Unlocking the microbial studies through computational approaches: how far have we reached?

R Kumar, G Yadav, M Kuddus, GM Ashraf… - … Science and Pollution …, 2023 - Springer
The metagenomics approach accelerated the study of genetic information from uncultured
microbes and complex microbial communities. In silico research also facilitated an …

Ancient chicken remains reveal the origins of virulence in Marek's disease virus

SR Fiddaman, EA Dimopoulos, O Lebrasseur… - Science, 2023 - science.org
The pronounced growth in livestock populations since the 1950s has altered the
epidemiological and evolutionary trajectory of their associated pathogens. For example …

euka: Robust tetrapodic and arthropodic taxa detection from modern and ancient environmental DNA using pangenomic reference graphs

NA Vogel, JD Rubin, M Swartz… - Methods in Ecology …, 2023 - Wiley Online Library
Ancient environmental DNA (aeDNA) is a crucial source of information for past
environmental reconstruction. However, the computational analysis of aeDNA involves the …

MegIS: High-Performance, Energy-Efficient, and Low-Cost Metagenomic Analysis with In-Storage Processing

NM Ghiasi, M Sadrosadati, H Mustafa… - 2024 ACM/IEEE 51st …, 2024 - ieeexplore.ieee.org
Metagenomics, the study of the genome sequences of diverse organisms in a common
environment, has led to significant advances in many fields. Since the species present in a …

[HTML][HTML] Jellyfish Venom Peptides Targeting Human Potassium Channels Identified through Ligand Screening: Morphometric and Molecular Identification of the …

EAHW Edirisinghe, BN Athukorala, M Perera… - Marine Drugs, 2024 - mdpi.com
The relative lack of marine venom could be attributed to the difficulty in dealing with
venomous marine animals. Moreover, the venom of marine animals consists of various …

Equine herpesvirus 4 infected domestic horses associated with Sintashta spoke-wheeled chariots around 4,000 years ago

O Lebrasseur, KD More, L Orlando - Virus Evolution, 2024 - academic.oup.com
Equine viral outbreaks have disrupted the socio-economic life of past human societies up
until the late 19th century and continue to be of major concern to the horse industry today …

MetaStore: High-Performance Metagenomic Analysis via In-Storage Computing

NM Ghiasi, M Sadrosadati, H Mustafa… - arxiv preprint arxiv …, 2023 - arxiv.org
Metagenomics has led to significant advancements in many fields. Metagenomic analysis
commonly involves the key tasks of determining the species present in a sample and their …

soibean: High-resolution Taxonomic Identification of Ancient Environmental DNA Using Mitochondrial Pangenome Graphs

NA Vogel, JD Rubin, AG Pedersen, PW Sackett… - bioRxiv, 2024 - biorxiv.org
Ancient environmental DNA (aeDNA) is becoming a powerful tool to gain insights about past
ecosystems. However, several methodological challenges remain, particularly for classifying …

Telomere-to-Telomere Genome Assembly Uncovers Wolbachia-Driven Sex-Specific Demography and Challenges Fisher's Principle in a Sawfly

M Zhang, R Zhai, G Niu, J Chen, B Tan, D Wu, G Meng… - bioRxiv, 2024 - biorxiv.org
Wolbachia, a widespread endosymbiotic bacterium, can reshape the evolutionary fates of its
insect hosts by distorting reproduction and altering population dynamics. Despite extensive …

euka: Robust detection of eukaryotic taxa from modern and ancient environmental DNA using pangenomic reference graphs

NA Vogel, JD Rubin, M Swartz, J Vlieghe, PW Sackett… - bioRxiv, 2023 - biorxiv.org
Ancient environmental DNA (eDNA) is a crucial source of in-formation for past
environmental reconstruction. However, the com-putational analysis of ancient eDNA …