The complete mitochondrial genome of <i>Douinia plicata</i> (Lindb.) Konstant. et. Vilnet (Scapaniaceae, Jungermanniales)

Choi, Seung Se; Bakalin, Vadim A.; Kwon, Woochan; Park, Jongsun

doi:10.1080/23802359.2021.1882901

Cited by 4 publications

(2 citation statements)

References 23 publications

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“…The highly diverse family of Scapaniaceae contains 48 taxa in Europe 7 and is an ecologically important group regarding environmental adaptations 8 , the biochemistry of terpenoid natural products and other chemical structures [9][10][11][12] , the metabolism of pollutants and heavy metals 13,14 , and phylogenetics [15][16][17][18] . Generally, there is a considerable lack of described traits in bryophytes 19 and especially in liverworts such as Scapaniaceae, phenotypic traits to assess the diversity of form and function are understudied 20 .…”

Section: Background and Summarymentioning

confidence: 99%

Reference bioimaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

Peters

König‐Ries

2022

Sci Data

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Macro- and microscopic images of organisms are pivotal in biodiversity research. Despite that bioimages have manifold applications such as assessing the diversity of form and function, FAIR bioimaging data in the context of biodiversity are still very scarce, especially for difficult taxonomic groups such as bryophytes. Here, we present a high-quality reference dataset containing macroscopic and bright-field microscopic images documenting various phenotypic characters of the species belonging to the liverwort family of Scapaniaceae occurring in Europe. To encourage data reuse in biodiversity and adjacent research areas, we annotated the imaging data with machine-actionable metadata using community-accepted semantics. Furthermore, raw imaging data are retained and any contextual image processing like multi-focus image fusion and stitching were documented to foster good scientific practices through source tracking and provenance. The information contained in the raw images are also of particular interest for machine learning and image segmentation used in bioinformatics and computational ecology. We expect that this richly annotated reference dataset will encourage future studies to follow our principles.

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Section: Background and Summarymentioning

confidence: 99%

Reference bioimaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

Peters

König‐Ries

2022

Sci Data

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“…The highly diverse family of Scapaniaceae contains 48 taxa in Europe 7 and is an ecologically important group regarding environmental adaptations 8 , the biochemistry of terpenoid natural products and other chemical structures 9–12 , the metabolism of pollutants and heavy metals 13,14 , and phylogenetics 15–18 . Generally, there is a considerable lack of described traits in bryophytes 19 and especially in liverworts such as Scapaniaceae, phenotypic traits to assess the diversity of form and function are understudied 20 .…”

Section: Background and Summarymentioning

confidence: 99%

Reference BioImaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

Peters

König-Ries

2022

Preprint

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Macro- and microscopic images of organisms are pivotal in biodiversity research. Despite that bioimages have manifold applications such as for assessing the diversity of form and function, FAIR bioimaging data in the context of biodiversity are still very scarce, especially for difficult taxonomic groups such as bryophytes. Here, we present a high-quality reference dataset containing macroscopic and bright-field microscopic images documenting various phenotypic attributes of the species belonging to the family of Scapaniaceae occurring in Europe. To encourage data reuse in biodiversity and adjacent research areas, we annotated the imaging data with machine-actionable meta-data using community-accepted semantics. Furthermore, raw imaging data are retained and any contextual image processing like multi-focus image fusion and stitching were documented to foster good scientific practices through source tracking and provenance. The information contained in the raw images are also of particular interest for machine learning and image segmentation used in bioinformatics and computational ecology. We expect that this richly annotated reference dataset will encourage future studies to follow our principles.

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The complete mitochondrial genome of Arabidopsis thaliana (Brassicaceae) isolated in Korea

Park¹,

Xi²,

Kim

2021

Korean J. Pl. Taxon

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Arabidopsis thaliana (L.) Heynh. is a small plant species that serves as a model organism of plant biology and genetics. Here, we present the first complete mitochondrial genome of Korean A. thaliana natural isolate (named as 180404IB4), which is 368,875 bp long and contains 58 genes (33 protein-coding genes, 22 tRNAs, and three rRNAs), with a GC ratio of 44.8%. Sixty-four single-nucleotide polymorphisms and 11 insertion and deletion regions (1,089 bp in length) are identified against the Col-0 ecotype, showing one large insertion of 1,069 bp without structural variation. Phylogenetic trees constructed from 30 conserved genes indicate that the 180404IB4 mitochondrial genome is clustered with Col-0 and three East Asian ecotypes.

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The complete mitochondrial genome of Douinia plicata (Lindb.) Konstant. et. Vilnet (Scapaniaceae, Jungermanniales)

Cited by 4 publications

References 23 publications

Reference bioimaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

Reference bioimaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

Reference BioImaging to assess the phenotypic trait diversity of bryophytes within the family Scapaniaceae

The complete mitochondrial genome of Arabidopsis thaliana (Brassicaceae) isolated in Korea

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