cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29132533
title: Expression characteristics of <i>CsPG23</i> in citrus and analysis of its interacting protein

description: Exploring the resistance genes of citrus to Huanglongbing (HLB) is the foundation and key to citrus disease-resistant breeding. Through the analysis of comparative transcriptome data, we identified six cell wall degradation genes that respond to citrus infection with <i>Ca</i>Las. We selected one of the genes with high differential expression levels and cloned it, naming it <i>CsPG23</i>. The subcellular localization results of tobacco indicated that the <i>CsPG23</i> protein is localized in the nucleus, cytoplasm, and cell membrane. Real-time fluorescence quantitative PCR (RT-qPCR) analysis showed that the expression of <i>CsPG23</i> is related to variety tolerance, tissue location, and symptom development. In addition, we constructed overexpression and silencing vectors for <i>CsPG23</i> and obtained <i>CsPG23</i> silencing plants, overexpression and silencing hairy roots, and analyzed the expression characteristics of <i>CsPG23</i> in response to SA, JA, MeSA and H<sub>2</sub>O<sub>2</sub> induction through RT-qPCR. Using Protein–Protein Interaction (PPI) to predict and screen for a citrus protein CsAGD8 that may interact with CsPG23, and preliminarily verifying its interaction with CsPG23 protein through Yeast Two-hybrid (Y2H). We constructed overexpression and silencing vectors for <i>CsAGD8</i> and obtained <i>CsAGD8</i> overexpression and silencing hairy roots. In summary, it is indicated that CsPG23 may interact with CsAGD8 in response to <i>Ca</i>Las infection.
DOI: 10.6084/m9.figshare.29132533.v1
title: Expression characteristics of <i>CsPG23</i> in citrus and analysis of its interacting protein

description: Exploring the resistance genes of citrus to Huanglongbing (HLB) is the foundation and key to citrus disease-resistant breeding. Through the analysis of comparative transcriptome data, we identified six cell wall degradation genes that respond to citrus infection with <i>Ca</i>Las. We selected one of the genes with high differential expression levels and cloned it, naming it <i>CsPG23</i>. The subcellular localization results of tobacco indicated that the <i>CsPG23</i> protein is localized in the nucleus, cytoplasm, and cell membrane. Real-time fluorescence quantitative PCR (RT-qPCR) analysis showed that the expression of <i>CsPG23</i> is related to variety tolerance, tissue location, and symptom development. In addition, we constructed overexpression and silencing vectors for <i>CsPG23</i> and obtained <i>CsPG23</i> silencing plants, overexpression and silencing hairy roots, and analyzed the expression characteristics of <i>CsPG23</i> in response to SA, JA, MeSA and H<sub>2</sub>O<sub>2</sub> induction through RT-qPCR. Using Protein–Protein Interaction (PPI) to predict and screen for a citrus protein CsAGD8 that may interact with CsPG23, and preliminarily verifying its interaction with CsPG23 protein through Yeast Two-hybrid (Y2H). We constructed overexpression and silencing vectors for <i>CsAGD8</i> and obtained <i>CsAGD8</i> overexpression and silencing hairy roots. In summary, it is indicated that CsPG23 may interact with CsAGD8 in response to <i>Ca</i>Las infection.
DOI: 10.3535/51d-hly-l2w
title: Glaucopsyche alexis (Poda, 1761)

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/7kq-hxp-q44
title: Autographa Hübner, 1821

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/7lb-jjf-nsr
title: Anarta (Calocestra) melanopa Thunberg, 1791

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/sje-n48-ftj
title: Ammoconia caecimacula [Denis & Schiffermüller], 1775

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.6084/m9.figshare.30364363
title: A genome-wide identification and expression analysis of the class III peroxidase gene family in <i>Mangifera indica</i> under abiotic stresses and the <i>MiPRX27</i> gene regulates oxidative stress

description: Class III peroxidases (PRXs) are plant-specific enzymes that play vital roles in various physiological processes. However, the functional roles of mango <i>PRXs</i> under stress conditions remain poorly understood. In this study, we identified 76 <i>MiPRX</i> genes, which are unevenly distributed across the mango chromosomes. RT-qPCR analysis revealed differential expression of most <i>MiPRX</i> genes under oxidative, drought, and salt stress conditions, with <i>MiPRX27</i> showing a particularly prominent role. Under oxidative stress, heterologous overexpression of <i>MiPRX27</i> in <i>Arabidopsis</i> enhanced lateral root formation and accelerated root growth, suggesting that <i>MiPRX27</i> contributes to reducing plant sensitivity to oxidative stress. Overall, this study provides a theoretical foundation for further exploration of <i>MiPRX</i>-mediated mechanisms underlying mango stress tolerance.
DOI: 10.6084/m9.figshare.30364363.v1
title: A genome-wide identification and expression analysis of the class III peroxidase gene family in <i>Mangifera indica</i> under abiotic stresses and the <i>MiPRX27</i> gene regulates oxidative stress

description: Class III peroxidases (PRXs) are plant-specific enzymes that play vital roles in various physiological processes. However, the functional roles of mango <i>PRXs</i> under stress conditions remain poorly understood. In this study, we identified 76 <i>MiPRX</i> genes, which are unevenly distributed across the mango chromosomes. RT-qPCR analysis revealed differential expression of most <i>MiPRX</i> genes under oxidative, drought, and salt stress conditions, with <i>MiPRX27</i> showing a particularly prominent role. Under oxidative stress, heterologous overexpression of <i>MiPRX27</i> in <i>Arabidopsis</i> enhanced lateral root formation and accelerated root growth, suggesting that <i>MiPRX27</i> contributes to reducing plant sensitivity to oxidative stress. Overall, this study provides a theoretical foundation for further exploration of <i>MiPRX</i>-mediated mechanisms underlying mango stress tolerance.
DOI: 10.3535/b4c-mzw-xzz
title: Dypterygia scabriuscula (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.6084/m9.figshare.28601505
title: Specific enhancement of the translation of thermospermine-responsive uORF-containing mRNAs by ribosomal mutations in <i>Arabidopsis thaliana</i>

description: Auxin-induced xylem formation in angiosperms is negatively regulated by thermospermine, whose biosynthesis is also induced by auxin. In <i>Arabidopsis thaliana</i>, loss-of-function mutants of <i>ACL5</i>, which encodes thermospermine synthase, exhibit a dwarf phenotype accompanied by excessive xylem formation. Studies of suppressor mutants that recover from the <i>acl5</i> dwarf phenotype suggest that thermospermine alleviates the inhibitory effect of an upstream open-reading frame (uORF) on the main ORF translation of <i>SAC51</i> mRNA. Many suppressor mutations for <i>acl5</i> have been mapped to the uORF conserved in the <i>SAC51</i> family or to ribosomal protein genes, such as <i>RPL10A</i>, <i>RPL4A</i>, and <i>RACK1A</i>. In this study, we identified newly isolated <i>acl5</i> suppressors, <i>sac501</i>, <i>sac504</i>, and <i>sac506</i>, which are additional alleles of <i>RPL10A</i> and the uORFs of <i>SAC51</i> family members, <i>SACL1</i> and <i>SACL3</i>, respectively. To investigate whether <i>acl5</i>-suppressor alleles of ribosomal genes broadly affect translation of uORF-containing mRNAs, we examined GUS activity in several 5’-GUS fusion constructs. Our results showed that these alleles enhanced GUS activity in <i>SAC51</i> and <i>SACL3</i> 5’-fusion constructs but had no effect on other 5’-fusion constructs unrelated to thermospermine response. This suggests that these ribosomal proteins are specifically involved in the thermospermine-mediated regulation of mRNA translation.
DOI: 10.6084/m9.figshare.28601505.v1
title: Specific enhancement of the translation of thermospermine-responsive uORF-containing mRNAs by ribosomal mutations in <i>Arabidopsis thaliana</i>

description: Auxin-induced xylem formation in angiosperms is negatively regulated by thermospermine, whose biosynthesis is also induced by auxin. In <i>Arabidopsis thaliana</i>, loss-of-function mutants of <i>ACL5</i>, which encodes thermospermine synthase, exhibit a dwarf phenotype accompanied by excessive xylem formation. Studies of suppressor mutants that recover from the <i>acl5</i> dwarf phenotype suggest that thermospermine alleviates the inhibitory effect of an upstream open-reading frame (uORF) on the main ORF translation of <i>SAC51</i> mRNA. Many suppressor mutations for <i>acl5</i> have been mapped to the uORF conserved in the <i>SAC51</i> family or to ribosomal protein genes, such as <i>RPL10A</i>, <i>RPL4A</i>, and <i>RACK1A</i>. In this study, we identified newly isolated <i>acl5</i> suppressors, <i>sac501</i>, <i>sac504</i>, and <i>sac506</i>, which are additional alleles of <i>RPL10A</i> and the uORFs of <i>SAC51</i> family members, <i>SACL1</i> and <i>SACL3</i>, respectively. To investigate whether <i>acl5</i>-suppressor alleles of ribosomal genes broadly affect translation of uORF-containing mRNAs, we examined GUS activity in several 5’-GUS fusion constructs. Our results showed that these alleles enhanced GUS activity in <i>SAC51</i> and <i>SACL3</i> 5’-fusion constructs but had no effect on other 5’-fusion constructs unrelated to thermospermine response. This suggests that these ribosomal proteins are specifically involved in the thermospermine-mediated regulation of mRNA translation.
DOI: 10.6084/m9.figshare.30384285
title: Spatial metabolomics as a new avenue in plant developmental biology: insights into serine biosynthesis during spermatogenesis in <i><b>Marchantia polymorpha</b></i>

description: Plant development is a complex process governed by genetic regulatory networks in which metabolites play essential roles by modulating gene expression and cellular processes. While the functional importance of metabolites in plant development is increasingly recognized, their precise spatial and temporal accumulation patterns, which are closely tied to their mechanistic roles, remain poorly understood. This study highlights the need for high-resolution analyses finely tuned to specific developmental processes within the framework of plant developmental metabolomics. Using a <i>Marchantia polymorpha</i> mutant lacking 3-phosphoglycerate dehydrogenase (PGDH), an essential enzyme in serine biosynthesis and sperm formation, we demonstrated the importance of spatiotemporal metabolomics analysis. Conventional whole-organ metabolomics analysis failed to capture the difference between wild-type and mutant plants. Despite its limited resolution, however, spatial metabolomics analysis detected local metabolic changes caused by the mutation. Our results highlight the necessity of focusing on local metabolic alterations to better understand the influence of metabolism on plant development. This study illustrated how high-resolution spatial metabolomics analysis can provide new insights into the metabolic processes underlying plant development. Our findings highlight the need to refine metabolomics tools to better capture the spatial and temporal dynamics of metabolism during plant development, with broad implications for plant biology.
DOI: 10.6084/m9.figshare.30384285.v1
title: Spatial metabolomics as a new avenue in plant developmental biology: insights into serine biosynthesis during spermatogenesis in <i><b>Marchantia polymorpha</b></i>

description: Plant development is a complex process governed by genetic regulatory networks in which metabolites play essential roles by modulating gene expression and cellular processes. While the functional importance of metabolites in plant development is increasingly recognized, their precise spatial and temporal accumulation patterns, which are closely tied to their mechanistic roles, remain poorly understood. This study highlights the need for high-resolution analyses finely tuned to specific developmental processes within the framework of plant developmental metabolomics. Using a <i>Marchantia polymorpha</i> mutant lacking 3-phosphoglycerate dehydrogenase (PGDH), an essential enzyme in serine biosynthesis and sperm formation, we demonstrated the importance of spatiotemporal metabolomics analysis. Conventional whole-organ metabolomics analysis failed to capture the difference between wild-type and mutant plants. Despite its limited resolution, however, spatial metabolomics analysis detected local metabolic changes caused by the mutation. Our results highlight the necessity of focusing on local metabolic alterations to better understand the influence of metabolism on plant development. This study illustrated how high-resolution spatial metabolomics analysis can provide new insights into the metabolic processes underlying plant development. Our findings highlight the need to refine metabolomics tools to better capture the spatial and temporal dynamics of metabolism during plant development, with broad implications for plant biology.
DOI: 10.3535/wj9-t96-t96
title: Gonepteryx rhamni (Linnaeus, 1758)

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.6084/m9.figshare.29605420
title: Analysis of plant gene family heat shock protein 100 (HSP100) and its orthologs in Eukarya reveals sites of divergent evolution and insights into endosymbiotic origins of chloroplasts

description: Heat shock protein 100s (HSP100s) is present in bacteria, basal eukaryotes, plants, and fungi, but not in metazoans. While this protein family has been extensively studied in plants in terms of structure and functionality, this research addresses a gap in knowledge about their evolution and origins in eukaryotic groups. Protein sequences were aligned, and phylogenetic relationships were inferred. Amino acid substitution model testing was performed using ProtTest. These results recovered six homologues of plant HSP100s, consistent with previous literature, and also two major lineages of fungal HSP100s. At least one of these two fungal homologues of HSP100 are present in all basal eukaryotic groups studied, indicating their origins at the base of the eukaryotic phylogeny. HSP100 homologs are also present in choanoflagellates (earliest diverging animal lineage), indicating they were later secondarily lost in all other metazoans. Plants have additional 3 copies of HSP100s, obtained from a cyanobacterial ancestor that was the endosymbiotic precursor to the chloroplast. Finally, several groups within the Heterokonts are of particular interest due to serial plastid endosymbiosis, resulting in the presence of some but not all HSP100 proteins in these lineages. This study reveals the complex evolutionary history of this important molecular chaperone protein family.
DOI: 10.6084/m9.figshare.29605420.v1
title: Analysis of plant gene family heat shock protein 100 (HSP100) and its orthologs in Eukarya reveals sites of divergent evolution and insights into endosymbiotic origins of chloroplasts

description: Heat shock protein 100s (HSP100s) is present in bacteria, basal eukaryotes, plants, and fungi, but not in metazoans. While this protein family has been extensively studied in plants in terms of structure and functionality, this research addresses a gap in knowledge about their evolution and origins in eukaryotic groups. Protein sequences were aligned, and phylogenetic relationships were inferred. Amino acid substitution model testing was performed using ProtTest. These results recovered six homologues of plant HSP100s, consistent with previous literature, and also two major lineages of fungal HSP100s. At least one of these two fungal homologues of HSP100 are present in all basal eukaryotic groups studied, indicating their origins at the base of the eukaryotic phylogeny. HSP100 homologs are also present in choanoflagellates (earliest diverging animal lineage), indicating they were later secondarily lost in all other metazoans. Plants have additional 3 copies of HSP100s, obtained from a cyanobacterial ancestor that was the endosymbiotic precursor to the chloroplast. Finally, several groups within the Heterokonts are of particular interest due to serial plastid endosymbiosis, resulting in the presence of some but not all HSP100 proteins in these lineages. This study reveals the complex evolutionary history of this important molecular chaperone protein family.
DOI: 10.3535/994-7t5-hjd
title: Archiearis Hübner, [1823]

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/e3s-hne-ptk
title: Catoptria falsella [Denis & Schiffermüller], 1775

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.6084/m9.figshare.28114356
title: Highly expressed cell wall genes contribute to robustness of sepal size

description: Reproducibility in organ size and shape is a fascinating trait of living organisms. The mechanisms underlying such robustness remain, however, to be elucidated. Taking the sepal of Arabidopsis as a model, we investigated whether variability of gene expression plays a role in variation of organ size and shape. Previous work from our team identified cell-wall related genes as being enriched among the genes whose expression is highly variable. We then hypothesized that the variation of measured morphological parameters in cell-wall related single knockout mutants could be correlated with the variation in gene expression of the corresponding gene (the knocked-out gene) in wild-type plants. We analyzed sepal size and shape from 16 cell-wall mutants and found that sepal size variability correlates positively, not with gene expression variation, but with mean gene expression of the corresponding gene in wild type. These findings support a contribution of cell-wall related genes to the robustness of sepal size.
DOI: 10.6084/m9.figshare.28114356.v1
title: Highly expressed cell wall genes contribute to robustness of sepal size

description: Reproducibility in organ size and shape is a fascinating trait of living organisms. The mechanisms underlying such robustness remain, however, to be elucidated. Taking the sepal of Arabidopsis as a model, we investigated whether variability of gene expression plays a role in variation of organ size and shape. Previous work from our team identified cell-wall related genes as being enriched among the genes whose expression is highly variable. We then hypothesized that the variation of measured morphological parameters in cell-wall related single knockout mutants could be correlated with the variation in gene expression of the corresponding gene (the knocked-out gene) in wild-type plants. We analyzed sepal size and shape from 16 cell-wall mutants and found that sepal size variability correlates positively, not with gene expression variation, but with mean gene expression of the corresponding gene in wild type. These findings support a contribution of cell-wall related genes to the robustness of sepal size.
DOI: 10.6084/m9.figshare.29487901.v1
title: Cloning and functional analysis of transcription factor <i>AaCMB1</i> on carotenoid accumulation in spathe of <i>Anthurium andraeanum</i>

description: <i>Anthurium andraeanum</i> Linden, a flowering foliage plant belonging to the Araceae family, exhibits colorful spathes but lacks deep yellow cultivars. The carotenoid metabolic pathway is crucial for the accumulation of yellow pigments (e.g. lutein) in plant cells, with transcriptional regulation playing a key role in this process. Among these regulators, the MADS-box family represents one of the major transcription factor families involved in this regulatory network. To investigate the regulatory role of MADS-box family transcription factors in carotenoid metabolism in <i>Anthurium</i> spathes, a MADS-box gene from the light yellow spathe cultivar ‘Vanilla’ was cloned and designated as <i>AaCMB1</i>. Subcellular localization analysis revealed that AaCMB1 is localized in the nucleus. Transient overexpression of <i>AaCMB1</i> increased carotenoid accumulation in <i>Anthurium</i> spathes, and quantitative real-time polymerase chain reaction (qRT-PCR) analysis showed that overexpression of <i>AaCMB1</i> upregulated the expression of key structural genes in the carotenoid biosynthetic pathway. Yeast two-hybrid and bimolecular fluorescence complementation (BiFC) assays demonstrated that AaCMB1 interacts with AaNAC1574. Yeast one-hybrid and dual-luciferase reporter assays further indicated that AaCMB1 can activate the <i>AaLCYB</i> promoter. These findings suggest that AaCMB1 and AaNAC1574 may form a heterodimer to regulate the expression of <i>AaLCYB</i>, thereby modulating carotenoid accumulation in <i>Anthurium</i> spathes.
DOI: 10.3535/dr2-l2x-88h
title: Ipimorpha retusa (Linnaeus, 1761)

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/en1-jjc-jan
title: Lithophane (Lithophane) consocia Borkhausen, 1792

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/1zn-rjy-tcc
title: Furcula furcula (Clerck, 1759)

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.6084/m9.figshare.30489610
title: Characterization of wound-induced electrical signals and reactive oxygen species in chickpea <i>(Cicer arietinum)</i>

description: Mechanical damage to plants triggers both localized and systemic responses that activate plant defense mechanisms. Early signaling events include calcium (Ca<sup>2+</sup>) flux, reactive oxygen species (ROS), and electrical alterations. These signals coordinate downstream defense pathways, enabling plant acclimation to biotic stress. Electrical signaling following wounding/herbivory has been extensively studied in <i>Arabidopsis</i>; however, its dynamics in crop plants such as chickpea (<i>Cicer arietinum</i>) are not well understood. The pattern of the SWP in chickpea was similar to that in <i>Arabidopsis</i> but with a longer repolarization phase and was detectable only within the leaflets. The signals generated by damaging the leaflet were more pronounced, propagated bidirectionally and varied between herbivore-susceptible and tolerant chickpea varieties. The SWP duration is correlated with increased expression of <i>AOS</i> and <i>OPR3</i> transcripts, which are markers of the stress hormone JA. Additionally, ROS production in wounded chickpea leaflets is associated with increased expression of ROS-generating genes. The use of DPI, an inhibitor of NADPH oxidase, which is responsible for ROS production, inhibited SWP, suggesting the crucial role of ROS in wound-induced SWP. This study provides insight into the interplay between wound-induced electrical signaling and ROS production in chickpea and proposes the measurement of electrical signals as a rapid, noninvasive approach for screening crop cultivars for pest susceptibility and tolerance. Electrical signaling in chickpea follows the SWP pattern in response to wounding.SWPs propagate bidirectionally with amplitude and propagation dependent on wound intensity.SWP duration varies between herbivore-susceptible and -tolerant chickpea varieties.Wounding triggers localized ROS accumulation in chickpea leaflets.DPI attenuated SWP duration, highlighting the interdependence of ROS and electrical signaling. Electrical signaling in chickpea follows the SWP pattern in response to wounding. SWPs propagate bidirectionally with amplitude and propagation dependent on wound intensity. SWP duration varies between herbivore-susceptible and -tolerant chickpea varieties. Wounding triggers localized ROS accumulation in chickpea leaflets. DPI attenuated SWP duration, highlighting the interdependence of ROS and electrical signaling.