuraria</i> (L.H.Bailey) Kitam 1950) is a vegetable crop that boasts a high nutritional value and unique flavor. It originated from Central China and was formed after long-term cultivation and domestication. In this study, we obtained the complete sequence of the chloroplast genome of zicaitai, a circular molecule of 153,483 bp in length. This chloroplast genome consists of a large single-copy (LSC) region (83,282 bp), a small single-copy (SSC) region (17,775 bp), and a pair of inverted repeats (IRs) (26,213 bp). By sequence annotation, 132 genes, including 87 protein-coding genes, 37 tRNA genes, and eight rRNA genes were identified in the zicaitai chloroplast. A total of 315 simple sequence repeats (SSRs) were found located in LSC (197), SSC (72), and IR (46), respectively. Phylogenetic analysis based on chloroplast genomes indicated the relationship of zicaitai and the <i>Brassicaceae</i> family, which supports zicaitai as a variety of <i>B. rapa</i> in taxonomy. The results obtained in this study provide insight into further research on <i>Brassica</i> chloroplasts and their phylogeny.
DOI: 10.6084/m9.figshare.24977348.v1
title: Complete mitochondrial genome of the razor-backed musk turtle (<i>Sternotherus carinatus</i>, testudines: emydidae) in Korea

description: <i>Sternotherus carinatus</i> has been considered as a potential invasive species in Korea. However, the mitochondrial genome information of <i>S. carinatus</i> which can be used to control its effect on ecosystem is lacking. In this study, the complete mitochondrial genome of <i>S. carinatus</i> in Korea was sequenced and characterized. The mitochondrial genome consists of 37 genes (13 protein-coding genes, 22 transfer RNA genes, and 2 ribosomal RNA genes) and a noncoding region. Phylogenetic analysis based on the mitochondrial genome sequences showed that <i>S. carinatus</i> from Korea is separated from other turtles which are the invasive species in Korea. Sequence divergence calculations indicated near-zero divergence between <i>S. carinatus</i> populations in Korea, the USA, and China, suggesting limited genetic differentiation. In the context of the broader issue of invasive species disrupting ecosystems, this research contributes to the identification of mitochondrial genomes for various freshwater turtle species, emphasizing the need for extended data collection to discern genetic mixing trends between native and non-native species. This study is a significant step toward managing <i>S. carinatus</i> as a potential invasive species in Korea.
DOI: 10.6084/m9.figshare.24977351
title: The complete mitochondrial genome and phylogenetic analysis of hydrozoan jellyfish <i>Eirene ceylonensis</i> (Cnidaria, Hydrozoa, Eirenidae) in the coastal sea of Qinhuangdao, China

description: <i>Eirene ceylonensis,</i> a hydrozoan jellyfish species with a complex polymorphic life cycle, is widely distributed in the Chinese coastal sea. In this study, we conducted sequencing and analysis of the first complete mitochondrial genome of <i>E. ceylonensis,</i> obtained from the coastal sea of Qinhuangdao, China. The linear mitochondrial genome is 14,997 bp in length with the overall AT content being 72.8%, encoding 13 protein-coding genes (PCGs), two transfer RNA (tRNA) genes (<i>tRNA-Met</i> and <i>tRNA-Trp</i>) and two ribosomal RNA (rRNA) genes (<i>rrnS</i> and <i>rrnL</i>). Phylogenetic analysis of 13 PCGs suggests that the <i>E. ceylonensis</i> is closely related to <i>Laomedea flexuosa</i>. The availability of the complete mitochondrial genome of <i>E. ceylonensis</i> will be useful for studying the evolutionary relationships of hydrozoan jellyfish species.
DOI: 10.6084/m9.figshare.24981071
title: Complete chloroplast genome sequence of <i>Pinus tabuliformis</i> var. <i>henryi</i> (Mast.) C.T.Kuan 1983 (Pinaceae)

description: <i>Pinus tabuliformis</i> var. <i>henryi</i> (Mast.) C.T.Kuan 1983 is an endemic and rare subtropical pine, mainly distributed in central China. In this study, we sequenced the complete chloroplast (cp) genome of <i>P. tabuliformis</i> var. <i>henryi</i> and reported it for the first time. The cp genome was 119,634 base pairs (bp) in total length, including two inverted repeats (IRs, 495 bp), separated by a large single-copy region (LSC, 65,600 bp) and a small single-copy region (SSC, 53,044 bp). There are 114 different genes in the cp genome of <i>P. tabuliformis</i> var. <i>henryi</i>, including 74 protein-coding genes, 36 transfer RNA genes, and four ribosomal RNA genes. The overall GC content of the cp genome was 38.5%. Our phylogenetic analysis of <i>P. tabuliformis</i> var. <i>henryi</i> demonstrated that it was closely related to <i>P. tabuliformis</i> and could be used to identify and analyze its genetic diversity, which was expected to provide new data for taxonomic and phylogenetic studies of Pinus.
DOI: 10.6084/m9.figshare.24981071.v1
title: Complete chloroplast genome sequence of <i>Pinus tabuliformis</i> var. <i>henryi</i> (Mast.) C.T.Kuan 1983 (Pinaceae)

description: <i>Pinus tabuliformis</i> var. <i>henryi</i> (Mast.) C.T.Kuan 1983 is an endemic and rare subtropical pine, mainly distributed in central China. In this study, we sequenced the complete chloroplast (cp) genome of <i>P. tabuliformis</i> var. <i>henryi</i> and reported it for the first time. The cp genome was 119,634 base pairs (bp) in total length, including two inverted repeats (IRs, 495 bp), separated by a large single-copy region (LSC, 65,600 bp) and a small single-copy region (SSC, 53,044 bp). There are 114 different genes in the cp genome of <i>P. tabuliformis</i> var. <i>henryi</i>, including 74 protein-coding genes, 36 transfer RNA genes, and four ribosomal RNA genes. The overall GC content of the cp genome was 38.5%. Our phylogenetic analysis of <i>P. tabuliformis</i> var. <i>henryi</i> demonstrated that it was closely related to <i>P. tabuliformis</i> and could be used to identify and analyze its genetic diversity, which was expected to provide new data for taxonomic and phylogenetic studies of Pinus.
DOI: 10.6084/m9.figshare.25026718
title: Complete chloroplast genome of <i>Artabotrys hexapetalus</i> (L.f.) Bhandari 1965 (Annonaceae)

description: <i>Artabotrys hexapetalus</i> (L.f.) Bhandari, 1965, an evergreen climbing shrub of significant value, is prominent in Chinese history and culture. The whole-gene sequencing of its chloroplast genome using Illumina pair-end sequencing data is conducted during this research. The complete chloroplast genome was determined to be 178,457 bp in size, separated by a large single copy (LSC) and a small single copy (SSC) region of 90,803 and 3,066 bp, respectively. A total of 134 genes were identified, including 90 protein-coding genes, 36 tRNA, and eight rRNA genes. Phylogenetic analysis revealed a close relationship between <i>A. hexapetalus</i> and <i>Artabotrys pilosus</i>, forming a sister branch with 100% support. The study suggests that the chloroplast genome of <i>A. hexapetalus</i> provides valuable insights into its evolutionary history and will contribute to the conservation efforts of this species.
DOI: 10.6084/m9.figshare.25026718.v1
title: Complete chloroplast genome of <i>Artabotrys hexapetalus</i> (L.f.) Bhandari 1965 (Annonaceae)

description: <i>Artabotrys hexapetalus</i> (L.f.) Bhandari, 1965, an evergreen climbing shrub of significant value, is prominent in Chinese history and culture. The whole-gene sequencing of its chloroplast genome using Illumina pair-end sequencing data is conducted during this research. The complete chloroplast genome was determined to be 178,457 bp in size, separated by a large single copy (LSC) and a small single copy (SSC) region of 90,803 and 3,066 bp, respectively. A total of 134 genes were identified, including 90 protein-coding genes, 36 tRNA, and eight rRNA genes. Phylogenetic analysis revealed a close relationship between <i>A. hexapetalus</i> and <i>Artabotrys pilosus</i>, forming a sister branch with 100% support. The study suggests that the chloroplast genome of <i>A. hexapetalus</i> provides valuable insights into its evolutionary history and will contribute to the conservation efforts of this species.