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SINE retrotransposons import polyadenylation signals to 3'UTRs in dog (Canis familiaris).
Mob DNA
January 2025
Department of Biology, La Sierra University, Riverside, CA, USA.
Background: Messenger RNA 3' untranslated regions (3'UTRs) control many aspects of gene expression and determine where the transcript will terminate. The polyadenylation signal (PAS) AAUAAA (AATAAA in DNA) is a key regulator of transcript termination and this hexamer, or a similar sequence, is very frequently found within 30 bp of 3'UTR ends. Short interspersed element (SINE) retrotransposons are found throughout genomes in high copy numbers.
View Article and Find Full Text PDFEcological insights into the microbiology of food using metagenomics and its potential surveillance applications.
Microb Genom
January 2025
Quadram Institute Bioscience, Norwich Research Park, Norwich, UK.
A diverse array of micro-organisms can be found on food, including those that are pathogenic or resistant to antimicrobial drugs. Metagenomics involves extracting and sequencing the DNA of all micro-organisms on a sample, and here, we used a combination of culture and culture-independent approaches to investigate the microbial ecology of food to assess the potential application of metagenomics for the microbial surveillance of food. We cultured common foodborne pathogens and other organisms including , spp.
View Article and Find Full Text PDFProfiling lateral gene transfer events in the human microbiome using WAAFLE.
Nat Microbiol
January 2025
Harvard T.H. Chan School of Public Health, Boston, MA, USA.
Lateral gene transfer (LGT), also known as horizontal gene transfer, facilitates genomic diversification in microbial populations. While previous work has surveyed LGT in human-associated microbial isolate genomes, the landscape of LGT arising in personal microbiomes is not well understood, as there are no widely adopted methods to characterize LGT from complex communities. Here we developed, benchmarked and validated a computational algorithm (WAAFLE or Workflow to Annotate Assemblies and Find LGT Events) to profile LGT from assembled metagenomes.
View Article and Find Full Text PDFFirst report of subsp. infecting southern shagbark hickory () in Georgia, USA.
Plant Dis
January 2025
USDA Agricultural Research Service, 9611 S. Riverbend Ave, Parlier, District of Columbia, United States, 93648;
Southern shagbark hickory (Carya carolinae-septentrionalis) is one of several deciduous trees in the family Juglandaceae and genus Carya that are native to North America. Southern shagbark hickory has a restricted distribution to the Southeast U.S.
View Article and Find Full Text PDFControlling and controlled elements: highlights of the year in mobile DNA research.
Mob DNA
December 2024
CNRS, Institute for Research Saint Louis, Université Paris Cité (IRSL), Inserm, Paris, France.
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