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Synthetic Biology to Engineer Bacteriophage Genomes
Recent advances in the synthetic biology field have enabled the development of new molecular biology techniques used to build specialized...
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Cancer Genomes
Each cancer genome reflects the unique genetic history of an evolving cell population. The genomes of a multitude of cancers have now been described...
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Oligonucleotide usage in coronavirus genomes mimics that in exon regions in host genomes
BackgroundViruses use various host factors for their growth, and efficient growth requires efficient use of these factors. Our previous study...
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Characterization of metagenome-assembled genomes from the International Space Station
BackgroundSeveral investigations on the microbial diversity and functional properties of the International Space Station (ISS) environment were...
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RFGR: Repeat Finder for Complete and Assembled Whole Genomes and NGS Reads
Repetitive DNA sequences cause genomic instability and are important genetic markers. Identification of repeats is a critical step in genome...
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Genomes of multicellular algal sisters to land plants illuminate signaling network evolution
Zygnematophyceae are the algal sisters of land plants. Here we sequenced four genomes of filamentous Zygnematophyceae, including chromosome-scale...
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Automated classification of giant virus genomes using a random forest model built on trademark protein families
Viruses of the phylum Nucleocytoviricota , often referred to as “giant viruses,” are prevalent in various environments around the globe and play...
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Most large structural variants in cancer genomes can be detected without long reads
Short-read sequencing is the workhorse of cancer genomics yet is thought to miss many structural variants (SVs), particularly large chromosomal...
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Comparing genomes recovered from time-series metagenomes using long- and short-read sequencing technologies
BackgroundOver the past years, sequencing technologies have expanded our ability to examine novel microbial metabolisms and diversity previously...
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Imputation of low-coverage sequencing data from 150,119 UK Biobank genomes
The release of 150,119 UK Biobank sequences represents an unprecedented opportunity as a reference panel to impute low-coverage whole-genome...
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Near-gapless and haplotype-resolved apple genomes provide insights into the genetic basis of rootstock-induced dwarfing
Dwarfing rootstocks have transformed the production of cultivated apples; however, the genetic basis of rootstock-induced dwarfing remains largely...
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Comparative Analysis of Complete Mitochondrial Genomes of Five Chromodorididae Species (Nudibranchia:Doridina)
Mitochondrial genome is an important molecular marker for exploring the phylogenetic relationships of species and revealing molecular evolution. In...
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Tomato golden net virus and tomato yellow net virus: two novel New World begomoviruses with monopartite genomes
Two novel tomato-infecting begomoviruses were discovered via high-throughput sequencing in Brazil. Both viruses were also Sanger-sequenced and...
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Identification of the protein coding capability of coronavirus defective viral genomes by mass spectrometry
During coronavirus infection, in addition to the well-known coronavirus genomes and subgenomic mRNAs, an abundance of defective viral genomes (DVGs)...
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Characterization of the complete mitochondrial genomes of five hard ticks and phylogenetic implications
Ticks are blood-sucking ectoparasites with significant medical and veterinary importance, capable of transmitting bacteria, protozoa, fungi, and...
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The POU-HD TFs impede the replication efficiency of several human papillomavirus genomes
Human papillomavirus (HPV) is a double-stranded DNA virus that infects cutaneous and mucosal epithelial cells. HPV replication initiates at the...
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Analysis of 10,478 cancer genomes identifies candidate driver genes and opportunities for precision oncology
Tumor genomic profiling is increasingly seen as a prerequisite to guide the treatment of patients with cancer. To explore the value of whole-genome...
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The sha** of cancer genomes with the regional impact of mutation processes
Mutation signature analysis has been used to infer the contributions of various DNA mutagenic-repair events in individual cancer genomes. Here, we...
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Draft genomes of Blastocystis subtypes from human samples of Colombia
BackgroundBlastocystis is one of the most common eukaryotic microorganisms colonizing the intestines of both humans and animals, but the conditions...
