Special Issue: “Bioinformatics and Omics Tools”

Vitorino, Rui

doi:10.3390/ijms241411625

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IJMS

2023

DOI: 10.3390/ijms241411625

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Special Issue: “Bioinformatics and Omics Tools”

Rui Vitorino

Abstract: With the rapid introduction of high-throughput omics approaches such as genomics, transcriptomics, proteomics and metabolomics, the generation of large amounts of data has become a fundamental aspect of modern biological research [...]

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2024

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BioProtIS: Streamlining protein-ligand interaction pipeline for analysis in genomic and transcriptomic exploration

Virgens,

Oliveira,

Cardoso

et al. 2024

Journal of Molecular Graphics and Modelling

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BioProtIS: Streamlining protein-ligand interaction pipeline for analysis in genomic and transcriptomic exploration

Virgens,

Oliveira,

Cardoso

et al. 2024

Journal of Molecular Graphics and Modelling

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A high-quality chromosome-level genome assembly of the endangered tree Kmeria septentrionalis

Shi,

Qin,

Qin

et al. 2024

Sci Data

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Kmeria septentrionalis is a critically endangered tree endemic to Guangxi, China, and is listed on the International Union for Conservation of Nature’s Red List. The lack of genetic information and high-quality genome data has hindered conservation efforts and studies on this species. In this study, we present a chromosome-level genome assembly of K. septentrionalis. The genome was initially assembled to be 2.57 Gb, with a contig N50 of 11.93 Mb. Hi-C guided genome assembly allowed us to anchor 98.83% of the total length of the initial contigs onto 19 pseudochromosomes, resulting in a scaffold N50 of 135.08 Mb. The final chromosome-level genome, spaning 2.54 Gb, achieved a BUSCO completeness of 98.9% and contained 1.67 Gb repetitive elements and 35,927 coding genes. This high-quality genome assembly provides a valuable resource for understanding the genetic basis of conservation-related traits and biological properties of this endangered tree species. Furthermore, it lays a critical foundation for evolutionary studies within the Magnoliaceae family.

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Special Issue: “Bioinformatics and Omics Tools”

Abstract: With the rapid introduction of high-throughput omics approaches such as genomics, transcriptomics, proteomics and metabolomics, the generation of large amounts of data has become a fundamental aspect of modern biological research [...]

Cited by 2 publications

References 5 publications

BioProtIS: Streamlining protein-ligand interaction pipeline for analysis in genomic and transcriptomic exploration

BioProtIS: Streamlining protein-ligand interaction pipeline for analysis in genomic and transcriptomic exploration

A high-quality chromosome-level genome assembly of the endangered tree Kmeria septentrionalis

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